WARNING: PMID '30599920 referencing id but no author overlap' malformed and ignored
WARNING: PMID '29654922 id not listed in paper but many others, title diff' malformed and ignored
WARNING: PMID 'doublecheck supp 29687628' malformed and ignored
ProteomeXchange Datasets
Last refresh: Wed Oct 30 14:00:03 PDT 2024
Articles in PubMed that reference a PXD that has not been announced
PXD055302 (from PRIDE) Dataset title: Possible reference: Moore, M. et al. (2024) ALK1 Signaling in Human Cardiac Progenitor Cells Promotes a Pro-angiogenic Secretome., J Cell Signal, PMID 39430425PXD055284 (from PRIDE) Dataset title: Possible reference: Swati, B. et al. (2024) DSSBU: A novel mass spectrometry-cleavable analogue of the BS3 cross-linker., J Proteomics, PMID 39427986PXD055242 (from PRIDE) Dataset title: Possible reference: Sharma, G. et al. (2024) Meta-Analysis and DIA-MS-Based Proteomic Investigation of COPD Patients and Asymptomatic Smokers in the Indian Population., J Proteome Res, PMID 39436829PXD053169 (from PRIDE) Dataset title: Possible reference: Kolokotronis, T. et al. (2024) Differential miRNA and Protein Expression Reveals miR-1285, Its Targets TGM2 and CDH-1, as Well as CD166 and S100A13 as Potential New Biomarkers in Patients with Diabetes Mellitus and Pancreatic Adenocarcinoma., Cancers (Basel), PMID 39123454PXD052665 (from PRIDE) Dataset title: Possible reference: Torres-Snchez, E. et al. (2024) Proteomic Analysis of the Major Alkali-Soluble Inca Peanut (Plukenetia volubilis) Proteins., Foods, PMID 39456337PXD051468 (from iProX) Dataset title: Possible reference: Weng, L. et al. (2024) Picoliter Single-Cell Reactor for Proteome Profiling by In Situ Cell Lysis, Protein Immobilization, Digestion, and Droplet Transfer., J Proteome Res, PMID 38833655PXD050531 (from PRIDE) Dataset title: Possible reference: Liao, F. et al. (2024) Characterization of the Angiogenic and Proteomic Features of Circulating Exosomes in a Canine Mandibular Model of Distraction Osteogenesis., J Proteome Res, PMID 39417529PXD049334 (from PRIDE) Dataset title: Possible reference: Sierzega, M. et al. (2024) Dissecting the importance and origin of circulating myokines in gastric cancer cachexia., Front Endocrinol (Lausanne), PMID 39411315PXD049248 (from PRIDE) Dataset title: Possible reference: Xie, X. et al. (2024) Multicolumn Nanoflow Liquid Chromatography with Accelerated Offline Gradient Generation for Robust and Sensitive Single-Cell Proteome Profiling., Anal Chem, PMID 38915247PXD044896 (from iProX) Dataset title: Possible reference: Chang, Q. et al. (2024) Comprehensive Urinary Proteome Profiling Analysis Identifies Diagnosis and Relapse Surveillance Biomarkers for Bladder Cancer., J Proteome Res, PMID 38787199PXD043800 (from MassIVE) Dataset title: Possible reference: Abad, P. et al. (2024) Shotgun Characterization of the Circulating IgM Antigenome of an Infectious Pathogen by Immunocapture-LC-MS/MS from Dried Serum Spots., J Proteome Res, PMID 38183416PXD041422 (from PRIDE) Dataset title: Possible reference: Paula, GM. et al. (2024) Profiling the neuroproteomics of honeybee brain: A clue for understanding the role of neuropeptides in the modulation of aggressivity., J Proteomics, PMID 38246419PXD041026 (from MassIVE) Dataset title: Possible reference: Helbing, DL. et al. (2023) Proteomic analysis of peripheral nerve myelin during murine aging., Front Cell Neurosci, PMID 37964793PXD040368 (from iProX) Dataset title: Possible reference: Gong, Z. et al. (2023) Label-free quantitative detection and comparative analysis of lysine acetylation during the different life stages of Eimeria tenella., J Proteome Res, PMID 37562054PXD038173 (from iProX) Dataset title: Possible reference: Xiao, D. et al. (2023) Protein Biomarkers for the Identification of Forensically Relevant Human Hair from Different Body Parts in Intimate Contact Cases., J Proteome Res, PMID 37314855PXD037541 (from iProX) Dataset title: Possible reference: Zhou, J. et al. (2023) Intra-Individual Variation in Disease-Specific IgG Fc Glycoform Ratios to Monitor the Disease Progression of Lung Cancer., J Proteome Res, PMID 36503223PXD037274 (from PRIDE) Dataset title: Possible reference: Wong, TL. et al. (2023) Glycoproteomic Analyses of Influenza A Viruses Using timsTOF Pro MS., J Proteome Res, PMID 36480915PXD034407 (from PanoramaPublic) Dataset title: Possible reference: Husain, AA. et al. (2023) Development of multiple reaction monitoring (MRM) assays to identify Brucella abortus proteins in the serum of humans and livestock., Proteomics Clin Appl, PMID 35925648PXD029768 (from PRIDE) Dataset title: Possible reference: Mirza, MR. et al. (2022) Label-free quantitation of the changes in salivary proteome associated with the chronic consumption of the betel nut (Areca catechu)., Mol Omics, PMID 34851339PXD012244 (from PRIDE) Dataset title: Possible reference: Mulcahy, MJ. et al. (2020) Brain Region-Specific nAChR and Associated Protein Abundance Alterations Following Chronic Nicotine and/or Menthol Exposure., J Proteome Res, PMID 31657575
Summary of results:
20 Datasets of status 'ID requested' with a possible article found
18954 Datasets of status 'ID requested' with no articles found
Announced datasets with no listed publication but with a title that brings up a hit in PubMed
RPXD056882 no publication (from jPOST) Dataset title: An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes [Reanalysis: PXD004452] Possible reference: Bekker-Jensen, DB. et al. (2017) An Optimized Shotgun Strategy for the Rapid Generation of Comprehensive Human Proteomes., Cell Syst, PMID 28601559RPXD055697 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055696 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055695 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055694 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055693 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055692 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055691 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055690 no publication (from jPOST) Dataset title: Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice [Reanalysis: JPST002136] Possible reference: Ohira, T. et al. (2024) Plasminogen deficiency exacerbates skeletal muscle loss during mechanical unloading in developing mice., J Appl Physiol (1985), PMID 38328826RPXD055685 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055684 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055683 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055682 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055681 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055680 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055679 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055678 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055677 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055676 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055675 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD055674 no publication (from jPOST) Dataset title: Identification of gravity-responsive proteins in mouse soleus muscle using proteomic analysis [Reanalysis: JPST002107] Possible reference: Kimura, Y. et al. (2024) Identification of gravity-responsive serum proteins in spaceflight mice using a quantitative proteomic approach with data-independent acquisition mass spectrometry., Proteomics, PMID 38475964RPXD034764 no publication (from jPOST) Dataset title: JPST000090-2 Extended Coverage of Singly and Multiply Phosphorylated Peptides from a Single Titanium Dioxide Microcolumn [Reanalysis: JPST000090] Possible reference: Wakabayashi, M. et al. (2015) Extended Coverage of Singly and Multiply Phosphorylated Peptides from a Single Titanium Dioxide Microcolumn., Anal Chem, PMID 26402220RPXD034763 no publication (from jPOST) Dataset title: JPST000090-1 Extended Coverage of Singly and Multiply Phosphorylated Peptides from a Single Titanium Dioxide Microcolumn [Reanalysis: JPST000090] Possible reference: Wakabayashi, M. et al. (2015) Extended Coverage of Singly and Multiply Phosphorylated Peptides from a Single Titanium Dioxide Microcolumn., Anal Chem, PMID 26402220RPXD034759 no publication (from jPOST) Dataset title: JPST000589-9 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034758 no publication (from jPOST) Dataset title: JPST000589-6 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034757 no publication (from jPOST) Dataset title: JPST000589-3 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034734 no publication (from jPOST) Dataset title: JPST000129-2 Stagetip fractionation for Phosphoproteome [Reanalysis: JPST000129] Possible reference: Nakagami, H. et al. (2014) StageTip-based HAMMOC, an efficient and inexpensive phosphopeptide enrichment method for plant shotgun phosphoproteomics., Methods Mol Biol, PMID 24136549RPXD034726 no publication (from jPOST) Dataset title: JPST000096-4 Beige adipocyte phosphoproteomics [Reanalysis: JPST000096] Possible reference: Shinoda, K. et al. (2015) Phosphoproteomics Identifies CK2 as a Negative Regulator of Beige Adipocyte Thermogenesis and Energy Expenditure., Cell Metab, PMID 26525534RPXD034725 no publication (from jPOST) Dataset title: JPST000096-3 Beige adipocyte phosphoproteomics [Reanalysis: JPST000096] Possible reference: Shinoda, K. et al. (2015) Phosphoproteomics Identifies CK2 as a Negative Regulator of Beige Adipocyte Thermogenesis and Energy Expenditure., Cell Metab, PMID 26525534RPXD034724 no publication (from jPOST) Dataset title: JPST000096-2 Beige adipocyte phosphoproteomics [Reanalysis: JPST000096] Possible reference: Shinoda, K. et al. (2015) Phosphoproteomics Identifies CK2 as a Negative Regulator of Beige Adipocyte Thermogenesis and Energy Expenditure., Cell Metab, PMID 26525534RPXD034723 no publication (from jPOST) Dataset title: JPST000096-1 Beige adipocyte phosphoproteomics [Reanalysis: JPST000096] Possible reference: Shinoda, K. et al. (2015) Phosphoproteomics Identifies CK2 as a Negative Regulator of Beige Adipocyte Thermogenesis and Energy Expenditure., Cell Metab, PMID 26525534RPXD034695 no publication (from jPOST) Dataset title: PXD018357-1 Inhibition of growth factor signaling prevents SARS-CoV-2 replication [Reanalysis: PXD018357] Possible reference: Anderson, G. et al. (2020) Melatonin: Roles in influenza, Covid-19, and other viral infections., Rev Med Virol, PMID 32314850RPXD034692 no publication (from jPOST) Dataset title: PXD019423-1 MS analysis of SARS-CoV2 proteins from patient samples [Reanalysis: PXD019423] Possible reference: Iles, RK. et al. (2022) Direct Detection of Glycated Human Serum Albumin and Hyperglycosylated IgG3 in Serum, by MALDI-ToF Mass Spectrometry, as a Predictor of COVID-19 Severity., Diagnostics (Basel), PMID 36292212RPXD034691 no publication (from jPOST) Dataset title: PXD019645-7 Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing [Reanalysis: PXD019645] Possible reference: Zecha, J. et al. (2020) Data, Reagents, Assays and Merits of Proteomics for SARS-CoV-2 Research and Testing., Mol Cell Proteomics, PMID 32591346RPXD034690 no publication (from jPOST) Dataset title: PXD019645-6 Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing [Reanalysis: PXD019645] Possible reference: Zecha, J. et al. (2020) Data, Reagents, Assays and Merits of Proteomics for SARS-CoV-2 Research and Testing., Mol Cell Proteomics, PMID 32591346RPXD034689 no publication (from jPOST) Dataset title: PXD019645-5 Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing [Reanalysis: PXD019645] Possible reference: Zecha, J. et al. (2020) Data, Reagents, Assays and Merits of Proteomics for SARS-CoV-2 Research and Testing., Mol Cell Proteomics, PMID 32591346RPXD034688 no publication (from jPOST) Dataset title: PXD019645-4 Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing [Reanalysis: PXD019645] Possible reference: Zecha, J. et al. (2020) Data, Reagents, Assays and Merits of Proteomics for SARS-CoV-2 Research and Testing., Mol Cell Proteomics, PMID 32591346RPXD034687 no publication (from jPOST) Dataset title: PXD019645-3 Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing [Reanalysis: PXD019645] Possible reference: Zecha, J. et al. (2020) Data, Reagents, Assays and Merits of Proteomics for SARS-CoV-2 Research and Testing., Mol Cell Proteomics, PMID 32591346RPXD034686 no publication (from jPOST) Dataset title: PXD019645-2 Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing [Reanalysis: PXD019645] Possible reference: Zecha, J. et al. (2020) Data, Reagents, Assays and Merits of Proteomics for SARS-CoV-2 Research and Testing., Mol Cell Proteomics, PMID 32591346RPXD034685 no publication (from jPOST) Dataset title: PXD019645-1 Data, reagents, assays and merits of proteomics for SARS-CoV-2 research and testing [Reanalysis: PXD019645] Possible reference: Zecha, J. et al. (2020) Data, Reagents, Assays and Merits of Proteomics for SARS-CoV-2 Research and Testing., Mol Cell Proteomics, PMID 32591346RPXD034684 no publication (from jPOST) Dataset title: PXD019113-2 The Global Phosphorylation Landscape of SARS-CoV-2 Infection [Reanalysis: PXD019113] Possible reference: Bouhaddou, M. et al. (2020) The Global Phosphorylation Landscape of SARS-CoV-2 Infection., Cell, PMID 32645325RPXD034683 no publication (from jPOST) Dataset title: PXD019113-1 The Global Phosphorylation Landscape of SARS-CoV-2 Infection [Reanalysis: PXD019113] Possible reference: Bouhaddou, M. et al. (2020) The Global Phosphorylation Landscape of SARS-CoV-2 Infection., Cell, PMID 32645325RPXD034671 no publication (from jPOST) Dataset title: JPST000589-10 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034670 no publication (from jPOST) Dataset title: JPST000589-8 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034669 no publication (from jPOST) Dataset title: JPST000589-7 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034668 no publication (from jPOST) Dataset title: JPST000589-5 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034667 no publication (from jPOST) Dataset title: JPST000589-4 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034666 no publication (from jPOST) Dataset title: JPST000589-2 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034665 no publication (from jPOST) Dataset title: JPST000589-1 Mass Spectrometry-compatible Subcellular Fractionation [Reanalysis: JPST000589] Possible reference: Grote, E. et al. (2013) Using pure protein to build a multiple reaction monitoring mass spectrometry assay for targeted detection and quantitation., Methods Mol Biol, PMID 23606259RPXD034664 no publication (from jPOST) Dataset title: JPST000115-1 Identification of ubiquitylation sites by K0-Ub [Reanalysis: JPST000115] Possible reference: Oshikawa, K. et al. (2012) Proteome-wide identification of ubiquitylation sites by conjugation of engineered lysine-less ubiquitin., J Proteome Res, PMID 22053931RPXD034321 no publication (from jPOST) Dataset title: JPST000362 HeLa, Orbitrap Fusion Lumos, Parameter optimization [Reanalysis: JPST000362] Possible reference: Greguš, M. et al. (2024) Improved Data Acquisition Settings on Q Exactive HF-X and Fusion Lumos Tribrid Orbitrap-Based Mass Spectrometers for Proteomic Analysis of Limited Samples., J Proteome Res, PMID 38690845RPXD034300 no publication (from jPOST) Dataset title: JPST000067 PC12, NF1 disease model, iTRAQ analysis [Reanalysis: JPST000067] Possible reference: Hirayama, M. et al. (2013) Integrated proteomics identified novel activation of dynein IC2-GR-COX-1 signaling in neurofibromatosis type I (NF1) disease model cells., Mol Cell Proteomics, PMID 23358504RPXD034291 no publication (from jPOST) Dataset title: JPST000123-5 ATPome-wide selectivity profiling of (s)-crizotinib [Reanalysis: JPST000123] Possible reference: Huber, KV. et al. (2014) Stereospecific targeting of MTH1 by (S)-crizotinib as an anticancer strategy., Nature, PMID 24695225RPXD034290 no publication (from jPOST) Dataset title: JPST000123-4 ATPome-wide selectivity profiling of (s)-crizotinib [Reanalysis: JPST000123] Possible reference: Huber, KV. et al. (2014) Stereospecific targeting of MTH1 by (S)-crizotinib as an anticancer strategy., Nature, PMID 24695225RPXD034288 no publication (from jPOST) Dataset title: JPST000123-2 ATPome-wide selectivity profiling of (s)-crizotinib [Reanalysis: JPST000123] Possible reference: Huber, KV. et al. (2014) Stereospecific targeting of MTH1 by (S)-crizotinib as an anticancer strategy., Nature, PMID 24695225RPXD034287 no publication (from jPOST) Dataset title: JPST000123-1 ATPome-wide selectivity profiling of (s)-crizotinib [Reanalysis: JPST000123] Possible reference: Huber, KV. et al. (2014) Stereospecific targeting of MTH1 by (S)-crizotinib as an anticancer strategy., Nature, PMID 24695225PXD057369 no publication (from MassIVE) Dataset title: Development of subunit-selective proteasome substrates for Schistosoma species by MSP-MS Possible reference: Jiang, Z. et al. (2024) Development of subunit selective proteasome substrates for Schistosoma species., bioRxiv, PMID 38405969PXD056793 Wen, Bo, Chris Hsu, Wen-Feng Zeng, Michael Riffle, Alexis Chang, Miranda Mudge, Brook L. Nunn, et al. “Carafe Enables High Quality in Silico Spectral Library Generation for Data-Independent Acquisition Proteomics.” bioRxiv, 2024.10.15.618504. (from PanoramaPublic) Dataset title: Carafe enables high quality in silico spectral library generation for data-independent acquisition proteomics Possible reference: Wen, B. et al. (2024) Carafe enables high quality in silico spectral library generation for data-independent acquisition proteomics., bioRxiv, PMID 39463980PXD056640 Dataset with its publication pending (from iProX) Dataset title: Chemical proteomic profiling of protein N-homocysteinylation with a thioester probe Possible reference: Chen, N. et al. (2018) Chemical proteomic profiling of protein N-homocysteinylation with a thioester probe., Chem Sci, PMID 29732068PXD056639 Dataset with its publication pending (from iProX) Dataset title: Chemoproteomic profiling reveals the mechanism of bile acid tolerance in pathogens Possible reference: Liu, B. et al. (2022) Chemoproteomic Profiling Reveals the Mechanism of Bile Acid Tolerance in Bacteria., ACS Chem Biol, PMID 36049085PXD056632 Dataset with its publication pending (from iProX) Dataset title: Quantitative profiling of STOichiometry by Resolvable Mass tags Possible reference: Chen, Y. et al. (2022) Quantitative profiling of PTM stoichiometry by resolvable mass tags., RSC Chem Biol, PMID 36349223PXD056631 Dataset with its publication pending (from iProX) Dataset title: Decoding the Femoral and Tibial Entheses of the Human Anterior Cruciate Ligament Possible reference: Fang, J. et al. (2024) Decoding the mechanical characteristics of the human anterior cruciate ligament entheses through graduated mineralization interfaces., Nat Commun, PMID 39462005PXD056593 Dataset with its publication pending (from iProX) Dataset title: Identification of ANXA1 as A Novel Upstream Negative Regulator of Notch1 Function in AML Possible reference: Shao, G. et al. (2024) Identification of ANXA1 as a Novel Upstream Negative Regulator of Notch1 Function in AML., Adv Sci (Weinh), PMID 39447086PXD056584 Dataset with its publication pending (from iProX) Dataset title: Lymphatic platelet thrombosis limits bone repair by precluding lymphatic transporting DAMPs Possible reference: Wang, YJ. et al. (2023) Lymphatic platelet thrombosis limits bone repair by precluding lymphatic transporting DAMPs., Res Sq, PMID 38014223PXD056408 Dataset with its publication pending (from jPOST) Dataset title: FMRP immunoprecipitation using human HEK293T cells Possible reference: Ma, Y. et al. (2016) CMP‑N‑acetylneuraminic acid synthetase interacts with fragile X related protein 1., Mol Med Rep, PMID 27357083PXD056402 no publication (from MassIVE) Dataset title: Post-transcriptional regulation of Dufours gland reproductive signals in bumble bees Possible reference: Derstine, N. et al. (2024) Post-transcriptional regulation of Dufour's gland reproductive signals in bumble bees., BMC Genomics, PMID 39420273PXD056399 Dataset with its publication pending (from PRIDE) Dataset title: Structural variation of types IV-A1- and IV-A3-mediated CRISPR interference Possible reference: Čepaitė, R. et al. (2024) Structural variation of types IV-A1- and IV-A3-mediated CRISPR interference., Nat Commun, PMID 39468082PXD056205 no publication (from MassIVE) Dataset title: Benchmarking Peptide Spectral Library Search Dataset Possible reference: Guthals, A. et al. (2015) The generating function approach for Peptide identification in spectral networks., J Comput Biol, PMID 25423621PXD056184 Dataset with its publication pending (from PRIDE) Dataset title: Validation of potential growth-related proteins in chick vitreous during emmetropization using targeted-based proteomics (MRMHR) Possible reference: Cheung, JK. et al. (2024) Identification of Potential Growth-Related Proteins in Chick Vitreous during Emmetropization Using SWATH-MS and Targeted-Based Proteomics (MRMHR)., Int J Mol Sci, PMID 39408973PXD056178 no publication (from MassIVE) Dataset title: Unveiling signaling pathways inducing MHC class II expression in neutrophils Possible reference: Forrer, P. et al. (2024) Unveiling signaling pathways inducing MHC class II expression in neutrophils., Front Immunol, PMID 39403371PXD056139 Dataset with its publication pending (from iProX) Dataset title: Acetylated 4D-Label-free quantitative proteomics Possible reference: Wu, S. et al. (2022) Protective Mechanism of Leucine and Isoleucine against H2O2-Induced Oxidative Damage in Bovine Mammary Epithelial Cells., Oxid Med Cell Longev, PMID 35360198PXD056138 Dataset with its publication pending (from iProX) Dataset title: EBPR full cycle Ca. Accuulibacter SCUT-4 Possible reference: Law, Y. et al. (2016) Integrative microbial community analysis reveals full-scale enhanced biological phosphorus removal under tropical conditions., Sci Rep, PMID 27193869PXD056117 Dataset with its publication pending (from iProX) Dataset title: Selenium Supplementation Elevated SELENBP1 to Inhibit Fibroblast Activation in Pulmonary Arterial Hypertension Possible reference: Liang, B. et al. (2024) Selenium supplementation elevated SELENBP1 to inhibit fibroblast activation in pulmonary arterial hypertension., iScience, PMID 39435142PXD056097 Dataset with its publication pending (from PRIDE) Dataset title: Validation of potential growth-related proteins in chick vitreous during emmetropization using targeted-based proteomics (MRMHR) Possible reference: Cheung, JK. et al. (2024) Identification of Potential Growth-Related Proteins in Chick Vitreous during Emmetropization Using SWATH-MS and Targeted-Based Proteomics (MRMHR)., Int J Mol Sci, PMID 39408973PXD055943 Dataset with its publication pending (from PRIDE) Dataset title: Combining quantitative proteomics and interactomics for a deeper insight into molecular differences between human cell lines Possible reference: Bakhtina, AA. et al. (2024) Combining quantitative proteomics and interactomics for a deeper insight into molecular differences between human cell lines., bioRxiv, PMID 38915502PXD055937 Dataset with its publication pending (from PRIDE) Dataset title: USP7 protects TFEB from proteasome-mediated degradation Possible reference: Keshri, S. et al. (2024) USP7 protects TFEB from proteasome-mediated degradation., Cell Rep, PMID 39412987PXD055797 Dataset with its publication pending (from iProX) Dataset title: Metabolic regulation of cytoskeleton functions by HDAC6-catalyzed α-tubulin lactylation Possible reference: Sun, S. et al. (2024) Metabolic regulation of cytoskeleton functions by HDAC6-catalyzed α-tubulin lactylation., Nat Commun, PMID 39333081PXD055773 Dataset with its publication pending (from jPOST) Dataset title: Characterization of long-term IL-33 administration as an animal model of pulmonary arterial hypertension Possible reference: Ikutani, M. et al. (2024) Characterization of long-term interleukin-33 administration as an animal model of pulmonary arterial hypertension., Biochem Biophys Res Commun, PMID 39348792PXD055738 Dataset with its publication pending (from PRIDE) Dataset title: Ckmt2 for Evaluating Reperfusion Injury in Acute Myocardial Infarction Possible reference: Lang, A. et al. (2024) Mitochondrial Creatine Kinase 2 (Ckmt2) as a Plasma-Based Biomarker for Evaluating Reperfusion Injury in Acute Myocardial Infarction., Biomedicines, PMID 39457679PXD055723 Dataset with its publication pending (from iProX) Dataset title: LC-MS/MS-based metabolomics and proteomics reveal the intervention of Kangnian Decoction on the postoperative intestinal adhesion of rats Possible reference: Jin, L. et al. (2024) LC-MS/MS-based metabolomics and proteomics reveal the intervention of Kangnian decoction on the postoperative intestinal adhesion of rats., Front Pharmacol, PMID 39351093PXD055608 Dataset with its publication pending (from iProX) Dataset title: AtPRMT3-RPS2B promotes ribosome biogenesis and coordinates growth and cold adaptation trade-off _PDCD2-IP-MS Possible reference: Wang, Z. et al. (2024) AtPRMT3-RPS2B promotes ribosome biogenesis and coordinates growth and cold adaptation trade-off., Nat Commun, PMID 39375381PXD055592 Dataset with its publication pending (from PRIDE) Dataset title: Parallel genome-scale CRISPR-Cas9 screens uncouple human pluripotent stem cell identity versus fitness Possible reference: Rosen, BP. et al. (2024) Parallel genome-scale CRISPR-Cas9 screens uncouple human pluripotent stem cell identity versus fitness., bioRxiv, PMID 37205540PXD055498 Dataset with its publication pending (from iProX) Dataset title: The subcortical maternal complex modulates the cell cycle during early mammalian embryogenesis via 14-3-3 Possible reference: Han, Z. et al. (2024) The subcortical maternal complex modulates the cell cycle during early mammalian embryogenesis via 14-3-3., Nat Commun, PMID 39406751PXD055440 Dataset with its publication pending (from iProX) Dataset title: The p-MYH9/USP22/HIF-1α axis promotes lenvatinib resistance and cancer stemness in hepatocellular carcinoma Possible reference: Shan, Q. et al. (2024) The p-MYH9/USP22/HIF-1α axis promotes lenvatinib resistance and cancer stemness in hepatocellular carcinoma., Signal Transduct Target Ther, PMID 39300073PXD055438 Dataset with its publication pending (from iProX) Dataset title: phosphorylation site of ATG101 Possible reference: Nagy, P. et al. (2014) Atg17/FIP200 localizes to perilysosomal Ref(2)P aggregates and promotes autophagy by activation of Atg1 in Drosophila., Autophagy, PMID 24419107PXD055431 Dataset with its publication pending (from iProX) Dataset title: m5C methylome, transcriptome and proteome of sysnechocystis Possible reference: Zuo, S. et al. (2023) NSUN2-mediated m5 C RNA methylation dictates retinoblastoma progression through promoting PFAS mRNA stability and expression., Clin Transl Med, PMID 37228185PXD055428 Dataset with its publication pending (from iProX) Dataset title: DRUSP_A novel method of super-enhanced purification of ubiquitinome Possible reference: Cheng, X. et al. (2024) Super enhanced purification of denatured-refolded ubiquitinated proteins by ThUBD revealed ubiquitinome dysfunction in liver fibrosis., Mol Cell Proteomics, PMID 39362602PXD055420 Dataset with its publication pending (from iProX) Dataset title: Rice leaf folder oral secretion LC-MS/MS Possible reference: Cui, J. et al. (2024) Identification of salivary proteins in the rice leaf folder Cnaphalocrocis medinalis by transcriptome and LC-MS/MS analyses., Insect Biochem Mol Biol, PMID 39393440PXD055262 Dataset with its publication pending (from PRIDE) Dataset title: BTN2A1 Targeting Reprograms M2-like Macrophages and TAMs via SYK and MAPK Signaling Possible reference: Kerneur, C. et al. (2024) BTN2A1 targeting reprograms M2-like macrophages and TAMs via SYK and MAPK signaling., Cell Rep, PMID 39325623PXD055227 Dataset with its publication pending (from PRIDE) Dataset title: Temporal control of acute protein aggregate turnover by UBE3C and NRF1-dependent proteasomal pathways Possible reference: Hickey, KL. et al. (2024) Temporal control of acute protein aggregate turnover by UBE3C and NRF1-dependent proteasomal pathways., bioRxiv, PMID 39282280PXD055219 Dataset with its publication pending (from iProX) Dataset title: Epigenetic reader ZMYND11 noncanonical function restricts HNRNPA1-mediated stress granule formation and oncogenic activity. Possible reference: Lian, C. et al. (2024) Epigenetic reader ZMYND11 noncanonical function restricts HNRNPA1-mediated stress granule formation and oncogenic activity., Signal Transduct Target Ther, PMID 39341825PXD055082 no publication (from MassIVE) Dataset title: mRNA psi profiling using nanopore DRS reveals cell type-specific pseudouridylation Possible reference: McCormick, CA. et al. (2024) mRNA psi profiling using nanopore DRS reveals cell type-specific pseudouridylation., bioRxiv, PMID 38766185PXD055025 Dataset with its publication pending (from iProX) Dataset title: Proteomic Analysis Reveals Differential Protein Expression in Early-Onset Preeclampsia Patients Possible reference: Li, H. et al. (2015) Differential Proteomic Analysis of Syncytiotrophoblast Extracellular Vesicles from Early-Onset Severe Preeclampsia, using 8-Plex iTRAQ Labeling Coupled with 2D Nano LC-MS/MS., Cell Physiol Biochem, PMID 26113202PXD055020 Dataset with its publication pending (from iProX) Dataset title: ER-associated degradation ligase HRD1 links ER stress to DNA damage repair by modulating the activity of DNA-PKcs Possible reference: Xiang, Z. et al. (2024) ER-associated degradation ligase HRD1 links ER stress to DNA damage repair by modulating the activity of DNA-PKcs., Proc Natl Acad Sci U S A, PMID 39226359PXD055014 Dataset with its publication pending (from iProX) Dataset title: Sortilin-mediated translocation of mitochondrial ACSL1 impairs adipocyte thermogenesis and energy expenditure in male mice Possible reference: Yang, M. et al. (2024) Sortilin-mediated translocation of mitochondrial ACSL1 impairs adipocyte thermogenesis and energy expenditure in male mice., Nat Commun, PMID 39232011PXD055003 Dataset with its publication pending (from PRIDE) Dataset title: Human Papillomavirus-encoded Circular RNA circE7 Promotes Immune Evasion in Head and Neck Squamous Cell Carcinoma Possible reference: Ge, J. et al. (2024) Human papillomavirus-encoded circular RNA circE7 promotes immune evasion in head and neck squamous cell carcinoma., Nat Commun, PMID 39366979PXD054976 no publication (from MassIVE) Dataset title: Biofunctionalized dissolvable hydrogel microbeads enable efficient characterization of native protein complexes Possible reference: Shao, X. et al. (2024) Biofunctionalized dissolvable hydrogel microbeads enable efficient characterization of native protein complexes., Nat Commun, PMID 39366952PXD054942 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis revealed gender-related differences in the skin mucus proteome of discus fish (Symphysodon haraldi) during the parental and non-parental care periods Possible reference: Zhao, SC. et al. (2024) Proteomic analysis revealed gender-related differences in the skin mucus proteome of discus fish (Symphysodon haraldi) during the parental and non-parental care periods., Comp Biochem Physiol Part D Genomics Proteomics, PMID 39208613PXD054906 Dataset with its publication pending (from iProX) Dataset title: Platelet proteomics reveals mechanism of platelet activation inhibition by AEE Possible reference: Tao, Q. et al. (2024) Multi-Omics Approaches for Liver Reveal the Thromboprophylaxis Mechanism of Aspirin Eugenol Ester in Rat Thrombosis Model., Int J Mol Sci, PMID 38396823PXD054861 Dataset with its publication pending (from PRIDE) Dataset title: Immunological landscape of human lymphoid explants during measles virus infection Possible reference: Acklin, JA. et al. (2024) Immunological landscape of human lymphoid explants during measles virus infection., JCI Insight, PMID 39253971PXD054851 Dataset with its publication pending (from iProX) Dataset title: Quantitative analysis of the antibacterial effect of cinnamaldehyde on Staphylococcus aureus based on TMT protein Possible reference: Chen, X. et al. (2024) TMT-Based Quantitative Proteomics Revealed the Antibacterial Mechanism of Cinnamaldehyde against MRSA., J Proteome Res, PMID 39269200PXD054846 Dataset with its publication pending (from iProX) Dataset title: gp78-regulated KAP1 phosphorylation induces radioresistance in breast cancer by facilitating PPP1CC/PPP2CA ubiquitination Possible reference: Han, Y. et al. (2024) gp78-regulated KAP1 phosphorylation induces radioresistance in breast cancer by facilitating PPP1CC/PPP2CA ubiquitination., iScience, PMID 39297166PXD054844 Dataset with its publication pending (from jPOST) Dataset title: LETMD1 regulates mitochondrial protein synthesis and import to guard brown fat mitochondrial integrity and function Possible reference: Snyder, M. et al. (2024) LETMD1 regulates mitochondrial protein synthesis and import to guard brown fat mitochondrial integrity and function., iScience, PMID 39398236PXD054805 Dataset with its publication pending (from PRIDE) Dataset title: The p-MYH9/USP22/HIF-1α axis promotes lenvatinib resistance and cancer stemness in hepatocellular carcinoma Possible reference: Shan, Q. et al. (2024) The p-MYH9/USP22/HIF-1α axis promotes lenvatinib resistance and cancer stemness in hepatocellular carcinoma., Signal Transduct Target Ther, PMID 39300073PXD054769 no publication (from MassIVE) Dataset title: Scnn1b transgenic mice: BALF exosome proteomics Possible reference: Mao, Y. et al. (2024) Airspaces-derived exosomes contain disease-relevant protein signatures in a mouse model of cystic fibrosis (CF)-like mucoinflammatory lung disease., Front Pharmacol, PMID 39386033PXD054751 Dataset with its publication pending (from PRIDE) Dataset title: Structuring lipid nanoparticles, DNA, and protein corona into stealth bionanoarchitectures for in vivo gene delivery Possible reference: Renzi, S. et al. (2024) Structuring lipid nanoparticles, DNA, and protein corona into stealth bionanoarchitectures for in vivo gene delivery., Nat Commun, PMID 39438484PXD054724 no publication (from MassIVE) Dataset title: In vivo and in vitro analysis of the role of the Prc protease in inducing mucoidy in Pseudomonas aeruginosa Possible reference: Sommerfield, AG. et al. (2024) In vivo and in vitro analysis of the role of the Prc protease in inducing mucoidy in Pseudomonas aeruginosa., bioRxiv, PMID 38854061PXD054722 Dataset with its publication pending (from PRIDE) Dataset title: Identification of phosphorylation sites of BAG3 Possible reference: Xue, L. et al. (2014) Identification of extracellular signal-regulated kinase 1 (ERK1) direct substrates using stable isotope labeled kinase assay-linked phosphoproteomics., Mol Cell Proteomics, PMID 25022875PXD054656 Dataset with its publication pending (from iProX) Dataset title: The proteome of Pelodiscus sinensis Possible reference: Rawendra, RD. et al. (2013) A novel angiotensin converting enzyme inhibitory peptide derived from proteolytic digest of Chinese soft-shelled turtle egg white proteins., J Proteomics, PMID 24140975PXD054623 Dataset with its publication pending (from PRIDE) Dataset title: LRRTM2 controls presynapse nano-organization and AMPA receptor sub-positioning through Neurexin-binding interface Possible reference: Liouta, K. et al. (2024) LRRTM2 controls presynapse nano-organization and AMPA receptor sub-positioning through Neurexin-binding interface., Nat Commun, PMID 39394199PXD054577 Dataset with its publication pending (from PRIDE) Dataset title: Intragenic DNA inversions expand bacterial coding capacity Possible reference: Chanin, RB. et al. (2023) Intragenic DNA inversions expand bacterial coding capacity., bioRxiv, PMID 36945655PXD054559 Dataset with its publication pending (from PRIDE) Dataset title: Achieving a 35plex Tandem Mass Tag Reagent Set Through Deuterium Incorporation Possible reference: Zuniga, NR. et al. (2024) Achieving a 35-Plex Tandem Mass Tag Reagent Set through Deuterium Incorporation., J Proteome Res, PMID 39380184PXD054506 Dataset with its publication pending (from jPOST) Dataset title: Mouse primary hepatocyte secretome Possible reference: Brcena, C. et al. (2015) Angiogenin secretion from hepatoma cells activates hepatic stellate cells to amplify a self-sustained cycle promoting liver cancer., Sci Rep, PMID 25604905PXD054457 no publication (from MassIVE) Dataset title: Exploring Protein Post-Translational Modifications of Breast Cancer Cells Using a Novel Combinatorial Search Algorithm Possible reference: Vasileva-Slaveva, M. et al. (2024) Exploring Protein Post-Translational Modifications of Breast Cancer Cells Using a Novel Combinatorial Search Algorithm., Int J Mol Sci, PMID 39337390PXD054430 no publication (from MassIVE) Dataset title: Size Exclusion Chromatography Based Proteomic and Degradomic Profiling of Inflammasome-Activated, Murine Bone Marrow-Derived Dendritic Cells Possible reference: Vogele, D. et al. (2024) Size exclusion chromatography based proteomic and degradomic profiling of inflammasome-activated, murine bone marrow-derived dendritic cells highlights complex retention and release of cleavage products., Mol Omics, PMID 39378052PXD054426 Dataset with its publication pending (from iProX) Dataset title: pH-Controlled chemoselective rapid azo-coupling reaction (CRACR) enables global profiling of serotonylation proteome in cancer cells Possible reference: Zhang, N. et al. (2024) pH-Controlled chemoselective rapid azo-coupling reaction (CRACR) enables global profiling of serotonylation proteome in cancer cells., bioRxiv, PMID 38766043PXD054358 Dataset with its publication pending (from iProX) Dataset title: Legionella pneumophila effector LegK3 directly phosphorylates multiple caspases involved in apoptosis signaling, including Caspase-3, Caspase-7, and Caspase-9 Possible reference: Ge, J. et al. (2024) Phosphorylation of caspases by a bacterial kinase inhibits host programmed cell death., Nat Commun, PMID 39349471PXD054327 Dataset with its publication pending (from iProX) Dataset title: Proteome of renal cell line caki-2 with AFMID overexpression and potential biomarker discovery in urine Possible reference: Sun, J. et al. (2024) Proteomics Analysis of Renal Cell Line Caki-2 with AFMID Overexpression and Potential Biomarker Discovery in Urine., J Proteome Res, PMID 39213636PXD054321 Dataset with its publication pending (from iProX) Dataset title: Proteome of synthetic ribosomal 40S subunit Possible reference: Xing, W. et al. (2018) Salidroside influences the cellular cross-talk of human fetal lung diploid fibroblasts: A proteomic approach., Environ Toxicol Pharmacol, PMID 29329019PXD054314 Dataset with its publication pending (from PRIDE) Dataset title: The proto-oncogene tyrosine kinase c-SRC facilitates glioblastoma progression by remodeling fatty acid synthesis Possible reference: Zhao, W. et al. (2024) The proto-oncogene tyrosine kinase c-SRC facilitates glioblastoma progression by remodeling fatty acid synthesis., Nat Commun, PMID 39198451PXD054256 Dataset with its publication pending (from iProX) Dataset title: CSF proteomics of leptomeningeal metastasis mouse models Possible reference: Remsik, J. et al. (2023) Leptomeningeal anti-tumor immunity follows unique signaling principles., bioRxiv, PMID 36993586PXD054236 Dataset with its publication pending (from PRIDE) Dataset title: Chronic activation of tubulin tyrosination in HCM mice and in human iPSC-engineered heart tissues improves heart function Possible reference: Pietsch, N. et al. (2024) Chronic activation of tubulin tyrosination in HCM mice and human iPSC-engineered heart tissues improves heart function., bioRxiv, PMID 37292763PXD054211 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Profile of Circulating Extracellular Vesicles in the Brain after Î 9-Tetrahydrocannabinol Inhalation Possible reference: Lallai, V. et al. (2024) Proteomic Profile of Circulating Extracellular Vesicles in the Brain after Δ9-Tetrahydrocannabinol Inhalation., Biomolecules, PMID 39334909PXD054180 Dataset with its publication pending (from PRIDE) Dataset title: Lapatinib-Induced Enhancement Of Mitochondrial Respiration In HER2-Positive SK-BR-3 Cells: Mechanism Revealed By Analysis Of Proteomic But Not Transcriptomic Data Possible reference: Kamashev, D. et al. (2024) Lapatinib-induced enhancement of mitochondrial respiration in HER2-positive SK-BR-3 cells: mechanism revealed by analysis of proteomic but not transcriptomic data., Front Mol Biosci, PMID 39403185PXD054131 Dataset with its publication pending (from iProX) Dataset title: Integrated Landscape of Plasma Metabolism and Proteome for Post-traumatic Deep Vein Thrombosisasma Metabolism and Proteome for Post-traumatic Deep Vein Thrombosis Possible reference: Zhang, K. et al. (2024) Integrated landscape of plasma metabolism and proteome of patients with post-traumatic deep vein thrombosis., Nat Commun, PMID 39244606PXD054126 Dataset with its publication pending (from PRIDE) Dataset title: FDA-approved Disulfiram Inhibits the NLRP3 Inflammasome Possible reference: Wang, C. et al. (2021) NLRP3 inflammasome activation triggers gasdermin D-independent inflammation., Sci Immunol, PMID 34678046PXD054095 Dataset with its publication pending (from iProX) Dataset title: Spatial multiomics for liver cancer Possible reference: Shi, L. et al. (2017) Multi-omics study revealing the complexity and spatial heterogeneity of tumor-infiltrating lymphocytes in primary liver carcinoma., Oncotarget, PMID 28422742PXD054088 Dataset with its publication pending (from iProX) Dataset title: Legionella pneumophila effector LegK3 phosphorylates multiple caspases involved in apoptosis signaling Possible reference: Ge, J. et al. (2024) Phosphorylation of caspases by a bacterial kinase inhibits host programmed cell death., Nat Commun, PMID 39349471PXD054050 no publication (from MassIVE) Dataset title: Effects of light exposure on circulating metabolites in mice Possible reference: Laiakis, EC. et al. (2017) Metabolic Dysregulation after Neutron Exposures Expected from an Improvised Nuclear Device., Radiat Res, PMID 28475424PXD054025 Dataset with its publication pending (from iProX) Dataset title: PCSHA changhai prostate cancer (PCa) proteomics Possible reference: Zhang, J. et al. (2023) Identification of novel molecular subtypes and a signature to predict prognosis and therapeutic response based on cuproptosis-related genes in prostate cancer., Front Oncol, PMID 37205181PXD054016 Dataset with its publication pending (from PRIDE) Dataset title: Genesis and regulation of C-terminal cyclic imides from protein damage Possible reference: Xu, W. et al. (2024) Genesis and regulation of C-terminal cyclic imides from protein damage., bioRxiv, PMID 39211211PXD054015 no publication (from MassIVE) Dataset title: An inflection point in high-throughput proteomics with Orbitrap Astral: analysis of biofluids, cells, and tissues Possible reference: Hendricks, NG. et al. (2024) An inflection point in high-throughput proteomics with Orbitrap Astral: analysis of biofluids, cells, and tissues., bioRxiv, PMID 38712179PXD054003 Dataset with its publication pending (from PRIDE) Dataset title: The hGID GID4 E3 ubiquitin ligase complex targets ARHGAP11A to regulate cell migration Possible reference: Bagci, H. et al. (2024) The hGIDGID4 E3 ubiquitin ligase complex targets ARHGAP11A to regulate cell migration., Life Sci Alliance, PMID 39389782PXD053987 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of two leukemia cell lines K562 and Lucena-1. Possible reference: Beraldo-Neto, E. et al. (2024) Proteomic Dynamics of Multidrug Resistance Mechanisms in Lucena 1 Cell Line., Cells, PMID 39272999PXD053965 Dataset with its publication pending (from iProX) Dataset title: Analysis of alfalfa TMT proteome Possible reference: Fan, W. et al. (2018) Proteomics integrated with metabolomics: analysis of the internal causes of nutrient changes in alfalfa at different growth stages., BMC Plant Biol, PMID 29728056PXD053962 Dataset with its publication pending (from iProX) Dataset title: A CLIC1 network coordinates matrix stiffness and the Warburg effect to promote tumor growth in pancreatic cancer Possible reference: Zheng, JH. et al. (2024) A CLIC1 network coordinates matrix stiffness and the Warburg effect to promote tumor growth in pancreatic cancer., Cell Rep, PMID 39154343PXD053959 no publication (from MassIVE) Dataset title: Acid cleavable biotin-alkyne improves sensitivity for direct detection of biotin labeled peptides in BONCAT analysis. Possible reference: McClatchy, DB. et al. (2024) Acid cleavable biotin-alkyne improves sensitivity for direct detection of biotin labeled peptides in BONCAT analysis., bioRxiv, PMID 39071280PXD053939 Dataset with its publication pending (from PRIDE) Dataset title: Pyroptosis therapy targeting TNBC Possible reference: Tamura, Y. et al. (2022) PolyI:C attenuates transforming growth factor-β signaling to induce cytostasis of surrounding cells by secreted factors in triple-negative breast cancer., Cancer Sci, PMID 34897916PXD053922 no publication (from MassIVE) Dataset title: Therapeutic reduction of rad23a extends lifespan and mitigates pathology in TDP-43 mice. Possible reference: Guo, X. et al. (2024) Reduction of RAD23A extends lifespan and mitigates pathology in TDP-43 mice., bioRxiv, PMID 39314471PXD053906 Dataset with its publication pending (from PRIDE) Dataset title: Increased viral tolerance mediates by antiviral RNA interference in bat cells Possible reference: Dai, Y. et al. (2024) Increased viral tolerance mediates by antiviral RNA interference in bat cells., Cell Rep, PMID 39102336PXD053894 Dataset with its publication pending (from PRIDE) Dataset title: Macropinocytosis mediates metabolic resistance to loss of glutamine transport in triple-negative breast cancer Possible reference: Wahi, K. et al. (2024) Macropinocytosis mediates resistance to loss of glutamine transport in triple-negative breast cancer., EMBO J, PMID 39420093PXD053893 Dataset with its publication pending (from PRIDE) Dataset title: Distinct mechanistic, conformational and substrate selectivity profiles emerging in the evolution of high catalytic activity enzymes via parallel trajectories Possible reference: Karamitros, CS. et al. (2024) Mechanistic conformational and substrate selectivity profiles emerging in the evolution of enzymes via parallel trajectories., Nat Commun, PMID 39152129PXD053881 Dataset with its publication pending (from PRIDE) Dataset title: Bacterial RNA sensing by TLR8 requires RNase 6 processing and is inhibited by RNA 2’O-methylation Possible reference: Nunes, IV. et al. (2024) Bacterial RNA sensing by TLR8 requires RNase 6 processing and is inhibited by RNA 2'O-methylation., EMBO Rep, PMID 39363059PXD053826 Dataset with its publication pending (from iProX) Dataset title: Proteomic of the main proteins of hemolymph in haemaphysalis flava Possible reference: Li, D. et al. (2024) What are the main proteins in the hemolymph of Haemaphysalis flava ticks?, Front Vet Sci, PMID 39086760PXD053684 Dataset with its publication pending (from iProX) Dataset title: Transgenic overexpression of bmo-miR-6498-5p increases resistance to Nosema bombycis in the silkworm, Bombyx mori Possible reference: Hu, C. et al. (2024) Transgenic overexpression of bmo-miR-6498-5p increases resistance to Nosema bombycis in the silkworm, Bombyx mori., Appl Environ Microbiol, PMID 39240120PXD053633 Dataset with its publication pending (from iProX) Dataset title: In vivo fitness of sul gene-dependent sulfonamide-resistant Escherichia coli in the mammalian gut Possible reference: Jiang, H. et al. (2024) In vivo fitness of sul gene-dependent sulfonamide-resistant Escherichia coli in the mammalian gut., mSystems, PMID 39140732PXD053605 no publication (from MassIVE) Dataset title: Arf1-dependent LRBA recruitment to Rab4 endosomes is required for endolysosome homeostasis Possible reference: Szentgyrgyi, V. et al. (2024) Arf1-dependent LRBA recruitment to Rab4 endosomes is required for endolysosome homeostasis., J Cell Biol, PMID 39325073PXD053550 Dataset with its publication pending (from iProX) Dataset title: Proteogenomic Characterization of Skull-base Chordoma Possible reference: Zhang, Q. et al. (2024) Proteogenomic characterization of skull-base chordoma., Nat Commun, PMID 39333076PXD053546 Dataset with its publication pending (from iProX) Dataset title: proteomic study of STAT3 interacting proteins in cell membrane Possible reference: O'Brien, JH. et al. (2012) Rat mammary extracellular matrix composition and response to ibuprofen treatment during postpartum involution by differential GeLC-MS/MS analysis., J Proteome Res, PMID 22897585PXD053519 no publication (from MassIVE) Dataset title: altered proteomic events induced by a beta in SHSY5Y Possible reference: Ai, X. et al. (2024) Proteomic Analysis Reveals Physiological Activities of Aβ Peptide for Alzheimer's Disease., Int J Mol Sci, PMID 39125907PXD053511 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of the exponential and stationary of phases of CHO cell culture. Possible reference: Sebastio, MJ. et al. (2023) Identification of Mispairing Omic Signatures in Chinese Hamster Ovary (CHO) Cells Producing a Tri-Specific Antibody., Biomedicines, PMID 38001891PXD053508 Dataset with its publication pending (from PRIDE) Dataset title: Aspergillus fumigatus spore proteases alter the respiratory mucosa architecture and facilitate equine herpesvirus 1 infection Possible reference: Portaels, J. et al. (2024) Aspergillus Fumigatus Spore Proteases Alter the Respiratory Mucosa Architecture and Facilitate Equine Herpesvirus 1 Infection., Viruses, PMID 39205182PXD053504 Dataset with its publication pending (from jPOST) Dataset title: Plasma proteomic profiles of patients with HIV infection and coinfection with hepatitis B/C virus undergoing anti-retroviral therapy Possible reference: Tarnathummanan, C. et al. (2024) Plasma proteomic profiles of patients with HIV infection and coinfection with hepatitis B/C virus undergoing anti‑retroviral therapy., Biomed Rep, PMID 39268407PXD053492 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of CHO cell temperature shift Possible reference: Farrell, A. et al. (2014) Application of multi-omics techniques for bioprocess design and optimization in chinese hamster ovary cells., J Proteome Res, PMID 24915626PXD053476 Dataset with its publication pending (from iProX) Dataset title: HERC5 interaction protein profile Possible reference: Xiu, MX. et al. (2022) Identification of hub genes, miRNAs and regulatory factors relevant for Duchenne muscular dystrophy by bioinformatics analysis., Int J Neurosci, PMID 32791870PXD053451 Dataset with its publication pending (from iProX) Dataset title: Site-specific N-glycosylation Characterization of Monoclonal Immunoglobulins in Multiple Myeloma Possible reference: Luo, M. et al. (2022) Site-specific N-glycosylation characterization of micro monoclonal immunoglobulins based on EThcD-sceHCD-MS/MS., Front Immunol, PMID 36189210PXD053448 Dataset with its publication pending (from iProX) Dataset title: Comparative proteomics in tall fescue to reveal underlying mechanisms for improving Photosystem Ⅱ thermotolerance during heat stress memory Possible reference: Wang, G. et al. (2024) Comparative proteomics in tall fescue to reveal underlying mechanisms for improving Photosystem II thermotolerance during heat stress memory., BMC Genomics, PMID 38982385PXD053395 Dataset with its publication pending (from PRIDE) Dataset title: REPURPOSING OF GLATIRAMER ACETATE TO TREAT CARDIAC ISCHEMIA IN ANIMAL MODELS Possible reference: Aviel, G. et al. (2024) Repurposing of glatiramer acetate to treat cardiac ischemia in rodent models., Nat Cardiovasc Res, PMID 39215106PXD053391 Dataset with its publication pending (from iProX) Dataset title: A classic famous prescription alleviates inflammation in CUMS model mice via modulating MYDGF/MAP4K4/NF-κB signaling pathway, verified through UPLC-HRMS and proteomics analysis Possible reference: Huang, R. et al. (2024) A classic prescription alleviates inflammation in CUMS model mice via modulating MYDGF/MAP4K4/NF-κB signaling pathway, verified through UPLC-HRMS and proteomics analysis., Heliyon, PMID 39114061PXD053377 Dataset with its publication pending (from iProX) Dataset title: EcN OMVs mass spectrometry proteomics data Possible reference: Aguilera, L. et al. (2014) Proteomic analysis of outer membrane vesicles from the probiotic strain Escherichia coli Nissle 1917., Proteomics, PMID 24307187PXD053371 no publication (from MassIVE) Dataset title: Histone H3.3 lysine 9 and 27 control repressive chromatin states at cryptic cis-regulatory elements and bivalent promoters in mouse embryonic stem cells Possible reference: Trovato, M. et al. (2024) Histone H3.3 lysine 9 and 27 control repressive chromatin at cryptic enhancers and bivalent promoters., Nat Commun, PMID 39214979PXD053363 Dataset with its publication pending (from PRIDE) Dataset title: Afucosylated broadly neutralizing antibodies enhance clearance of HIV-1 infected cells through NK cell mediated killing Possible reference: de Taeye, SW. et al. (2024) Afucosylated broadly neutralizing antibodies enhance clearance of HIV-1 infected cells through cell-mediated killing., Commun Biol, PMID 39122901PXD053359 Dataset with its publication pending (from PRIDE) Dataset title: Deep Plasma Proteome Profiling by Modulating Single Nanoparticle Protein Corona with Small Molecules Possible reference: Ashkarran, AA. et al. (2024) Deep Plasma Proteome Profiling by Modulating Single Nanoparticle Protein Corona with Small Molecules., bioRxiv, PMID 38496642PXD053342 Dataset with its publication pending (from iProX) Dataset title: A synthetic antibiotic class with a deeply-optimized design for overcoming bacterial resistance Possible reference: Feng, J. et al. (2024) A synthetic antibiotic class with a deeply-optimized design for overcoming bacterial resistance., Nat Commun, PMID 39019927PXD053340 Dataset with its publication pending (from iProX) Dataset title: Brain protein lactylation after exercise training Possible reference: Qian, P. et al. (2024) Transcriptional Expression of Histone Acetyltransferases and Deacetylases During the Recovery of Acute Exercise in Mouse Hippocampus., J Mol Neurosci, PMID 38565829PXD053336 Dataset with its publication pending (from iProX) Dataset title: A chemical screen identifies PRMT5 as a therapeutic vulnerability for paclitaxel-resistant triple-negative breast cancer Possible reference: Zhang, K. et al. (2024) A chemical screen identifies PRMT5 as a therapeutic vulnerability for paclitaxel-resistant triple-negative breast cancer., Cell Chem Biol, PMID 39232499PXD053319 Dataset with its publication pending (from iProX) Dataset title: Germ granule compartments and small RNA production Possible reference: Zeng, C. et al. (2019) Functional Proteomics Identifies a PICS Complex Required for piRNA Maturation and Chromosome Segregation., Cell Rep, PMID 31216475PXD053285 no publication (from MassIVE) Dataset title: Multi-Omics after O-GlcNAc Alteration Identifies Cellular Processes Working Synergistically to Promote Aneuploidy Possible reference: Boyd, SS. et al. (2024) Multi-Omics after O-GlcNAc Alteration Identifies Cellular Processes Working Synergistically to Promote Aneuploidy., bioRxiv, PMID 38659829PXD053277 no publication (from MassIVE) Dataset title: IER3IP1-mutations cause microcephaly by selective inhibition of ER-Golgi transport Possible reference: Anitei, M. et al. (2024) IER3IP1-mutations cause microcephaly by selective inhibition of ER-Golgi transport., Cell Mol Life Sci, PMID 39115595PXD053261 Dataset with its publication pending (from PRIDE) Dataset title: Conserved Role of FOXC1 in TNBC is parallel to FOXA1 in ER+ Breast Cancer Possible reference: Ramachandran, R. et al. (2024) Conserved role of FOXC1 in TNBC is parallel to FOXA1 in ER+ breast cancer., iScience, PMID 39171293PXD053212 no publication (from PanoramaPublic) Dataset title: An optimized and robust workflow for quantifying the canonical histone ubiquitination marks H2AK119ub and H2BK120ub by LC-MS/MS Possible reference: Lopes, M. et al. (2024) An optimized and robust workflow for quantifying the canonical histone ubiquitination marks H2AK119ub and H2BK120ub by LC-MS/MS., bioRxiv, PMID 38915586PXD053186 Dataset with its publication pending (from iProX) Dataset title: Comprehensive Proteomic Characterization of Scar Formation in Urethral Stricture Disease Possible reference: Gao, J. et al. (2024) Comprehensive proteomic characterization of urethral stricture disease in the Chinese population., Front Mol Biosci, PMID 39130371PXD053185 Dataset with its publication pending (from iProX) Dataset title: lettuce root under different flow rates Possible reference: Baiyin, B. et al. (2024) Metabolite Profiling of Hydroponic Lettuce Roots Affected by Nutrient Solution Flow: Insights from Comprehensive Analysis Using Widely Targeted Metabolomics and MALDI Mass Spectrometry Imaging Approaches., Int J Mol Sci, PMID 39337645PXD053179 no publication (from MassIVE) Dataset title: Effects Beta-hydroxybutyrate on human islet proteome Possible reference: Banerjee, R. et al. (2024) Beta-Hydroxybutyrate Promotes Basal Insulin Secretion While Decreasing Glucagon Secretion in Mouse and Human Islets., Endocrinology, PMID 38970533PXD053164 Dataset with its publication pending (from iProX) Dataset title: proteomic profiling in heart failure with preserved ejection fraction Possible reference: Jiang, H. et al. (2014) A pilot study of angiogenin in heart failure with preserved ejection fraction: a novel potential biomarker for diagnosis and prognosis?, J Cell Mol Med, PMID 25124701PXD053162 Dataset with its publication pending (from iProX) Dataset title: Proteome sequencing of tobacco yellow leaf mutants Possible reference: Chen, S. et al. (2019) Cucurbit Chlorotic Yellows Virus p22 Protein Interacts with Cucumber SKP1LB1 and Its F-Box-Like Motif Is Crucial for Silencing Suppressor Activity., Viruses, PMID 31487883PXD053141 Dataset with its publication pending (from PRIDE) Dataset title: PLK1-Mediated Phosphorylation Cascade Activates the Mis18 Complex to Ensure Centromere Inheritance Possible reference: Parashara, P. et al. (2024) PLK1-mediated phosphorylation cascade activates Mis18 complex to ensure centromere inheritance., Science, PMID 39236175PXD053082 Dataset with its publication pending (from PRIDE) Dataset title: METABOLIC DISRUPTION IMPAIRS RIBOSOMAL PROTEIN LEVELS, RESULTING IN ENHANCED AMINOGLYCOSIDE TOLERANCE Possible reference: Shiraliyev, R. et al. (2024) METABOLIC DISRUPTION IMPAIRS RIBOSOMAL PROTEIN LEVELS, RESULTING IN ENHANCED AMINOGLYCOSIDE TOLERANCE., bioRxiv, PMID 38187583PXD053061 Dataset with its publication pending (from PRIDE) Dataset title: LGR signaling mediates muscle-adipose tissue crosstalk and protects against diet-induced insulin resistance Possible reference: Kubrak, O. et al. (2024) LGR signaling mediates muscle-adipose tissue crosstalk and protects against diet-induced insulin resistance., Nat Commun, PMID 39033139PXD053060 Dataset with its publication pending (from PRIDE) Dataset title: A histone deacetylase confers plant tolerance to heat stress by controlling protein lysine deacetylation and stress granule formation in rice Possible reference: Chen, Z. et al. (2024) A histone deacetylase confers plant tolerance to heat stress by controlling protein lysine deacetylation and stress granule formation in rice., Cell Rep, PMID 39240713PXD053003 Dataset with its publication pending (from PRIDE) Dataset title: Matrisome Proteomics Reveals Novel Mediators of Muscle Remodeling with Aerobic Exercise Training Possible reference: Pattamaprapanont, P. et al. (2024) Matrisome proteomics reveals novel mediators of muscle remodeling with aerobic exercise training., Matrix Biol Plus, PMID 39220302PXD052998 Dataset with its publication pending (from iProX) Dataset title: Pramel15 facilitates zygotic nuclear DNMT1 degradation and DNA demethylation Possible reference: Tan, J. et al. (2024) Pramel15 facilitates zygotic nuclear DNMT1 degradation and DNA demethylation., Nat Commun, PMID 39181896PXD052981 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of brain tissue from ducks with meningitis caused by Riemerella anatipestifer infection Possible reference: Huang, G. et al. (2024) Proteomic analysis of brain tissue from ducks with meningitis caused by Riemerella anatipestifer infection., Poult Sci, PMID 39068696PXD052979 Dataset with its publication pending (from iProX) Dataset title: Hematopoietic stem and progenitor cell membrane-coated vesicles for bone marrow-targeted leukaemia drug delivery Possible reference: Li, J. et al. (2024) Hematopoietic stem and progenitor cell membrane-coated vesicles for bone marrow-targeted leukaemia drug delivery., Nat Commun, PMID 38971796PXD052976 Dataset with its publication pending (from PRIDE) Dataset title: Haplotype variability in mitochondrial rRNA predisposes to metabolic syndrome Possible reference: Pecina, P. et al. (2024) Haplotype variability in mitochondrial rRNA predisposes to metabolic syndrome., Commun Biol, PMID 39261587PXD052966 no publication (from MassIVE) Dataset title: GSK3 inhibition reduces ECM production and prevents age-related macular degeneration-like pathology Possible reference: DiCesare, SM. et al. (2023) GSK3 inhibition reduces ECM production and prevents age-related macular degeneration-like pathology., bioRxiv, PMID 38168310PXD052963 Dataset with its publication pending (from jPOST) Dataset title: Stress-induced condensation of TDP-43 in the nucleus Possible reference: Huang, WP. et al. (2024) Stress-induced TDP-43 nuclear condensation causes splicing loss of function and STMN2 depletion., Cell Rep, PMID 38941189PXD052937 no publication (from MassIVE) Dataset title: Liver tissue proteins improve the accuracy of plasma proteins as biomarkers in diagnosing metabolic dysfunction-associated steatohepatitis Possible reference: Sourianarayanane, A. et al. (2024) Liver Tissue Proteins Improve the Accuracy of Plasma Proteins as Biomarkers in Diagnosing Metabolic Dysfunction-Associated Steatohepatitis., Proteomics Clin Appl, PMID 39073724PXD052886 Dataset with its publication pending (from iProX) Dataset title: Cross-sectional study of proteomic differences between moderate and severe psoriasis Possible reference: Glickman, JW. et al. (2021) Cross-sectional study of blood biomarkers of patients with moderate to severe alopecia areata reveals systemic immune and cardiovascular biomarker dysregulation., J Am Acad Dermatol, PMID 32376430PXD052868 Dataset with its publication pending (from PRIDE) Dataset title: Mice lacking Astn2 have ASD-like behaviors and altered cerebellar circuit properties Possible reference: Hanzel, M. et al. (2024) Mice lacking Astn2 have ASD-like behaviors and altered cerebellar circuit properties., bioRxiv, PMID 38405978PXD052847 A workflow for targeted proteomics assay development using a versatile linear ion trap. Ariana E. Shannon, Rachael N. Teodorescu, Nojoon Soon, Lilian R. Heil, Cristina C. Jacob, Philip M. Remes, Mark P. Rubinstein, Brian C. Searle
bioRxiv 2024.05.31.5968 (from PanoramaPublic) Dataset title: Linear Ion Trap Global to Targeted Proteomics: A workflow for targeted proteomics assay development using a versatile linear ion trap Possible reference: Shannon, AE. et al. (2024) A workflow for targeted proteomics assay development using a versatile linear ion trap., bioRxiv, PMID 38853838PXD052845 Dataset with its publication pending (from iProX) Dataset title: Lysosomal-associated protein transmembrane 5, tubular senescence, and progression of CKD Possible reference: Liu, X. et al. (2024) Lysosomal-Associated Protein Transmembrane 5, Tubular Senescence, and Progression of CKD., J Am Soc Nephrol, PMID 39078711PXD052842 Dataset with its publication pending (from iProX) Dataset title: Targets identification of Danhong injection by iTSA Possible reference: Wang, T. et al. (2024) Development of a new paradigm model for deciphering action mechanism of Danhong injection using a combination of isothermal shift assay and database interrogation., Chin Med, PMID 39369254PXD052840 Dataset with its publication pending (from jPOST) Dataset title: Activity-assembled nBAF complex mediates rapid immediate early gene transcription by regulating RNA Polymerase II productive elongation Possible reference: Cornejo, KG. et al. (2023) Activity-assembled nBAF complex mediates rapid immediate early gene transcription by regulating RNA Polymerase II productive elongation., bioRxiv, PMID 38234780PXD052814 Dataset with its publication pending (from iProX) Dataset title: Structure and Topography of the Synaptic V-ATPase–Synaptophysin Complex Possible reference: Wang, C. et al. (2024) Structure and topography of the synaptic V-ATPase-synaptophysin complex., Nature, PMID 38838737PXD052808 Dataset with its publication pending (from iProX) Dataset title: A rapid and convenient sample treatment method based on the dissolvable polyacrylamide gel for S-acylation proteomics Possible reference: Chen, W. et al. (2024) A rapid and convenient sample treatment method based on the dissolvable polyacrylamide gel for S-acylation proteomics., Anal Methods, PMID 38920099PXD052803 Dataset with its publication pending (from PRIDE) Dataset title: Subfamily C7 Raf-like kinases MRK1, RAF26, and RAF39 regulate immune homeostasis and stomatal opening in Arabidopsis thaliana Possible reference: Gonalves Dias, M. et al. (2024) Subfamily C7 Raf-like kinases MRK1, RAF26, and RAF39 regulate immune homeostasis and stomatal opening in Arabidopsis thaliana., New Phytol, PMID 39449177PXD052801 Dataset with its publication pending (from PRIDE) Dataset title: Combining quantitative proteomics and interactomics for a deeper insight into molecular differences between human cell lines Possible reference: Bakhtina, AA. et al. (2024) Combining quantitative proteomics and interactomics for a deeper insight into molecular differences between human cell lines., bioRxiv, PMID 38915502PXD052769 no publication (from MassIVE) Dataset title: mRNA lipid nanoparticles expressing cell-surface cleavage independent HIV Env trimers elicit autologous tier-2 neutralizing antibodies Possible reference: Guenaga, J. et al. (2024) mRNA lipid nanoparticles expressing cell-surface cleavage independent HIV Env trimers elicit autologous tier-2 neutralizing antibodies., Front Immunol, PMID 39119336PXD052751 Dataset with its publication pending (from jPOST) Dataset title: SWATH-Proteomics of Mathurameha in High Glucose-Induced Endothelial Dysfunction Possible reference: Aluksanasuwan, S. et al. (2024) SWATH-proteomics reveals Mathurameha, a traditional anti-diabetic herbal formula, attenuates high glucose-induced endothelial dysfunction through the EGF/NO/IL-1β regulatory axis., J Proteomics, PMID 39047940PXD052741 Dataset with its publication pending (from iProX) Dataset title: Multifaceted insights into the environmental adaptability of Arnebia guttata under drought stress Possible reference: Liu, Q. et al. (2024) Multifaceted insights into the environmental adaptability of Arnebia guttata under drought stress., Front Plant Sci, PMID 38938629PXD052740 Dataset with its publication pending (from iProX) Dataset title: Exploring the Anti-Cancer mechanism of Cardiac Glycosides using proteome integral solubility alteration approach Possible reference: Qin, W. et al. (2024) Exploring the anticancer mechanism of cardiac glycosides using proteome integral solubility alteration approach., Cancer Med, PMID 39350574PXD052739 Dataset with its publication pending (from iProX) Dataset title: Stichodactyla haddoni proteome Possible reference: Madio, B. et al. (2017) Revisiting venom of the sea anemone Stichodactyla haddoni: Omics techniques reveal the complete toxin arsenal of a well-studied sea anemone genus., J Proteomics, PMID 28739511PXD052737 Dataset with its publication pending (from iProX) Dataset title: Comparative proteomics reveals energy and carbon metabolism changes in Scenedesmus quadricauda mutants induced by heavy-ion beam irradiation Possible reference: Wang, J. et al. (2024) Comparative proteomics reveals energy and carbon metabolism changes in Scenedesmus quadricauda mutants induced by heavy-ion beam irradiation., Bioresour Technol, PMID 38876280PXD052736 Dataset with its publication pending (from iProX) Dataset title: HSP70 and APX1 play important roles in cotton male fertility Possible reference: Ma, L. et al. (2024) HSP70 and APX1 play important roles in cotton male fertility by mediating ROS homeostasis., Int J Biol Macromol, PMID 39168224PXD052718 Dataset with its publication pending (from PRIDE) Dataset title: Glycosphingolipid synthesis mediates immune evasion in Kras-driven cancer Possible reference: Soula, M. et al. (2024) Glycosphingolipid synthesis mediates immune evasion in KRAS-driven cancer., Nature, PMID 39112706PXD052698 Montaser AB, Gao F, Peters D, Vainionp K, Zhibin N, Skowronska-Krawczyk D, Figeys D, Palczewski K, Leinonen H. Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pig (from PanoramaPublic) Dataset title: Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pigmentosa Possible reference: Montaser, AB. et al. (2024) Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pigmentosa., Mol Cell Proteomics, PMID 39389360PXD052695 Dataset with its publication pending (from iProX) Dataset title: EIF4G2 Promotes HCC Progression Possible reference: Li, M. et al. (2024) EIF4G2 Promotes Hepatocellular Carcinoma Progression via IRES-dependent PLEKHA1 Translation Regulation., J Proteome Res, PMID 39213495PXD052619 no publication (from MassIVE) Dataset title: The extracellular serine protease from Staphylococcus epidermidis elicits a type 2-biased immune response in atopic dermatitis patients Possible reference: Abdurrahman, G. et al. (2024) The extracellular serine protease from Staphylococcus epidermidis elicits a type 2-biased immune response in atopic dermatitis patients., Front Immunol, PMID 38895118PXD052615 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of human eosinophils stimulated with IFN-gamma and IL-5 Possible reference: Pazdrak, K. et al. (2016) Cytokine-Induced Glucocorticoid Resistance from Eosinophil Activation: Protein Phosphatase 5 Modulation of Glucocorticoid Receptor Phosphorylation and Signaling., J Immunol, PMID 27742828PXD052607 Dataset with its publication pending (from iProX) Dataset title: Urine proteome between obese people and normal people Possible reference: Dudzik, D. et al. (2014) Metabolic fingerprint of Gestational Diabetes Mellitus., J Proteomics, PMID 24698665PXD052606 Dataset with its publication pending (from iProX) Dataset title: Identification of WDR11 and its cargo-interaction-defect-mutant interacting proteins Possible reference: Neocleous, V. et al. (2020) GnRH Deficient Patients With Congenital Hypogonadotropic Hypogonadism: Novel Genetic Findings in ANOS1, RNF216, WDR11, FGFR1, CHD7, and POLR3A Genes in a Case Series and Review of the Literature., Front Endocrinol (Lausanne), PMID 32982993PXD052604 Dataset with its publication pending (from iProX) Dataset title: CREB3 suppresses hepatocellular carcinoma progression by depressing AKT signaling through competitively binding with INSR and transcriptionally activating RBM38 Possible reference: He, Y. et al. (2024) CREB3 suppresses hepatocellular carcinoma progression by depressing AKT signaling through competitively binding with insulin receptor and transcriptionally activating RNA-binding motif protein 38., MedComm (2020), PMID 38952575PXD052598 Montaser AB, Gao F, Peters D, Vainionp K, Zhibin N, Skowronska-Krawczyk D, Figeys D, Palczewski K, Leinonen H. Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pig (from PanoramaPublic) Dataset title: Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pigmentosa Possible reference: Montaser, AB. et al. (2024) Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pigmentosa., Mol Cell Proteomics, PMID 39389360PXD052578 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of UCHL1 conditional knockout mice Possible reference: Feng, Z. et al. (2023) The deubiquitinase UCHL1 negatively controls osteoclastogenesis by regulating TAZ/NFATC1 signalling., Int J Biol Sci, PMID 37215988PXD052550 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of human eosinophils in patients with asthma-COPD overlap and eosinophilic COPD Possible reference: Sunata, K. et al. (2024) Inflammatory profile of eosinophils in asthma-COPD overlap and eosinophilic COPD: a multi-omics study., Front Immunol, PMID 39439801PXD052504 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Insight into Early Establishment of Seed Dormancy in Xanthium Strumarium Possible reference: Nemati, I. et al. (2024) Proteomic analysis during seed development provides insight into the early establishment of seed dormancy in Xanthium strumarium., Physiol Plant, PMID 39415749PXD052472 Dataset with its publication pending (from PRIDE) Dataset title: Sterol 14-alpha demethylase (CYP51) activity in Leishmania donovani is likely dependent upon cytochrome P450 reductase 1 Possible reference: Tulloch, LB. et al. (2024) Sterol 14-alpha demethylase (CYP51) activity in Leishmania donovani is likely dependent upon cytochrome P450 reductase 1., PLoS Pathog, PMID 38991025PXD052465 Dataset with its publication pending (from iProX) Dataset title: A proteomic analysis of plasma using data-independent acquisition approach to explore infantile epileptic spasm syndrome Possible reference: Huang, H. et al. (2024) Exploring Infantile Epileptic Spasm Syndrome: A Proteomic Analysis of Plasma Using the Data-Independent Acquisition Approach., J Proteome Res, PMID 38857073PXD052440 Dataset with its publication pending (from PRIDE) Dataset title: Restriction of Arginine Induces Antibiotic Tolerance in Staphylococcus aureus Possible reference: Freiberg, JA. et al. (2023) Restriction of Arginine Induces Antibiotic Tolerance in Staphylococcus aureus., bioRxiv, PMID 37873095PXD052426 Dataset with its publication pending (from iProX) Dataset title: Chemical proteomic profiling of protein dopaminylation in colorectal cancer cells Possible reference: Zhang, N. et al. (2024) Chemical proteomic profiling of protein dopaminylation in colorectal cancer cells., bioRxiv, PMID 38712070PXD052425 Dataset with its publication pending (from iProX) Dataset title: Quantitative phosphoproteomics of Mycolicibacterium smegmatis Possible reference: Abo-Kadoum, MA. et al. (2021) Mycobacterium tuberculosis Raf kinase inhibitor protein (RKIP) Rv2140c is involved in cell wall arabinogalactan biosynthesis via phosphorylation., Microbiol Res, PMID 33189070PXD052412 Dataset with its publication pending (from PRIDE) Dataset title: An essential role for EROS in redox-dependent endothelial signal transduction Possible reference: Waldeck-Weiermair, M. et al. (2024) An essential role for EROS in redox-dependent endothelial signal transduction., Redox Biol, PMID 38805973PXD052401 Dataset with its publication pending (from PRIDE) Dataset title: The red alga Porphyridium as a host for molecular farming: Efficient production of immunologically active hepatitis C virus glycoprotein Possible reference: Hammel, A. et al. (2024) The red alga Porphyridium as a host for molecular farming: Efficient production of immunologically active hepatitis C virus glycoprotein., Proc Natl Acad Sci U S A, PMID 38833465PXD052378 Dataset with its publication pending (from PRIDE) Dataset title: Regulation of Drosophila brain development and organ growth by the Minibrain/Rala signaling network Possible reference: Brown, M. et al. (2024) Regulation of brain development by the Minibrain/Rala signaling network., bioRxiv, PMID 38766038PXD052367 Dataset with its publication pending (from jPOST) Dataset title: Cysteine S-acetylation is a post-translational modification involved in metabolic regulation Possible reference: Keenan, EK. et al. (2024) Cysteine S-acetylation is a post-translational modification involved in metabolic regulation., bioRxiv, PMID 38826225PXD052357 no publication (from MassIVE) Dataset title: Benchmarking and automating the biotinylation proteomics workflow Possible reference: Li, H. et al. (2024) Benchmarking and Automating the Biotinylation Proteomics Workflow., Res Sq, PMID 39011118PXD052347 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of the Clostridioides difficile 630Îerm putative Pro-Pro endopeptidase CD1597 Possible reference: Claushuis, B. et al. (2024) Characterization of the Clostridioides difficile 630Δerm putative Pro-Pro endopeptidase CD1597., Access Microbiol, PMID 39381498PXD052337 Dataset with its publication pending (from PRIDE) Dataset title: Inherited mitochondrial dysfunction impacts corneal innervation fibre identity, fonctionnality and regenerative potential Possible reference: Meneux, L. et al. (2024) Inherited mitochondrial dysfunction triggered by OPA1 mutation impacts the sensory innervation fibre identity, functionality and regenerative potential in the cornea., Sci Rep, PMID 39138286PXD052315 no publication (from MassIVE) Dataset title: A highly potent bi-thiazole inhibitor of LOX rewires collagen architecture and enhances chemoresponse in triple-negative breast cancer Possible reference: Cetin, M. et al. (2024) A highly potent bi-thiazole inhibitor of LOX rewires collagen architecture and enhances chemoresponse in triple-negative breast cancer., Cell Chem Biol, PMID 39043186PXD052303 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomics-directed manipulation reveals SEC22B as an hepatocellular signaling node governing metabolic actions of glucagon Possible reference: Wu, Y. et al. (2024) Phosphoproteomics-directed manipulation reveals SEC22B as a hepatocellular signaling node governing metabolic actions of glucagon., Nat Commun, PMID 39333498PXD052288 Dataset with its publication pending (from PRIDE) Dataset title: Pangolin scales as adaptations for innate immunity against pathogens Possible reference: Tian, X. et al. (2024) Pangolin scales as adaptations for innate immunity against pathogens., BMC Biol, PMID 39397000PXD052273 no publication (from MassIVE) Dataset title: FOXA2 rewires AP-1 for transcriptional reprogramming and lineage plasticity in prostate cancer Possible reference: Wang, Z. et al. (2024) FOXA2 rewires AP-1 for transcriptional reprogramming and lineage plasticity in prostate cancer., Nat Commun, PMID 38851846PXD052268 Dataset with its publication pending (from iProX) Dataset title: Control of cyanobacterial growth with potassium; implications for bloom control in nuclear storage ponds Possible reference: Zhang, K. et al. (2024) Control of cyanobacterial growth with potassium; implications for bloom control in nuclear storage ponds., Harmful Algae, PMID 39003020PXD052229 Dataset with its publication pending (from PRIDE) Dataset title: Multi-omics analysis reveals the impact of influenza A virus host adaptation on immune signatures in pig tracheal tissue Possible reference: Laybourn, HA. et al. (2024) Multi-omics analysis reveals the impact of influenza a virus host adaptation on immune signatures in pig tracheal tissue., Front Immunol, PMID 39247193PXD052147 Dataset with its publication pending (from jPOST) Dataset title: SHIP1 modulation and proteome characterization of microglia Possible reference: Ahat, E. et al. (2024) SHIP1 modulation and proteome characterization of microglia., J Proteomics, PMID 38777089PXD052107 Dataset with its publication pending (from PRIDE) Dataset title: Strigolactones positively regulate HY5-dependent autophagy and the degradation of ubiquitinated proteins in response to cold stress in tomato Possible reference: Chi, C. et al. (2024) Strigolactones positively regulate HY5-dependent autophagy and the degradation of ubiquitinated proteins in response to cold stress in tomato., New Phytol, PMID 39155750PXD051912 Dataset with its publication pending (from PRIDE) Dataset title: DLG1 functions upstream of SDCCAG3 and IFT20 to control ciliary targeting of polycystin-2 Possible reference: Rezi, CK. et al. (2024) DLG1 functions upstream of SDCCAG3 and IFT20 to control ciliary targeting of polycystin-2., bioRxiv, PMID 37987012PXD051884 Dataset with its publication pending (from PRIDE) Dataset title: TRAF7 determines circadian period through ubiquitination and degradation of DBP Possible reference: Masuda, S. et al. (2024) TRAF7 determines circadian period through ubiquitination and degradation of DBP., Commun Biol, PMID 39379486PXD051860 Dataset with its publication pending (from jPOST) Dataset title: Changes in Protein Fluxes and Gene Expression in Non-Injured Muscle Tissue Distant from an Acute Myotoxic Injury in Male Mice Possible reference: Bizieff, A. et al. (2024) Changes in protein fluxes and gene expression in non-injured muscle tissue distant from an acute myotoxic injury in male mice., J Physiol, PMID 38968395PXD051807 Dataset with its publication pending (from iProX) Dataset title: Investigation of the molecular mechanism of Smilax glabra Roxb. in treating hypertension based on proteomics and bioinformatic Possible reference: Yang, X. et al. (2024) Investigation of the molecular mechanism of Smilax glabra Roxb. in treating hypertension based on proteomics and bioinformatics., Front Pharmacol, PMID 38783958PXD051782 Dataset with its publication pending (from PRIDE) Dataset title: The DEAD-box RNA helicase PfDOZI imposes opposing actions on RNA metabolism in Plasmodium falciparum Possible reference: Min, H. et al. (2024) The DEAD-box RNA helicase PfDOZI imposes opposing actions on RNA metabolism in Plasmodium falciparum., Nat Commun, PMID 38702310PXD051638 Dataset with its publication pending (from PRIDE) Dataset title: DDA1, a novel factor in transcription-coupled repair, modulates CRL4CSA dynamics at DNA damage-stalled RNA polymerase II Possible reference: Schiffmacher, DL. et al. (2023) DDA1, a novel factor in transcription-coupled repair, modulates CRL4CSA dynamics at DNA damage-stalled RNA polymerase II., Res Sq, PMID 37886519PXD051634 Dataset with its publication pending (from iProX) Dataset title: Inhibition of FBP1 expression by KMT5A through TWIST1 methylation is one of the mechanisms leading to chemoresistance in breast cancer Possible reference: Peng, X. et al. (2024) Inhibition of FBP1 expression by KMT5A through TWIST1 methylation is one of the mechanisms leading to chemoresistance in breast cancer., Oncol Rep, PMID 38963044PXD051532 Dataset with its publication pending (from iProX) Dataset title: Identification of WNK1 as a therapeutic target to suppress IgH/MYC expression in multiple myeloma Possible reference: Ye, T. et al. (2024) Identification of WNK1 as a therapeutic target to suppress IgH/MYC expression in multiple myeloma., Cell Rep, PMID 38722741PXD051421 Dataset with its publication pending (from jPOST) Dataset title: Plasma Extracellular Vesicle Proteomic Profiling from Parkinsonism Patients Possible reference: Minakaki, G. et al. (2018) Autophagy inhibition promotes SNCA/alpha-synuclein release and transfer via extracellular vesicles with a hybrid autophagosome-exosome-like phenotype., Autophagy, PMID 29198173PXD051392 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of fission yeast RNA degradation mutants Possible reference: Bitton, DA. et al. (2015) Widespread exon skipping triggers degradation by nuclear RNA surveillance in fission yeast., Genome Res, PMID 25883323PXD051387 Dataset with its publication pending (from iProX) Dataset title: FTO deficiency in older livers exacerbates ferroptosis during ischaemia/reperfusion injury by upregulating ACSL4 and TFRC Possible reference: Li, R. et al. (2024) FTO deficiency in older livers exacerbates ferroptosis during ischaemia/reperfusion injury by upregulating ACSL4 and TFRC., Nat Commun, PMID 38834654PXD051386 Dataset with its publication pending (from iProX) Dataset title: proteomics of Type 2 Diabetes Mellitus-Induced Gastroenteropathy in the db/db Mouse Model Possible reference: Zhang, Y. et al. (2024) Multi-omics characterization of type 2 diabetes mellitus-induced gastroenteropathy in the db/db mouse model., Front Cell Dev Biol, PMID 39211388PXD051359 Dataset with its publication pending (from iProX) Dataset title: Targeting high circDNA2v levels in colorectal cancer induces cellular senescence and elicits an anti-tumor secretome Possible reference: Wu, S. et al. (2024) Targeting high circDNA2v levels in colorectal cancer induces cellular senescence and elicits an anti-tumor secretome., Cell Rep, PMID 38615319PXD051356 Dataset with its publication pending (from iProX) Dataset title: Proteomics profiling of the honeybee parasite Tropilaelpas mercedesae across post-embryonic development Possible reference: Wei, Q. et al. (2024) Proteomics profiling of the honeybee parasite Tropilaelaps mercedesae across post-embryonic development., Sci Data, PMID 38750068PXD051353 Dataset with its publication pending (from iProX) Dataset title: Bailixiang tea, an herbal medicine formula, co-suppresses TLR2/MAPK8 and TLR2/NF-κB signaling pathways to protect against LPS-triggered cytokine storm in mice Possible reference: Zhang, F. et al. (2024) Bailixiang tea, an herbal medicine formula, co-suppresses TLR2/MAPK8 and TLR2/NF-κB signaling pathways to protect against LPS-triggered cytokine storm in mice., J Ethnopharmacol, PMID 39265795PXD051350 Dataset with its publication pending (from iProX) Dataset title: Synergistic Therapeutic Effects of D-Mannitol-Cerium-Quercetin (Rutin) Coordination Polymer Nanoparticles on Acute Lung Injury Possible reference: Zhang, Y. et al. (2024) Synergistic Therapeutic Effects of D-Mannitol-Cerium-Quercetin (Rutin) Coordination Polymer Nanoparticles on Acute Lung Injury., Molecules, PMID 38930884PXD051347 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics profiling of the honeybee parasite Tropilaelpas mercedesae across post-embryonic development Possible reference: Wei, Q. et al. (2024) Proteomics profiling of the honeybee parasite Tropilaelaps mercedesae across post-embryonic development., Sci Data, PMID 38750068PXD051328 Dataset with its publication pending (from iProX) Dataset title: Fluorescence imaging sheds light on the immune evasion mechanisms of hepatic stellate cells mediated by superoxide anion Possible reference: Mao, Y. et al. (2024) Fluorescence imaging sheds light on the immune evasion mechanisms of hepatic stellate cells mediated by superoxide anion., Commun Biol, PMID 38730013PXD051286 Dataset with its publication pending (from iProX) Dataset title: Proteomics of Rabbit Atherosclerotic Plaques Possible reference: Rather, RA. et al. (2016) Aqueous Terminalia arjuna extract modulates expression of key atherosclerosis-related proteins in a hypercholesterolemic rabbit: A proteomic-based study., Proteomics Clin Appl, PMID 26934842PXD051284 Dataset with its publication pending (from iProX) Dataset title: Proteomics of mice modeling NAFLD and after treatment with a novel chrysin derivative Possible reference: Zhang, R. et al. (2024) Synthesis and biological evaluation of the novel chrysin prodrug for non-alcoholic fatty liver disease treatment., Front Pharmacol, PMID 38708081PXD051282 Dataset with its publication pending (from iProX) Dataset title: Urinary proteomic analysis of HGSOC Possible reference: Ni, M. et al. (2024) Candidate prognostic biomarkers and prediction models for high-grade serous ovarian cancer from urinary proteomics., J Proteomics, PMID 38925351PXD051278 Dataset with its publication pending (from iProX) Dataset title: SUN5 interacts with nuclear membrane LaminB1 and cytoskeletal GTPase Septin12 mediating the sperm head-and-tail junction Possible reference: Zhang, Y. et al. (2024) SUN5 interacts with nuclear membrane LaminB1 and cytoskeletal GTPase Septin12 mediating the sperm head-and-tail junction., Mol Hum Reprod, PMID 38870534PXD051276 no publication (from MassIVE) Dataset title: Metabolomics reveals the importance of metabolites in Mussaenda pubescens for antioxidant properties and quality traits Possible reference: Zhou, C. et al. (2024) Metabolomics reveals the importance of metabolites in Mussaenda pubescens for antioxidant properties and quality traits., Physiol Plant, PMID 38628104PXD051275 Dataset with its publication pending (from PRIDE) Dataset title: Selective Mitochondrial Respiratory Complex I Subunit Deficiency Causes Tumor Immunogenicity Possible reference: Liang, J. et al. (2023) Selective Mitochondrial Respiratory Complex I Subunit Deficiency Causes Tumor Immunogenicity., bioRxiv, PMID 37873273PXD051262 no publication (from MassIVE) Dataset title: Liver and Pancreatic-Targeted Interleukin-22 as a Therapeutic for Metabolic Dysfunction-Associated Steatohepatitis Possible reference: Sajiir, H. et al. (2024) Liver and pancreatic-targeted interleukin-22 as a therapeutic for metabolic dysfunction-associated steatohepatitis., Nat Commun, PMID 38811532PXD051246 Dataset with its publication pending (from PRIDE) Dataset title: Neutrophil-derived migrasomes are an essential part of the coagulation system Possible reference: Jiang, D. et al. (2024) Neutrophil-derived migrasomes are an essential part of the coagulation system., Nat Cell Biol, PMID 38997457PXD051245 Dataset with its publication pending (from iProX) Dataset title: Clinical study on the plasma of COVID-19 vaccination and breakthrough infection Possible reference: Zhu, X. et al. (2023) Dynamics of inflammatory responses after SARS-CoV-2 infection by vaccination status in the USA: a prospective cohort study., Lancet Microbe, PMID 37659419PXD051238 Dataset with its publication pending (from PRIDE) Dataset title: Neutrophil-derived migrasomes are an essential part of the coagulation system Possible reference: Jiang, D. et al. (2024) Neutrophil-derived migrasomes are an essential part of the coagulation system., Nat Cell Biol, PMID 38997457PXD051231 Dataset with its publication pending (from PRIDE) Dataset title: Neutrophil-derived migrasomes are an essential part of the coagulation system Possible reference: Jiang, D. et al. (2024) Neutrophil-derived migrasomes are an essential part of the coagulation system., Nat Cell Biol, PMID 38997457PXD051229 Dataset with its publication pending (from PRIDE) Dataset title: Neutrophil-derived migrasomes are an essential part of the coagulation system Possible reference: Jiang, D. et al. (2024) Neutrophil-derived migrasomes are an essential part of the coagulation system., Nat Cell Biol, PMID 38997457PXD051224 Dataset with its publication pending (from PRIDE) Dataset title: Copper(I)-Nitrene Platform for Chemoproteomics Profiling of Methionine Possible reference: Sahu, S. et al. (2024) Copper(I)-nitrene platform for chemoproteomic profiling of methionine., Nat Commun, PMID 38762540PXD051216 Dataset with its publication pending (from PRIDE) Dataset title: Deciphering hepatitis B virus phospho-signature in primary human hepatocytes Possible reference: Pastor, F. et al. (2024) Deciphering the phospho-signature induced by hepatitis B virus in primary human hepatocytes., Front Microbiol, PMID 38841065PXD051197 Dataset with its publication pending (from PRIDE) Dataset title: Distinct phenotypes induced by acute hypoxia and TGF-β1 in human adult cardiac fibroblasts Possible reference: Khalil, NN. et al. (2024) Distinct phenotypes induced by acute hypoxia and TGF-β1 in human adult cardiac fibroblasts., J Mol Cell Cardiol Plus, PMID 39329164PXD051182 Dataset with its publication pending (from PRIDE) Dataset title: Exploring the early molecular pathogenesis of osteoarthritis using differential network analysis of human synovial fluid Possible reference: Shay, JW. et al. (2016) Abstracts from the 3rd International Genomic Medicine Conference (3rd IGMC 2015) : Jeddah, Kingdom of Saudi Arabia. 30 November - 3 December 2015., BMC Genomics, PMID 27454254PXD051130 Dataset with its publication pending (from PRIDE) Dataset title: Netrin-1 engineered endothelial cell exosomes induce the formation of pre-regenerative niche to accelerate peripheral nerve repair Possible reference: Huang, J. et al. (2024) Netrin-1-engineered endothelial cell exosomes induce the formation of pre-regenerative niche to accelerate peripheral nerve repair., Sci Adv, PMID 38941462PXD051128 Dataset with its publication pending (from PRIDE) Dataset title: GPATCH8 modulates mutant SF3B1 mis-splicing and pathogenicity in hematologic malignancies Possible reference: Benbarche, S. et al. (2024) GPATCH8 modulates mutant SF3B1 mis-splicing and pathogenicity in hematologic malignancies., Mol Cell, PMID 38688280PXD051120 Dataset with its publication pending (from iProX) Dataset title: Effect of SJQYD alleviate Sjögren’s Syndrome on protein expression of NOD/LTJ mice Possible reference: Wang, D. et al. (2020) Suppression of high-mobility group box 1 ameliorates xerostomia in a Sjgren syndrome-triggered mouse model., Can J Physiol Pharmacol, PMID 31935120PXD051080 Dataset with its publication pending (from iProX) Dataset title: TMT-Based Quantitative Proteomic Profiling of Human Esophageal Cancer Cells Reveals the Potential Mechanism and Potential Therapeutic Targets Associated with Radio-Resistance Possible reference: Gao, A. et al. (2024) TMT-Based Quantitative Proteomic Profiling of Human Esophageal Cancer Cells Reveals the Potential Mechanism and Potential Therapeutic Targets Associated With Radioresistance., Proteomics Clin Appl, PMID 39375892PXD051077 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of giant panda sperm Possible reference: Anel-Lpez, L. et al. (2017) Analysis of seminal plasma from brown bear (Ursus arctos) during the breeding season: Its relationship with testosterone levels., PLoS One, PMID 28771486PXD051075 Dataset with its publication pending (from PRIDE) Dataset title: Conventional cell fixation improves performance of in situ crosslinking mass spectrometry while preserving cellular ultrastructure Possible reference: Michael, ARM. et al. (2024) Cell fixation improves performance of in situ crosslinking mass spectrometry while preserving cellular ultrastructure., Nat Commun, PMID 39358380PXD051063 Dataset with its publication pending (from PRIDE) Dataset title: Comana monomorpha caterpillar venom proteomics Possible reference: Goudarzi, MH. et al. (2024) Phylogeny, envenomation syndrome, and membrane permeabilising venom produced by Australia's electric caterpillar Comana monomorpha., Sci Rep, PMID 38898081PXD051062 Dataset with its publication pending (from PRIDE) Dataset title: A comparative analysis of digestion methods for bile proteomics: the key to unlocking biliary biomarker potential in liver transplantation Possible reference: Thorne, AM. et al. (2024) Comparative Analysis of Digestion Methods for Bile Proteomics: The Key to Unlocking Biliary Biomarker Potential., Anal Chem, PMID 39186690PXD051022 Dataset with its publication pending (from PRIDE) Dataset title: Shared behavioural impairments in visual perception and place avoidance across different autism models are driven by periaqueductal grey hypoexcitability in Setd5 haploinsufficient mice. Possible reference: Burnett, LE. et al. (2024) Shared behavioural impairments in visual perception and place avoidance across different autism models are driven by periaqueductal grey hypoexcitability in Setd5 haploinsufficient mice., PLoS Biol, PMID 38857283PXD051018 Dataset with its publication pending (from PRIDE) Dataset title: Insulin and IGF1 receptor function in murine podocytes Possible reference: Wen, ZZ. et al. (2013) Angiotensin II receptor blocker attenuates intrarenal renin-angiotensin-system and podocyte injury in rats with myocardial infarction., PLoS One, PMID 23799145PXD050996 Dataset with its publication pending (from PRIDE) Dataset title: Efferocytosis of cardiomyocytes by macrophages in human cardiac microtissues Possible reference: Hamidzada, H. et al. (2024) Primitive macrophages induce sarcomeric maturation and functional enhancement of developing human cardiac microtissues via efferocytic pathways., Nat Cardiovasc Res, PMID 39086373PXD050983 Dataset with its publication pending (from PRIDE) Dataset title: Fam134c and Fam134b shape axonal endoplasmic reticulum architecture in vivo. Possible reference: Iavarone, F. et al. (2024) Fam134c and Fam134b shape axonal endoplasmic reticulum architecture in vivo., EMBO Rep, PMID 39039299PXD050927 no publication (from MassIVE) Dataset title: Salinity-induced photorespiration in poplar vascular tissues facilitates nitrogen reallocation Possible reference: Wilhelmi, MDMR. et al. (2024) Salinity-Induced Photorespiration in Populus Vascular Tissues Facilitate Nitrogen Reallocation., Plant Cell Environ, PMID 39351842PXD050923 Dataset with its publication pending (from jPOST) Dataset title: Phosphoproteomics analysis of serum from dogs affected with pulmonary hypertension secondary to degenerative mitral valve disease Possible reference: Sakarin, S. et al. (2024) Phosphoproteomics analysis of serum from dogs affected with pulmonary hypertension secondary to degenerative mitral valve disease., PeerJ, PMID 38708342PXD050877 Dataset with its publication pending (from PRIDE) Dataset title: Targeted proteomic approach for quantification of Collagen type I and type III in formalin-fixed paraffin-embedded tissue Possible reference: Rosin, NL. et al. (2024) Targeted proteomic approach for quantification of collagen type I and type III in formalin-fixed paraffin-embedded tissue., Sci Rep, PMID 39090134PXD050870 no publication (from MassIVE) Dataset title: Single-cell m6A profiling in the mouse brain uncovers cell type-specific RNA methylomes and age-dependent differential methylation Possible reference: Tegowski, M. et al. (2024) Single-cell m6A profiling in the mouse brain uncovers cell type-specific RNA methylomes and age-dependent differential methylation., Nat Neurosci, PMID 39317796PXD050857 Dataset with its publication pending (from PRIDE) Dataset title: The use of omics technologies in creating LBP and postbiotics based on the Limosilactobacillus fermentum U-21 Possible reference: Odorskaya, MV. et al. (2024) The use of omics technologies in creating LBP and postbiotics based on the Limosilactobacillus fermentum U-21., Front Microbiol, PMID 38919499PXD050850 Dataset with its publication pending (from iProX) Dataset title: The Role of DNA Origami in Treating Diabetic Sepsis Possible reference: Luo, X. et al. (2024) Role of Deoxyribonucleic Acid Origami for Alleviating Kidney and Liver Injury in Diabetic Sepsis., J Proteome Res, PMID 39264033PXD050844 Dataset with its publication pending (from PRIDE) Dataset title: PARP4 interacts with hnRNPM to regulate splicing during lung cancer progression Possible reference: Lee, YF. et al. (2024) PARP4 interacts with hnRNPM to regulate splicing during lung cancer progression., Genome Med, PMID 39034402PXD050843 Dataset with its publication pending (from iProX) Dataset title: Long-lived proteins and DNA as candidate predictive biomarkers for tissue associated diseases Possible reference: Liu, X. et al. (2024) Long-lived proteins and DNA as candidate predictive biomarkers for tissue associated diseases., iScience, PMID 38632996PXD050801 Dataset with its publication pending (from PRIDE) Dataset title: Chemoproteomics reveals immunogenic and tumor-associated cell surface substrates of ectokinase CK2α Possible reference: Delaveris, CS. et al. (2024) Chemoproteomics reveals immunogenic and tumor-associated cell surface substrates of ectokinase CK2α., bioRxiv, PMID 38562834PXD050798 Dataset with its publication pending (from PRIDE) Dataset title: Combining multiomics to analyze the molecular mechanism of hair follicle cycle change in cashmere goats from Inner Mongolia. Possible reference: Zhang, C. et al. (2024) Combining multiomics to analyze the molecular mechanism of hair follicle cycle change in cashmere goats from Inner Mongolia., Front Vet Sci, PMID 39036798PXD050791 Dataset with its publication pending (from iProX) Dataset title: Substrate and Functional Characterization of the Lysine Acetyltransferase and Deacetylase in Mycobacteria Possible reference: Vergnolle, O. et al. (2013) Mechanism and regulation of mycobactin fatty acyl-AMP ligase FadD33., J Biol Chem, PMID 23935107PXD050755 Dataset with its publication pending (from PRIDE) Dataset title: Secretome analysis of HSPD1 knockdown in A549 lung cancer cells Possible reference: Aluksanasuwan, S. et al. (2024) Knockdown of heat shock protein family D member 1 (HSPD1) in lung cancer cell altered secretome profile and cancer-associated fibroblast induction., Biochim Biophys Acta Mol Cell Res, PMID 38663552PXD050734 Dataset with its publication pending (from PRIDE) Dataset title: Crosslinking of Ly6a metabolically reprogram CD8 T cells for cancer immunotherapy. Possible reference: Maliah, A. et al. (2024) Crosslinking of Ly6a metabolically reprograms CD8 T cells for cancer immunotherapy., Nat Commun, PMID 39333093PXD050733 no publication (from MassIVE) Dataset title: SDS22 coordinates the assembly of holoenzymes from nascent protein phosphatase-1 Possible reference: Cao, X. et al. (2024) SDS22 coordinates the assembly of holoenzymes from nascent protein phosphatase-1., Nat Commun, PMID 38918402PXD050685 Dataset with its publication pending (from PRIDE) Dataset title: Redirecting the pioneering function of FOXA1 with covalent small molecules Possible reference: Won, SJ. et al. (2024) Redirecting the pioneering function of FOXA1 with covalent small molecules., bioRxiv, PMID 38562719PXD050684 Dataset with its publication pending (from PRIDE) Dataset title: The Interferon-inducible NAMPT acts as a protein phosphoribosylase to restrict viral infection Possible reference: Zhang, S. et al. (2023) The Interferon-inducible NAMPT acts as a protein phosphoribosylase to restrict viral infection., bioRxiv, PMID 37905103PXD050636 Dataset with its publication pending (from iProX) Dataset title: Palmitoylation licenses RIPK1 cytotoxicity in the TNF pathway Possible reference: Zhang, N. et al. (2024) Palmitoylation licenses RIPK1 kinase activity and cytotoxicity in the TNF pathway., Mol Cell, PMID 39471814PXD050593 Dataset with its publication pending (from jPOST) Dataset title: Changes in Protein Fluxes in Skeletal Muscle During Sequential Stages of Muscle Regeneration After Acute Injury in Male Mice Possible reference: Bizieff, A. et al. (2024) Changes in protein fluxes in skeletal muscle during sequential stages of muscle regeneration after acute injury in male mice., Sci Rep, PMID 38849371PXD050561 no publication (from MassIVE) Dataset title: A multiscale functional map of somatic mutations in cancer integrating protein structure and network topology Possible reference: Zhang, Y. et al. (2024) A multiscale functional map of somatic mutations in cancer integrating protein structure and network topology., bioRxiv, PMID 36945530PXD050551 Dataset with its publication pending (from iProX) Dataset title: Phosphoproteomics of postharvest blueberries softening Possible reference: Sun, L. et al. (2024) Phosphoproteomic Analysis Indicates Phosphorylated Proteins in Response to Postharvest Blueberries Fruit Softening during Shelf Life., J Agric Food Chem, PMID 39257137PXD050510 Dataset with its publication pending (from iProX) Dataset title: In situ chemoproteomic profiling reveals itaconate inhibits de novo purine biosynthesis in pathogens Possible reference: Liu, Z. et al. (2024) In situ chemoproteomic profiling reveals itaconate inhibits de novo purine biosynthesis in pathogens., Cell Rep, PMID 39277862PXD050493 Dataset with its publication pending (from PRIDE) Dataset title: A High-Performance Workflow for Identifying Site-Specific Crosslinks Originating from a Genetically Incorporated, Photoreactive Amino Acid Possible reference: Ulmer, LD. et al. (2024) High-Performance Workflow for Identifying Site-Specific Crosslinks Originating from a Genetically Incorporated, Photoreactive Amino Acid., J Proteome Res, PMID 38968604PXD050492 Dataset with its publication pending (from jPOST) Dataset title: Changes in Protein Fluxes in Skeletal Muscle During Sequential Stages of Muscle Regeneration After Acute Injury in Male Mice Possible reference: Bizieff, A. et al. (2024) Changes in protein fluxes in skeletal muscle during sequential stages of muscle regeneration after acute injury in male mice., Sci Rep, PMID 38849371PXD050465 Dataset with its publication pending (from iProX) Dataset title: Phosphoproteomics reveal that phosphorylation of MTDH by CDK5 inhibits protein synthesis in microglia Possible reference: Shen, J. et al. (2024) Phosphoproteomic analysis reveals CDK5-Mediated phosphorylation of MTDH inhibits protein synthesis in microglia., Biochem Biophys Res Commun, PMID 39260336PXD050430 Dataset with its publication pending (from iProX) Dataset title: Proteomic Analysis of Moorella thermoacetica-g-C3N4 Nanocomposite system for Artificial Photosynthesis Possible reference: Shen, J. et al. (2024) Proteomic and metabolic analysis of Moorella thermoacetica-g-C3N4 nanocomposite system for artificial photosynthesis., Talanta, PMID 38941811PXD050423 Dataset with its publication pending (from PRIDE) Dataset title: Prey killing without invasion by Bdellovibrio bacteriovorus defective for a MIDAS-family adhesin Possible reference: Tyson, J. et al. (2024) Prey killing without invasion by Bdellovibrio bacteriovorus defective for a MIDAS-family adhesin., Nat Commun, PMID 38594280PXD050401 Dataset with its publication pending (from PRIDE) Dataset title: GFI1B and LSD1 repress myeloid traits during megakaryocyte differentiation Possible reference: Venhuizen, J. et al. (2024) GFI1B and LSD1 repress myeloid traits during megakaryocyte differentiation., Commun Biol, PMID 38548886PXD050388 Dataset with its publication pending (from iProX) Dataset title: Immunoregulatory role of the gut microbiota in inflammatory depression Possible reference: Rook, GA. et al. (2014) Microbiota, immunoregulatory old friends and psychiatric disorders., Adv Exp Med Biol, PMID 24997041PXD050386 Dataset with its publication pending (from iProX) Dataset title: Cellular proteomic perturbed by bacterial OMVs reveals molecular information on bacteria-mediated cancer cell migration Possible reference: Zhao, L. et al. (2024) Proteomic Analysis of Caco-2 Cells Disrupted by EcN 1917-Derived OMVs Reveals Molecular Information on Bacteria-Mediated Cancer Cell Migration., J Proteome Res, PMID 38845157PXD050356 Dataset with its publication pending (from PRIDE) Dataset title: NRVM Conditioned Media Proteomics Possible reference: Blackwood, EA. et al. (2020) Proteomic analysis of the cardiac myocyte secretome reveals extracellular protective functions for the ER stress response., J Mol Cell Cardiol, PMID 32339566PXD050348 Dataset with its publication pending (from PRIDE) Dataset title: Venom evolution of 15 neotropical ants Possible reference: Menk, JJ. et al. (2023) Antimicrobial Peptide Arsenal Predicted from the Venom Gland Transcriptome of the Tropical Trap-Jaw Ant Odontomachus chelifer., Toxins (Basel), PMID 37235379PXD050341 no publication (from MassIVE) Dataset title: Analysis of Protein Cysteine Acylation Using a Modified Suspension Trap (Acyl-Trap) Possible reference: Forrester, MT. et al. (2024) Analysis of Protein Cysteine Acylation Using a Modified Suspension Trap (Acyl-Trap)., bioRxiv, PMID 38585928PXD050328 Dataset with its publication pending (from PRIDE) Dataset title: HDAC inhibitors activate lipid peroxidation and ferroptosis in gastric cancer Possible reference: Jenke, R. et al. (2024) HDAC inhibitors activate lipid peroxidation and ferroptosis in gastric cancer., Biochem Pharmacol, PMID 38705532PXD050309 Dataset with its publication pending (from iProX) Dataset title: Serum biomarkers in patients with drug-resistant epilepsy: a proteomics-based analysis Possible reference: Ma, M. et al. (2024) Serum biomarkers in patients with drug-resistant epilepsy: a proteomics-based analysis., Front Neurol, PMID 38585359PXD050293 Dataset with its publication pending (from iProX) Dataset title: Proteomics of High dose of TCM in osteoporosis rat Possible reference: Chu, S. et al. (2021) Effects and Mechanism of Zishen Jiangtang Pill on Diabetic Osteoporosis Rats Based on Proteomic Analysis., Evid Based Complement Alternat Med, PMID 34608397PXD050279 Dataset with its publication pending (from PRIDE) Dataset title: BAG3 regulates cilia homeostasis of glioblastoma via its WW domain Possible reference: Roth, C. et al. (2024) BAG3 regulates cilia homeostasis of glioblastoma via its WW domain., Biofactors, PMID 38655699PXD050263 no publication (from MassIVE) Dataset title: Deficiency in the SNARE protein SYNTAXIN-11 causes a secondary B cell defect Possible reference: Kgl, T. et al. (2024) Patients and mice with deficiency in the SNARE protein SYNTAXIN-11 have a secondary B cell defect., J Exp Med, PMID 38722309PXD050210 Dataset with its publication pending (from PRIDE) Dataset title: TRP14 is the rate limiting enzyme for intracellular cystine reduction and regulates proteome cysteinylation. Possible reference: Mart-Andrs, P. et al. (2024) TRP14 is the rate-limiting enzyme for intracellular cystine reduction and regulates proteome cysteinylation., EMBO J, PMID 38811853PXD050207 Dataset with its publication pending (from iProX) Dataset title: Lysine succinylome in human skin Possible reference: Zheng, H. et al. (2016) Systematic Analysis of the Lysine Succinylome in Candida albicans., J Proteome Res, PMID 27605073PXD050197 no publication (from MassIVE) Dataset title: Oligonucleotide-mediated proximity-interactome mapping (O-MAP): A unified method for discovering RNA-interacting proteins, transcripts and genomic loci in situ. Possible reference: Tsue, AF. et al. (2023) Oligonucleotide-directed proximity-interactome mapping (O-MAP): A unified method for discovering RNA-interacting proteins, transcripts and genomic loci in situ., bioRxiv, PMID 36711823PXD050196 no publication (from MassIVE) Dataset title: Directed Evolution of Genetically Encoded LYTACs for Cell-Mediated Delivery Possible reference: Yang, JL. et al. (2023) Directed Evolution of Genetically Encoded LYTACs for Cell-Mediated Delivery., bioRxiv, PMID 38014030PXD050186 no publication (from MassIVE) Dataset title: Retinal cells derived from patients with DRAM2-dependent CORD21 dystrophy exhibit key lysosomal enzyme deficiency and lysosomal content accumulation Possible reference: Tsikandelova, R. et al. (2024) Retinal cells derived from patients with DRAM2-dependent CORD21 dystrophy exhibit key lysosomal enzyme deficiency and lysosomal content accumulation., Stem Cell Reports, PMID 38964324PXD050174 no publication (from MassIVE) Dataset title: mRNA-LNP HIV-1 trimer boosters elicit precursors to bnAbs Possible reference: Xie, Z. et al. (2024) mRNA-LNP HIV-1 trimer boosters elicit precursors to broad neutralizing antibodies., Science, PMID 38753770PXD050163 no publication (from MassIVE) Dataset title: Vaccine priming of rare HIV broadly neutralizing antibody precursors in nonhuman primates Possible reference: Steichen, JM. et al. (2024) Vaccine priming of rare HIV broadly neutralizing antibody precursors in nonhuman primates., Science, PMID 38753769PXD050154 Dataset with its publication pending (from PRIDE) Dataset title: Impact of Surfactants on Cumulative Trypsin Activity for Bottom-up Proteome Analysis Possible reference: Nickerson, JL. et al. (2024) Impact of Surfactants on Cumulative Trypsin Activity in Bottom-Up Proteome Analysis., J Proteome Res, PMID 38973097PXD050153 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of secretion of transmembrane effectors by the type IV b secretion system of Legionella pneumophila Possible reference: Malmsheimer, S. et al. (2024) The T4bSS of Legionella features a two-step secretion pathway with an inner membrane intermediate for secretion of transmembrane effectors., bioRxiv, PMID 38559167PXD050150 no publication (from MassIVE) Dataset title: Tight regulation of a nuclear HAPSTR1-HUWE1 pathway essential for mammalian life Possible reference: Amici, DR. et al. (2024) Tight regulation of a nuclear HAPSTR1-HUWE1 pathway essential for mammalian life., Life Sci Alliance, PMID 38453366PXD050139 Dataset with its publication pending (from PRIDE) Dataset title: Implications of O-glycan modifications in the hinge region of a plant-produced SARS-CoV-2-IgA antibody on functionality Possible reference: Uetz, P. et al. (2024) Implications of O-glycan modifications in the hinge region of a plant-produced SARS-CoV-2-IgA antibody on functionality., Front Bioeng Biotechnol, PMID 38511130PXD050109 no publication (from MassIVE) Dataset title: Active site remodeling of IDH1 by tumor_relevant mutations and potential resistance mechanisms Possible reference: Mealka, M. et al. (2024) Active site remodeling in tumor-relevant IDH1 mutants drives distinct kinetic features and potential resistance mechanisms., bioRxiv, PMID 38260668PXD050098 Dataset with its publication pending (from jPOST) Dataset title: Hydrophilic interaction chromatography coupled to ultraviolet photodissociation affords identification, localization, and relative quantitation of glycans on intact glycoproteins Possible reference: James, VK. et al. (2024) Hydrophilic Interaction Chromatography Coupled to Ultraviolet Photodissociation Affords Identification, Localization, and Relative Quantitation of Glycans on Intact Glycoproteins., J Proteome Res, PMID 39312773PXD050087 Dataset with its publication pending (from PRIDE) Dataset title: Purification of time-resolved insulin granules reveals proteomic and lipidomic changes during granule aging Possible reference: Neukam, M. et al. (2024) Purification of time-resolved insulin granules reveals proteomic and lipidomic changes during granule aging., Cell Rep, PMID 38421874PXD050055 Dataset with its publication pending (from iProX) Dataset title: Proteins interacting with SARS-CoV-2 ORF9b Possible reference: Singh, KK. et al. (2020) Decoding SARS-CoV-2 hijacking of host mitochondria in COVID-19 pathogenesis., Am J Physiol Cell Physiol, PMID 32510973PXD050042 Dataset with its publication pending (from PRIDE) Dataset title: MEF2A interactome in striated muscle by an affinity-purification followed by LC-MS-MS Possible reference: Steiman, S. et al. (2024) FoxP1 Represses MEF2A in Striated Muscle., Mol Cell Biol, PMID 38483114PXD050038 no publication (from MassIVE) Dataset title: A Protein Phosphatase 1 specific phosphatase targeting peptide (PhosTAP) to identify the PP1 phosphatome Possible reference: Choy, MS. et al. (2024) A protein phosphatase 1 specific phosphatase targeting peptide (PhosTAP) to identify the PP1 phosphatome., Proc Natl Acad Sci U S A, PMID 39446389PXD050024 Dataset with its publication pending (from PRIDE) Dataset title: Do extracellular vesicles have specific target cells? Extracellular Vesicle mediated embryo maternal communication Possible reference: Delorme-Axford, E. et al. (2013) Human placental trophoblasts confer viral resistance to recipient cells., Proc Natl Acad Sci U S A, PMID 23818581PXD049996 Dataset with its publication pending (from PRIDE) Dataset title: Proinsulin degradation and presentation of a proinsulin B-chain autoantigen involves ER-associated protein degradation (ERAD)-enzyme UBE2G2 Possible reference: Cremer, T. et al. (2024) Proinsulin degradation and presentation of a proinsulin B-chain autoantigen involves ER-associated protein degradation (ERAD)-enzyme UBE2G2., PLoS One, PMID 38787820PXD049992 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic characteristics in degenerated and regenerative mouse retina Possible reference: Wang, X. et al. (2024) Comparative proteomic analysis of regenerative mechanisms in mouse retina to identify markers for neuro-regeneration in glaucoma., Sci Rep, PMID 39366989PXD049989 Dataset with its publication pending (from PRIDE) Dataset title: Regulation of Far11 phosphorylation by Ppg1 phosphatase Possible reference: Furukawa, K. et al. (2018) The PP2A-like Protein Phosphatase Ppg1 and the Far Complex Cooperatively Counteract CK2-Mediated Phosphorylation of Atg32 to Inhibit Mitophagy., Cell Rep, PMID 29925000PXD049969 Dataset with its publication pending (from PRIDE) Dataset title: Influence of Different Sample Preparation Approaches on Proteoform Identification by Top-Down Proteomics Possible reference: Kaulich, PT. et al. (2024) Influence of different sample preparation approaches on proteoform identification by top-down proteomics., Nat Methods, PMID 39438734PXD049968 no publication (from MassIVE) Dataset title: Thylakoid Protein FPB1 Synergistically Cooperates with PAM68 to Promote CP47 Biogenesis and Photosystem II Assembly Possible reference: Zhang, L. et al. (2024) Thylakoid protein FPB1 synergistically cooperates with PAM68 to promote CP47 biogenesis and Photosystem II assembly., Nat Commun, PMID 38600073PXD049966 Dataset with its publication pending (from PRIDE) Dataset title: Threonine fuels glioblastoma through YRDC-mediated codon-biased translational reprogramming Possible reference: Wu, X. et al. (2024) Threonine fuels glioblastoma through YRDC-mediated codon-biased translational reprogramming., Nat Cancer, PMID 38519786PXD049965 no publication (from MassIVE) Dataset title: Differences in Protein Capture by SP3 and SP4 Demonstrate Mechanistic Insights of Proteomics Clean-up Techniques. Possible reference: Conforti, JM. et al. (2024) Differences in Protein Capture by SP3 and SP4 Demonstrate Mechanistic Insights of Proteomics Clean-up Techniques., bioRxiv, PMID 38559195PXD049704 Dataset with its publication pending (from iProX) Dataset title: Proteostatic reactivation of the developmental transcription factor TBX3 drives BRAF/MAPK-mediated tumorigenesis Possible reference: Zhang, Z. et al. (2024) Proteostatic reactivation of the developmental transcription factor TBX3 drives BRAF/MAPK-mediated tumorigenesis., Nat Commun, PMID 38750011PXD049700 Dataset with its publication pending (from PRIDE) Dataset title: Phase separation of CTD of RNAPII Possible reference: Narita, T. et al. (2017) Cyclin-dependent kinase 9 is a novel specific molecular target in adult T-cell leukemia/lymphoma., Blood, PMID 28646117PXD049479 Dataset with its publication pending (from PRIDE) Dataset title: Vibrio coralliilyticus T6SS comparative proteomics Possible reference: Mass, S. et al. (2024) The coral pathogen Vibrio coralliilyticus uses a T6SS to secrete a group of novel anti-eukaryotic effectors that contribute to virulence., PLoS Biol, PMID 39226241PXD049478 Dataset with its publication pending (from PRIDE) Dataset title: Protein aggregation is a consequence of the dormancy-inducing membrane toxin TisB in Escherichia coli Possible reference: Leinberger, FH. et al. (2024) Protein aggregation is a consequence of the dormancy-inducing membrane toxin TisB in Escherichia coli., mSystems, PMID 39377584PXD049473 Dataset with its publication pending (from PRIDE) Dataset title: An outer membrane porin-lipoprotein complex modulates elongasome movement to establish cell curvature in Rhodospirillum rubrum Possible reference: Phl, S. et al. (2024) An outer membrane porin-lipoprotein complex modulates elongasome movement to establish cell curvature in Rhodospirillum rubrum., Nat Commun, PMID 39223154PXD049468 Dataset with its publication pending (from iProX) Dataset title: An antifouling membrane-fusogenic liposome for effective intracellular delivery in vivo Possible reference: Kong, H. et al. (2024) An antifouling membrane-fusogenic liposome for effective intracellular delivery in vivo., Nat Commun, PMID 38769317PXD049459 Dataset with its publication pending (from iProX) Dataset title: Proteomic sequencing of ADAM17 deficiency mouse Possible reference: Sommer, A. et al. (2016) Phosphatidylserine exposure is required for ADAM17 sheddase function., Nat Commun, PMID 27161080PXD049433 Dataset with its publication pending (from PRIDE) Dataset title: Proximity labeling proteomics reveals Kv1.3 potassium channel immune interactors in microglia. Possible reference: Bowen, CA. et al. (2024) Proximity Labeling Proteomics Reveals Kv1.3 Potassium Channel Immune Interactors in Microglia., Mol Cell Proteomics, PMID 38936775PXD049391 Dataset with its publication pending (from PRIDE) Dataset title: Molecular mechanism of β-arrestin-2 pre-activation by phosphatidylinositol 4,5-bisphosphate Possible reference: Kim, K. et al. (2024) Molecular mechanism of β-arrestin-2 pre-activation by phosphatidylinositol 4,5-bisphosphate., EMBO Rep, PMID 39242774PXD049383 Dataset with its publication pending (from PRIDE) Dataset title: Clinical implications and molecular features of extracellular matrix networks in soft tissue sarcomas Possible reference: Pankova, V. et al. (2024) Clinical Implications and Molecular Features of Extracellular Matrix Networks in Soft Tissue Sarcomas., Clin Cancer Res, PMID 38810090PXD049373 Dataset with its publication pending (from PRIDE) Dataset title: Clinical implications and molecular features of extracellular matrix networks in soft tissue sarcomas Possible reference: Pankova, V. et al. (2024) Clinical Implications and Molecular Features of Extracellular Matrix Networks in Soft Tissue Sarcomas., Clin Cancer Res, PMID 38810090PXD049369 Dataset with its publication pending (from PRIDE) Dataset title: Helical superstructures between amyloid and collagen VI in heart derived fibrils from a patient with Light Chain Amyloidosis Possible reference: Schulte, T. et al. (2024) Helical superstructures between amyloid and collagen in cardiac fibrils from a patient with AL amyloidosis., Nat Commun, PMID 39069558PXD049330 Dataset with its publication pending (from PRIDE) Dataset title: Alkylamine-tethered molecules recruit FBXO22 for targeted protein degradation Possible reference: Kagiou, C. et al. (2024) Alkylamine-tethered molecules recruit FBXO22 for targeted protein degradation., Nat Commun, PMID 38926334PXD049316 Dataset with its publication pending (from PRIDE) Dataset title: The RBPome of influenza A virus mRNA reveals a role for TDP-43 in viral replication Possible reference: Dupont, M. et al. (2024) The RBPome of influenza A virus NP-mRNA reveals a role for TDP-43 in viral replication., Nucleic Acids Res, PMID 38686810PXD049307 no publication (from MassIVE) Dataset title: Substrate recognition principles for PP2A-B55 Possible reference: Kruse, T. et al. (2024) Substrate recognition principles for the PP2A-B55 protein phosphatase., bioRxiv, PMID 38370611PXD049306 no publication (from MassIVE) Dataset title: DNAJB8 oligomerization is mediated by an aromatic-rich motif that is dispensable for substrate activity Possible reference: Ryder, BD. et al. (2024) DNAJB8 oligomerization is mediated by an aromatic-rich motif that is dispensable for substrate activity., bioRxiv, PMID 36945632PXD049301 Dataset with its publication pending (from PRIDE) Dataset title: Helical superstructures between amyloid and collagen VI in heart derived fibrils from a patient with Light Chain Amyloidosis Possible reference: Schulte, T. et al. (2024) Helical superstructures between amyloid and collagen in cardiac fibrils from a patient with AL amyloidosis., Nat Commun, PMID 39069558PXD049267 Dataset with its publication pending (from iProX) Dataset title: Lysine Acylations in Bacillus thuringiensis Possible reference: Liu, T. et al. (2024) Characterization of diverse lysine acylations in Bacillus thuringiensis: Substrate profiling and functional exploration., Proteomics, PMID 38491406PXD049235 Dataset with its publication pending (from PRIDE) Dataset title: PKM2 functions as a histidine kinase to phosphorylate PGAM1 to increase glycolysis shunts in cancer Possible reference: Wang, Y. et al. (2024) PKM2 functions as a histidine kinase to phosphorylate PGAM1 and increase glycolysis shunts in cancer., EMBO J, PMID 38750259PXD049214 no publication (from MassIVE) Dataset title: HDX-MS of murine urokinase plasminogen activator and variants Possible reference: Kromann-Hansen, T. et al. (2018) Ligand binding modulates the structural dynamics and activity of urokinase-type plasminogen activator: A possible mechanism of plasminogen activation., PLoS One, PMID 29420634PXD049210 Dataset with its publication pending (from PRIDE) Dataset title: Mass spectrometry analysis of the testicular interstitial fluid exosome Possible reference: Han, D. et al. (2023) Altered transcriptomic and metabolomic profiles of testicular interstitial fluid during aging in mice., Theriogenology, PMID 36773384PXD049203 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomics-directed manipulation reveals SEC22B as an hepatocellular signaling node governing metabolic actions of glucagon Possible reference: Wu, Y. et al. (2024) Phosphoproteomics-directed manipulation reveals SEC22B as a hepatocellular signaling node governing metabolic actions of glucagon., Nat Commun, PMID 39333498PXD049186 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomics-directed manipulation reveals SEC22B as an hepatocellular signaling node governing metabolic actions of glucagon Possible reference: Wu, Y. et al. (2024) Phosphoproteomics-directed manipulation reveals SEC22B as a hepatocellular signaling node governing metabolic actions of glucagon., Nat Commun, PMID 39333498PXD049166 Dataset with its publication pending (from iProX) Dataset title: An Integrated Multi-Omics Profiling Landscape of Organizing Pneumonia Possible reference: Tang, Y. et al. (2024) Integrated multi-omics profiling landscape of organising pneumonia., Clin Transl Med, PMID 39083563PXD049163 Dataset with its publication pending (from iProX) Dataset title: Molecular Response During Ocean Voyages Possible reference: Kim, Y. et al. (2016) Transporting Ocean Viromes: Invasion of the Aquatic Biosphere., PLoS One, PMID 27055282PXD049141 Dataset with its publication pending (from iProX) Dataset title: [HPP-2.0] Dynamic phosphotyrosine-dependent signaling profiling in living cells by two-dimensional proximity proteomics Possible reference: Kong, Q. et al. (2022) Dynamic Phosphotyrosine-Dependent Signaling Profiling in Living Cells by Two-Dimensional Proximity Proteomics., J Proteome Res, PMID 36280823PXD049136 Dataset with its publication pending (from PRIDE) Dataset title: Widespread prevalence of a post-translational modification in activation of an essential bacterial DNA damage response Possible reference: Kamat, A. et al. (2024) Widespread prevalence of a methylation-dependent switch to activate an essential DNA damage response in bacteria., PLoS Biol, PMID 38466718PXD049121 no publication (from MassIVE) Dataset title: Delineating Bovine Milk Derived Microvesicles from Exosomes Using Proteomics Possible reference: Couse, AD. et al. (2024) Delineating Bovine Milk Derived Microvesicles from Exosomes Using Proteomics., J Proteome Res, PMID 38805445PXD049110 Dataset with its publication pending (from PRIDE) Dataset title: Sequential Glycosylations at the Multibasic Cleavage Site of SARS-CoV-2 Spike Protein Regulate Viral Activation, Assembly, and Infection Possible reference: Wang, S. et al. (2024) Sequential glycosylations at the multibasic cleavage site of SARS-CoV-2 spike protein regulate viral activity., Nat Commun, PMID 38755139PXD049085 Dataset with its publication pending (from PRIDE) Dataset title: Interplay between Two Paralogous Human Silencing Hub (HuSH) Complexes in Regulating LINE-1 Element Silencing Possible reference: Jensvold, ZD. et al. (2024) Interplay between Two Paralogous Human Silencing Hub (HuSH) Complexes in Regulating LINE-1 Element Silencing., bioRxiv, PMID 38313255PXD049069 Dataset with its publication pending (from iProX) Dataset title: FBXO7 Ubiquitinates PRMT1 to Suppress Serine Synthesis and Tumor Growth in HCC Possible reference: Luo, L. et al. (2024) FBXO7 ubiquitinates PRMT1 to suppress serine synthesis and tumor growth in hepatocellular carcinoma., Nat Commun, PMID 38839752PXD049046 Dataset with its publication pending (from PRIDE) Dataset title: A deterministic, c-di-GMP-dependent genetic program ensures the generation of phenotypically similar, symmetric daughter cells during cytokinesis Possible reference: Prez-Burgos, M. et al. (2024) A deterministic, c-di-GMP-dependent program ensures the generation of phenotypically similar, symmetric daughter cells during cytokinesis., Nat Commun, PMID 39019889PXD049023 Dataset with its publication pending (from iProX) Dataset title: Characteristics of changes in plasma proteome profiling after sleeve gastrectomy Possible reference: Zhang, Y. et al. (2024) Characteristics of changes in plasma proteome profiling after sleeve gastrectomy., Front Endocrinol (Lausanne), PMID 38375199PXD049022 Dataset with its publication pending (from PRIDE) Dataset title: The functional small RNA interactome reveals targets for the vancomycin-responsive sRNA RsaOI in vancomycin tolerant Staphylococcus aureu Possible reference: Wu, W. et al. (2024) The functional small RNA interactome reveals targets for the vancomycin-responsive sRNA RsaOI in vancomycin-tolerant Staphylococcus aureus., mSystems, PMID 38534138PXD049003 Dataset with its publication pending (from PRIDE) Dataset title: Deciphering Staphylococcus aureus-host dynamics using dual Activity-based protein profiling of ATP-interacting proteins Possible reference: Ahator, SD. et al. (2024) Deciphering Staphylococcus aureus-host dynamics using dual activity-based protein profiling of ATP-interacting proteins., mSystems, PMID 38656122PXD048995 Dataset with its publication pending (from iProX) Dataset title: Hypoxia promotes histone H3K9 lactylation to enhance LAMC2 transcription in esophageal squamous cell carcinoma Possible reference: Zang, Y. et al. (2024) Hypoxia promotes histone H3K9 lactylation to enhance LAMC2 transcription in esophageal squamous cell carcinoma., iScience, PMID 38989468PXD048959 Dataset with its publication pending (from iProX) Dataset title: Optimizing and integrating depletion and precipitation methods for plasma proteomics through data-independent acquisition-mass spectrometry Possible reference: Zhou, Y. et al. (2024) Optimizing and integrating depletion and precipitation methods for plasma proteomics through data-independent acquisition-mass spectrometry., J Chromatogr B Analyt Technol Biomed Life Sci, PMID 38382157PXD048952 Dataset with its publication pending (from iProX) Dataset title: Targeting REGγ proteasome to facilitate target protein degradation Possible reference: Zhang, M. et al. (2012) REGγ is a strong candidate for the regulation of cell cycle, proliferation and the invasion by poorly differentiated thyroid carcinoma cells., Braz J Med Biol Res, PMID 22415115PXD048947 Dataset with its publication pending (from iProX) Dataset title: The mechanism of tigecycline resistance in Acinetobacter baumannii under sub-minimal inhibitory concentration tigecycline Possible reference: Liu, C. et al. (2024) The Mechanism of Tigecycline Resistance in Acinetobacter baumannii under Sub-Minimal Inhibitory Concentrations of Tigecycline., Int J Mol Sci, PMID 38339095PXD048893 Dataset with its publication pending (from jPOST) Dataset title: Volatile communication in plants relies on a KAI2-mediated signaling pathway Possible reference: Stirling, SA. et al. (2024) Volatile communication in plants relies on a KAI2-mediated signaling pathway., Science, PMID 38513014PXD048870 Dataset with its publication pending (from PRIDE) Dataset title: Identifying cellular RNA-binding proteins during infection uncovers a role for MKRN2 in influenza mRNA trafficking. Possible reference: Bonazza, S. et al. (2024) Identifying cellular RNA-binding proteins during infection uncovers a role for MKRN2 in influenza mRNA trafficking., PLoS Pathog, PMID 38753876PXD048866 Dataset with its publication pending (from PRIDE) Dataset title: Mouse tumor cell SCC7/SCC7-M LC-MS Possible reference: Wang, J. et al. (2024) Chemopreventive effect of modified zeng-sheng-ping on oral squamous cell carcinoma by regulating tumor associated macrophages through targeting tnf alpha induced protein 6., BMC Complement Med Ther, PMID 39068492PXD048855 Dataset with its publication pending (from iProX) Dataset title: Unravelling Intracellular Protein Corona Components of Nanoplas-tics via Photocatalytic Protein Proximity Labeling Possible reference: Zhang, Z. et al. (2024) Unraveling Intracellular Protein Corona Components of Nanoplastics via Photocatalytic Protein Proximity Labeling., Anal Chem, PMID 38471057PXD048849 Dataset with its publication pending (from PRIDE) Dataset title: Detection of structure-specific interactions of Rab GTPases Possible reference: Holfeld, A. et al. (2024) Systematic identification of structure-specific protein-protein interactions., Mol Syst Biol, PMID 38702390PXD048833 Dataset with its publication pending (from PRIDE) Dataset title: Human aneuploid cells depend on the RAF/MEK/ERK pathway for overcoming increased DNA damage Possible reference: Zerbib, J. et al. (2024) Human aneuploid cells depend on the RAF/MEK/ERK pathway for overcoming increased DNA damage., Nat Commun, PMID 39251587PXD048829 Dataset with its publication pending (from PRIDE) Dataset title: Fibroblasts’ secretome from calcified and non-calcified dermis in Pseudoxanthoma elasticum differently contributes to elastin calcification. Possible reference: Lofaro, FD. et al. (2024) Fibroblasts' secretome from calcified and non-calcified dermis in Pseudoxanthoma elasticum differently contributes to elastin calcification., Commun Biol, PMID 38755434PXD048823 Dataset with its publication pending (from iProX) Dataset title: The sulfenylation sites of Galectin-9 in human purified protein Possible reference: Song, J. et al. (2024) Sulfur dioxide inhibits mast cell degranulation by sulphenylation of galectin-9 at cysteine 74., Front Immunol, PMID 38953022PXD048820 Dataset with its publication pending (from iProX) Dataset title: Cpt1a drives Lipid remodeling in Primed-to-Nave Pluripotency Transition Possible reference: Ma, Z. et al. (2024) Cpt1a Drives primed-to-nave pluripotency transition through lipid remodeling., Commun Biol, PMID 39349670PXD048803 Dataset with its publication pending (from PRIDE) Dataset title: Legume resistance against pathogen is enhanced by rhizobia and does not impair mutualism Possible reference: Hernndez-Reyes, C. et al. (2014) N-acyl-homoserine lactones-producing bacteria protect plants against plant and human pathogens., Microb Biotechnol, PMID 25234390PXD048799 Dataset with its publication pending (from PRIDE) Dataset title: GlPRMT5 inhibits GlPP2C1 via symmetric dimethylation and regulates the biosynthesis of secondary metabolites in Ganoderma lucidum Possible reference: Wang, Z. et al. (2024) GlPRMT5 inhibits GlPP2C1 via symmetric dimethylation and regulates the biosynthesis of secondary metabolites in Ganoderma lucidum., Commun Biol, PMID 38418849PXD048756 Dataset with its publication pending (from PRIDE) Dataset title: MS-CETSA Target Identification of MMV007574 Possible reference: Dziekan, JM. et al. (2019) Identifying purine nucleoside phosphorylase as the target of quinine using cellular thermal shift assay., Sci Transl Med, PMID 30602534PXD048752 Dataset with its publication pending (from PRIDE) Dataset title: MS-CETSA Target Identification of MMV665971 Possible reference: Dziekan, JM. et al. (2019) Identifying purine nucleoside phosphorylase as the target of quinine using cellular thermal shift assay., Sci Transl Med, PMID 30602534PXD048750 Dataset with its publication pending (from PRIDE) Dataset title: MS-CETSA Target Identification of MMV006656. Possible reference: Dziekan, JM. et al. (2019) Identifying purine nucleoside phosphorylase as the target of quinine using cellular thermal shift assay., Sci Transl Med, PMID 30602534PXD048745 Dataset with its publication pending (from PRIDE) Dataset title: MS-CETSA Target Identification of MMV665987 Possible reference: Dziekan, JM. et al. (2019) Identifying purine nucleoside phosphorylase as the target of quinine using cellular thermal shift assay., Sci Transl Med, PMID 30602534PXD048737 Dataset with its publication pending (from PRIDE) Dataset title: MS-CETSA Target Identification of MMV000848 Possible reference: Wirjanata, G. et al. (2024) Identification of an inhibitory pocket in falcilysin provides a new avenue for malaria drug development., Cell Chem Biol, PMID 38593807PXD048714 Dataset with its publication pending (from PRIDE) Dataset title: Fonsecaea pedrosoi response to zinc deprivation Possible reference: Santos, TAO. et al. (2024) Zinc Starvation Induces Cell Wall Remodeling and Activates the Antioxidant Defense System in Fonsecaea pedrosoi., J Fungi (Basel), PMID 38392790PXD048711 Dataset with its publication pending (from PRIDE) Dataset title: CemR atypical response regulator impacts energy conversion in Campylobacteria Possible reference: Noszka, M. et al. (2024) CemR atypical response regulator impacts energy conversion in Campylobacteria., mSystems, PMID 38980050PXD048708 Dataset with its publication pending (from iProX) Dataset title: DIA of bone tissue in Femoral Head Osteonecrosis Possible reference: Zhao, G. et al. (2024) Exploring molecular mechanisms of intra-articular changes in osteonecrosis of femoral head using DIA proteomics and bioinformatics., J Orthop Surg Res, PMID 38169408PXD048706 Dataset with its publication pending (from iProX) Dataset title: Integrated multi-omics analysis reveals osteokines involved in global regulation Possible reference: Liang, W. et al. (2024) An integrated multi-omics analysis reveals osteokines involved in global regulation., Cell Metab, PMID 38574738PXD048693 Dataset with its publication pending (from PRIDE) Dataset title: CRISPR screen for protein inclusion formation uncovers a role for SRRD in the regulation of intermediate filament dynamics and aggresome assembly Possible reference: Sweeney, KM. et al. (2024) CRISPR screen for protein inclusion formation uncovers a role for SRRD in the regulation of intermediate filament dynamics and aggresome assembly., PLoS Genet, PMID 38315730PXD048658 Dataset with its publication pending (from PRIDE) Dataset title: Aging aggravates aortic aneurysm and dissection via the miR-1204-MYLK signaling axis Possible reference: Liu, ZL. et al. (2024) Aging aggravates aortic aneurysm and dissection via miR-1204-MYLK signaling axis in mice., Nat Commun, PMID 39013850PXD048648 Dataset with its publication pending (from PRIDE) Dataset title: Metabolic engineering of Saccharomyces cerevisiae and role of transcription factor Znf1 Possible reference: Songdech, P. et al. (2020) Overexpression of Transcription Factor ZNF1 of Glycolysis Improves Bioethanol Productivity under High Glucose Concentration and Enhances Acetic Acid Tolerance of Saccharomyces cerevisiae., Biotechnol J, PMID 32196937PXD048636 Dataset with its publication pending (from iProX) Dataset title: Alterations in Placental Proteomics Induced by Intrauterine Hyperglycemia Possible reference: Ren, ZR. et al. (2024) Sex-Specific Alterations in Placental Proteomics Induced by Intrauterine Hyperglycemia., J Proteome Res, PMID 38470452PXD048632 Dataset with its publication pending (from PRIDE) Dataset title: MACSPI Enables Tissue-Selective Proteomic and Interactomic Analyses in Multicellular Organisms Possible reference: Huang, S. et al. (2024) MACSPI enables tissue-selective proteomic and interactomic analyses in multicellular organisms., Proc Natl Acad Sci U S A, PMID 38753516PXD048606 Dataset with its publication pending (from PRIDE) Dataset title: Aberrant neurodevelopment in human iPS cell-derived models of Alexander disease Possible reference: Matusova, Z. et al. (2024) Aberrant neurodevelopment in human iPS cell-derived models of Alexander disease., Glia, PMID 39308436PXD048601 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vesicle formation in Cryptococcus deuterogattii impacts fungal virulence Possible reference: Castelli, RF. et al. (2022) Extracellular Vesicle Formation in Cryptococcus deuterogattii Impacts Fungal Virulence and Requires the NOP16 Gene., Infect Immun, PMID 35862719PXD048588 Dataset with its publication pending (from jPOST) Dataset title: core fucosylation as well as their modified glycoproteins associated with diseases Possible reference: Liu, S. et al. (2021) IgG N-glycans., Adv Clin Chem, PMID 34809825PXD048587 Dataset with its publication pending (from iProX) Dataset title: EFHD2 Suppresses Intestinal Inflammation by Blocking Intestinal Epithelial Cell TNFR1 Internalization and Cell Death Possible reference: Wu, J. et al. (2024) EFHD2 suppresses intestinal inflammation by blocking intestinal epithelial cell TNFR1 internalization and cell death., Nat Commun, PMID 38346956PXD048581 Dataset with its publication pending (from iProX) Dataset title: Antimicrobial activity and multi-targeted mechanism of action of suberanilic acid against methicillin-resistant Staphylococcus aureus Possible reference: Wen, J. et al. (2024) Antibacterial Activity and Multi-Targeted Mechanism of Action of Suberanilic Acid Isolated from Pestalotiopsis trachycarpicola DCL44: An Endophytic Fungi from Ageratina adenophora., Molecules, PMID 39275053PXD048574 Dataset with its publication pending (from iProX) Dataset title: Transcription factor ZNF263 enhances EGFR-targeted therapeutic response and reduces residual disease in lung adenocarcinoma Possible reference: Liang, J. et al. (2024) Transcription factor ZNF263 enhances EGFR-targeted therapeutic response and reduces residual disease in lung adenocarcinoma., Cell Rep, PMID 38335093PXD048573 Dataset with its publication pending (from iProX) Dataset title: Phenol degrading manganese oxidizing Pseudomonas AN-1 Possible reference: Qiao, A. et al. (2024) Can xenobiotics support the growth of Mn(II)-oxidizing bacteria (MnOB)? A case of phenol-utilizing bacteria Pseudomonas sp. AN-1., J Hazard Mater, PMID 38521035PXD048554 Dataset with its publication pending (from jPOST) Dataset title: The N-acetylglucosaminyltransferase Radical Fringe contributes to defects in JAG1-dependent turnover and signaling of NOTCH3 CADASIL mutants Possible reference: Suzuki, S. et al. (2024) The N-acetylglucosaminyltransferase Radical fringe contributes to defects in JAG1-dependent turnover and signaling of NOTCH3 CADASIL mutants., J Biol Chem, PMID 39303912PXD048553 Dataset with its publication pending (from PRIDE) Dataset title: A new technology for isolating organellar membranes provides fingerprints of lipid bilayer stress Possible reference: Reinhard, J. et al. (2024) MemPrep, a new technology for isolating organellar membranes provides fingerprints of lipid bilayer stress., EMBO J, PMID 38491296PXD048539 Dataset with its publication pending (from jPOST) Dataset title: hnRNPA2B1 represses the disassembly of arsenite-induced stress granules and is essential for male fertility Possible reference: Wang, X. et al. (2024) hnRNPA2B1 represses the disassembly of arsenite-induced stress granules and is essential for male fertility., Cell Rep, PMID 38363675PXD048511 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of serum small extracellular vesicles identifies diagnostic biomarkers for neuroblastoma Possible reference: Cheng, J. et al. (2024) Proteomic analysis of serum small extracellular vesicles identifies diagnostic biomarkers for neuroblastoma., Front Oncol, PMID 39228987PXD048503 Dataset with its publication pending (from PRIDE) Dataset title: ERLIN1 and ERLIN2 scaffolds bridge TMUB1 and RNF170 and restrict cholesterol esterification to regulate the secretory pathway Possible reference: Veronese, M. et al. (2024) ERLIN1/2 scaffolds bridge TMUB1 and RNF170 and restrict cholesterol esterification to regulate the secretory pathway., Life Sci Alliance, PMID 38782601PXD048497 Dataset with its publication pending (from jPOST) Dataset title: Quantitative characterization of protein N-linked core-fucosylation by an efficient glycan truncation strategy Possible reference: Guo, X. et al. (2024) Quantitative Characterization of Protein N-Linked Core-Fucosylation by an Efficient Glycan Truncation Strategy., Anal Chem, PMID 38874382PXD048481 Dataset with its publication pending (from jPOST) Dataset title: Proteome analysis of mouse liver at ad libitum feeding Possible reference: Doelman, J. et al. (2012) Transcript profiling of the ruminant liver indicates a unique program of transcriptional regulation of ketogenic enzymes during food restriction., Comp Biochem Physiol Part D Genomics Proteomics, PMID 22748507PXD048469 no publication (from MassIVE) Dataset title: Uncovering missing glycans and unexpected fragments with pGlycoNovo: a full-range Y-ion dynamic searching strategy for site-specific glycosylation analysis across species Possible reference: Zeng, WF. et al. (2024) Uncovering missing glycans and unexpected fragments with pGlycoNovo for site-specific glycosylation analysis across species., Nat Commun, PMID 39277585PXD048443 Dataset with its publication pending (from iProX) Dataset title: Biomarkers of lung metastasis in differentiated thyroid cancer based on proteomic analysis Possible reference: Nikas, IP. et al. (2022) The application of high-throughput proteomics in cytopathology., J Pathol Transl Med, PMID 36345621PXD048432 Dataset with its publication pending (from iProX) Dataset title: Proteome of B. subtilis with and without sodium nitrate Possible reference: Xia, L. et al. (2024) Enhancing surfactin production in Bacillus subtilis: Insights from proteomic analysis of nitrate-induced overproduction and strategies for combinatorial metabolic engineering., Bioresour Technol, PMID 38417461PXD048429 Dataset with its publication pending (from iProX) Dataset title: The Small Extracellular Vesicle-Mediated Intercellular Transformation of CXCR1-Low to CXCR1-High Tumor Cells Promotes the Progression of Head and Neck Squamous Cell Carcinoma Possible reference: Xu, Q. et al. (2024) The small extracellular vesicle-mediated intercellular transformation of CXCR1Low to CXCR1High tumour cells promotes the progression of head and neck squamous cell carcinoma., J Extracell Vesicles, PMID 38545803PXD048425 Dataset with its publication pending (from iProX) Dataset title: USP36 variant confers resistance to EGFR-TKIs Possible reference: Guan, S. et al. (2024) Germline USP36 Mutation Confers Resistance to EGFR-TKIs by Upregulating MLLT3 Expression in Patients with Non-Small Cell Lung Cancer., Clin Cancer Res, PMID 38261467PXD048423 Dataset with its publication pending (from iProX) Dataset title: Spindle apparatus coiled-coil protein 1 (SPDL1) serves as a novel prognostic biomarker in triple-negative breast cancer Possible reference: Yang, XY. et al. (2024) Spindle apparatus coiled-coil protein 1 (SPDL1) serves as a novel prognostic biomarker in triple-negative breast cancer., Proteomics Clin Appl, PMID 38316615PXD048384 Dataset with its publication pending (from jPOST) Dataset title: Cysteine oxidation as a regulatory mechanism of Arabidopsis plastidial NAD-dependent malate dehydrogenase Possible reference: Cosse, M. et al. (2024) Cysteine oxidation as a regulatory mechanism of Arabidopsis plastidial NAD-dependent malate dehydrogenase., Physiol Plant, PMID 38741259PXD048378 Dataset with its publication pending (from PRIDE) Dataset title: Regional differences in the small intestinal proteome of control mice and of mice lacking lysosomal acid lipase Possible reference: Bianco, V. et al. (2024) Regional Differences in the Small Intestinal Proteome of Control Mice and of Mice Lacking Lysosomal Acid Lipase., J Proteome Res, PMID 38422518PXD048369 Dataset with its publication pending (from iProX) Dataset title: Metabolomic Analysis of Follicular Fluid in Normal-weight Patients with PCOS (Polycystic Ovary Syndrome) Possible reference: Ban, Y. et al. (2021) Lipidomics analysis of human follicular fluid form normal-weight patients with polycystic ovary syndrome: a pilot study., J Ovarian Res, PMID 34645507PXD048368 Dataset with its publication pending (from iProX) Dataset title: Proteomics analysis of Pseudoduganella aquatica HC52-OMVs Possible reference: Park, Y. et al. (2024) Alleviation of H2O2 toxicity by extracellular catalases in the phycosphere of Microcystis aeruginosa., Harmful Algae, PMID 39003030PXD048356 no publication (from MassIVE) Dataset title: Calorie restriction and rapamycin distinctly mitigate aging-associated protein phosphorylation changes in mouse muscles Possible reference: Ataman, M. et al. (2024) Calorie restriction and rapamycin distinctly mitigate aging-associated protein phosphorylation changes in mouse muscles., Commun Biol, PMID 39127848PXD048284 Dataset with its publication pending (from jPOST) Dataset title: Volatile communication in plants relies on a KAI2-mediated signaling pathway Possible reference: Stirling, SA. et al. (2024) Volatile communication in plants relies on a KAI2-mediated signaling pathway., Science, PMID 38513014PXD048258 no publication (from MassIVE) Dataset title: A mechanism that transduces lysosomal damage signals to stress granule formation for cell survival Possible reference: Duran, J. et al. (2024) A mechanism that transduces lysosomal damage signals to stress granule formation for cell survival., bioRxiv, PMID 38617306PXD048243 Dataset with its publication pending (from iProX) Dataset title: Thermal proteome profiling reveals fructose-1,6-bisphosphate as a phosphate donor to activate phosphoglycerate mutase 1 Possible reference: Zhang, Y. et al. (2024) Thermal proteome profiling reveals fructose-1,6-bisphosphate as a phosphate donor to activate phosphoglycerate mutase 1., Nat Commun, PMID 39414782PXD048239 Dataset with its publication pending (from PRIDE) Dataset title: Salt stress in freshwater anaerobic methane-oxidizing archaea Possible reference: Echeveste Medrano, MJ. et al. (2024) Osmoregulation in freshwater anaerobic methane-oxidizing archaea under salt stress., ISME J, PMID 39030685PXD048237 Dataset with its publication pending (from iProX) Dataset title: Kidney Proteomic analysis on Kidney of chronic heart failure mice Possible reference: Hlper, S. et al. (2015) Dissection of metabolic pathways in the Db/Db mouse model by integrative proteome and acetylome analysis., Mol Biosyst, PMID 25592279PXD048234 Dataset with its publication pending (from iProX) Dataset title: O-GlcNAcylation of E3 ubiquitin ligase SKP2 promotes hepatocellular carcinoma proliferation Possible reference: Feng, Z. et al. (2024) O-GlcNAcylation of E3 ubiquitin ligase SKP2 promotes hepatocellular carcinoma proliferation., Oncogene, PMID 38396292PXD048216 Dataset with its publication pending (from PRIDE) Dataset title: S-palmitoylation of MAP kinase is essential for fungal virulence Possible reference: Duan, Y. et al. (2024) S-palmitoylation of MAP kinase is essential for fungal virulence., mBio, PMID 39470248PXD048184 Dataset with its publication pending (from PRIDE) Dataset title: Asp23-controlled cell wall imbalance promotes membrane vesicles biogenesis in Staphylococcus aureus Possible reference: Li, J. et al. (2024) Alkaline shock protein 23 (Asp23)-controlled cell wall imbalance promotes membrane vesicle biogenesis in Staphylococcus aureus., J Extracell Vesicles, PMID 39193667PXD048167 Dataset with its publication pending (from iProX) Dataset title: Proteome overview of exosome derived from plasma of cows infected with Mycobacterium bovis Possible reference: Zhou, H. et al. (2024) Proteome overview of exosome derived from plasma of cows infected with Mycobacterium bovis., Tuberculosis (Edinb), PMID 39002312PXD048156 Dataset with its publication pending (from iProX) Dataset title: Histone-like transcription factor Hfl1p in Candida albicans harmonizes nuclear and mitochondrial genomic network in regulation of energy metabolism and filamentation development Possible reference: She, X. et al. (2024) Histone-like transcription factor Hfl1p in Candida albicans harmonizes nuclear and mitochondrial genomic network in regulation of energy metabolism and filamentation development., Virulence, PMID 39370643PXD048154 Dataset with its publication pending (from iProX) Dataset title: Proteomic Analysis of Infrapatellar Fat Pad in Osteoarthritis Possible reference: Bravo, B. et al. (2019) Gene expression, protein profiling, and chemotactic activity of infrapatellar fat pad mesenchymal stem cells in pathologies of the knee joint., J Cell Physiol, PMID 30912165PXD048142 Dataset with its publication pending (from PRIDE) Dataset title: Proteome Changes Induced by Hydrogen Peroxide in Sugarcane Plants Possible reference: Trentin, AR. et al. (2015) Proteome readjustments in the apoplastic space of Arabidopsis thaliana ggt1 mutant leaves exposed to UV-B radiation., Front Plant Sci, PMID 25852701PXD048134 Dataset with its publication pending (from iProX) Dataset title: Comparative analysis of phosphorylated proteomes between plerocercoid and adult Spirometra mansoni reveal phosphoproteomic proflings of the medical tapeworm Possible reference: Liu, YY. et al. (2024) Comparative analysis of phosphorylated proteomes between plerocercoid and adult Spirometra mansoni reveals phosphoproteomic profiles of the medical tapeworm., Parasit Vectors, PMID 39217359PXD048104 Dataset with its publication pending (from iProX) Dataset title: Serum proteome of wild-type mice injected with TNF Possible reference: Li, Y. et al. (2016) Endogenous n-3 Polyunsaturated Fatty Acids Attenuate T Cell-Mediated Hepatitis via Autophagy Activation., Front Immunol, PMID 27679638PXD048093 Dataset with its publication pending (from PRIDE) Dataset title: The proteome sequencing of ectopic and paired eutopic endometria Possible reference: Liu, F. et al. (2021) Endometrial stromal cell proteomic analysis reveals LIM and SH3 protein 1 (LASP1) plays important roles in the progression of adenomyosis., Mol Hum Reprod, PMID 33543750PXD048065 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of diapause and non-diapause stages of Loxostege sticticalis Possible reference: Shao, L. et al. (2024) Comparative Proteomics and Metabonomics Analysis of Different Diapause Stages Revealed a New Regulation Mechanism of Diapause in Loxostege sticticalis (Lepidoptera: Pyralidae)., Molecules, PMID 39124877PXD048063 Dataset with its publication pending (from iProX) Dataset title: Proteomics of plasma exosomes reveals S100A8 as a novel biomarker for Alzheimer’s disease: a preliminary study Possible reference: Zhang, Y. et al. (2024) Proteomics of plasma-derived extracellular vesicles reveals S100A8 as a novel biomarker for Alzheimer's disease: A preliminary study., J Proteomics, PMID 39159863PXD048056 Dataset with its publication pending (from PRIDE) Dataset title: Monocarboxylate transporters facilitate succinate uptake into brown adipocytes Possible reference: Reddy, A. et al. (2023) Monocarboxylate transporters facilitate succinate uptake into brown adipocytes., bioRxiv, PMID 36909624PXD048035 Dataset with its publication pending (from PRIDE) Dataset title: Adaptive laboratory evolution recruits the promiscuity of succinate semialdehyde dehydrogenase to repair different metabolic deficiencies Possible reference: He, H. et al. (2024) Adaptive laboratory evolution recruits the promiscuity of succinate semialdehyde dehydrogenase to repair different metabolic deficiencies., Nat Commun, PMID 39406738PXD048024 Dataset with its publication pending (from PRIDE) Dataset title: Molecular-Level Architecture of Chlamydomonas reinhardtii’s Glycoprotein-Rich Cell Wall Possible reference: Poulhazan, A. et al. (2024) Molecular-level architecture of Chlamydomonas reinhardtii's glycoprotein-rich cell wall., Nat Commun, PMID 38307857PXD048016 Dataset with its publication pending (from PRIDE) Dataset title: Optimization of protein identifications by exploring several crhomatographic and search engine parameters Possible reference: Muth, T. et al. (2015) Navigating through metaproteomics data: a logbook of database searching., Proteomics, PMID 25778831PXD048004 Dataset with its publication pending (from PRIDE) Dataset title: A pathogenic role for mitochondrial dysfunction and oxidative stress in myositis Possible reference: Abad, C. et al. (2024) IFNγ causes mitochondrial dysfunction and oxidative stress in myositis., Nat Commun, PMID 38926363PXD047978 Dataset with its publication pending (from iProX) Dataset title: Delineation of renal protein profiles in aristolochic acid I-induced nephrotoxicity in mice by label-free quantitative proteomics Possible reference: Liu, X. et al. (2024) Delineation of renal protein profiles in aristolochic acid I-induced nephrotoxicity in mice by label-free quantitative proteomics., Front Pharmacol, PMID 38783935PXD047891 Dataset with its publication pending (from iProX) Dataset title: PARylation of 14-3-3 proteins control the virulence of Magnaporthe oryzae Possible reference: Gao, X. et al. (2024) PARylation of 14-3-3 proteins controls the virulence of Magnaporthe oryzae., Nat Commun, PMID 39277621PXD047880 Dataset with its publication pending (from iProX) Dataset title: Extracellular vesicles of Lactobacillus johnsonii Possible reference: Shin, CM. et al. (2021) Validity and safety of ID-JPL934 in lower gastrointestinal symptom improvement., Sci Rep, PMID 34158518PXD047872 Dataset with its publication pending (from PRIDE) Dataset title: Investigating HMGB1 as a Potential Serum Biomarker for Early Diabetic Nephropathy Monitoring by Quantitative Proteomics Possible reference: Peng, R. et al. (2024) Investigating HMGB1 as a potential serum biomarker for early diabetic nephropathy monitoring by quantitative proteomics., iScience, PMID 38303703PXD047866 Dataset with its publication pending (from PRIDE) Dataset title: Substrate identification and specificity profiling of deubiquitylases against endogenously-generated ubiquitin-protein conjugates Possible reference: Rossio, V. et al. (2023) Substrate identification and specificity profiling of deubiquitylases against endogenously-generated ubiquitin-protein conjugates., bioRxiv, PMID 38187689PXD047864 Dataset with its publication pending (from PRIDE) Dataset title: Inflammation causes insulin resistance via IRF3-mediated reduction in FAHFA levels Possible reference: Yan, S. et al. (2024) Inflammation causes insulin resistance in mice via interferon regulatory factor 3 (IRF3)-mediated reduction in FAHFA levels., Nat Commun, PMID 38816388PXD047859 Dataset with its publication pending (from PRIDE) Dataset title: Enhanced Staphylococcus aureus vaccine protection by uncoupling of the alpha-toxin-ADAM10 interaction Possible reference: Tomaszewski, KL. et al. (2024) Enhanced Staphylococcus aureus protection by uncoupling of the α-toxin-ADAM10 interaction during murine neonatal vaccination., Nat Commun, PMID 39379345PXD047841 Dataset with its publication pending (from PRIDE) Dataset title: Parallel control of cold-triggered adipocyte thermogenesis by UCP1 and CKB Possible reference: Rahbani, JF. et al. (2024) Parallel control of cold-triggered adipocyte thermogenesis by UCP1 and CKB., Cell Metab, PMID 38272036PXD047837 Dataset with its publication pending (from PRIDE) Dataset title: ATM Inhibition Exploits Checkpoint Defects and ATM-Dependent Double Strand Break Repair in TP53-Mutant Glioblastoma Possible reference: Laverty, DJ. et al. (2024) ATM inhibition exploits checkpoint defects and ATM-dependent double strand break repair in TP53-mutant glioblastoma., Nat Commun, PMID 38906885PXD047799 no publication (from MassIVE) Dataset title: Decrypting the molecular basis of cellular drug phenotypes by dose-resolved expression proteomics Possible reference: Eckert, S. et al. (2024) Decrypting the molecular basis of cellular drug phenotypes by dose-resolved expression proteomics., Nat Biotechnol, PMID 38714896PXD047795 Dataset with its publication pending (from PRIDE) Dataset title: Nitrogen signaling factor triggers a respiration-like gene expression program Possible reference: Ohsawa, S. et al. (2024) Nitrogen signaling factor triggers a respiration-like gene expression program in fission yeast., EMBO J, PMID 39256560PXD047793 Dataset with its publication pending (from PRIDE) Dataset title: A hybrid DDA/DIA-PASEF based assay library for a deep proteotyping of triple-negative breast cancer Possible reference: Lapcik, P. et al. (2024) A hybrid DDA/DIA-PASEF based assay library for a deep proteotyping of triple-negative breast cancer., Sci Data, PMID 39025866PXD047764 no publication (from MassIVE) Dataset title: Outer membrane vesicles and the outer membrane protein OmpU govern Vibrio cholerae biofilm matrix assembly Possible reference: Potapova, A. et al. (2024) Outer membrane vesicles and the outer membrane protein OmpU govern Vibrio cholerae biofilm matrix assembly., mBio, PMID 38206049PXD047750 Dataset with its publication pending (from PRIDE) Dataset title: Immunopeptidomics identification of Listeria monocytogenes T cell epitopes in mice Possible reference: Gul, A. et al. (2024) Immunopeptidomics Mapping of Listeria monocytogenes T Cell Epitopes in Mice., Mol Cell Proteomics, PMID 39147027PXD047736 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of the protein degradation induced by PROTACs Possible reference: Savitski, MM. et al. (2018) Multiplexed Proteome Dynamics Profiling Reveals Mechanisms Controlling Protein Homeostasis., Cell, PMID 29551266PXD047723 Dataset with its publication pending (from jPOST) Dataset title: Plasma-derived extracellular vesicles from patients with liver cirrhosis and hepatocellular carcinoma Possible reference: Ghosh, S. et al. (2020) The exosome encapsulated microRNAs as circulating diagnostic marker for hepatocellular carcinoma with low alpha-fetoprotein., Int J Cancer, PMID 32441313PXD047719 no publication (from MassIVE) Dataset title: Native Top-Down Mass Spectrometry for Characterizing Sarcomeric Proteins Directly from Cardiac Tissue Lysate Possible reference: Chapman, EA. et al. (2024) Native Top-Down Mass Spectrometry for Characterizing Sarcomeric Proteins Directly from Cardiac Tissue Lysate., J Am Soc Mass Spectrom, PMID 38422011PXD047709 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative modelling of B cell signaling in aggressive B cell lymphoma Possible reference: Hegde, GV. et al. (2012) Novel therapy for therapy-resistant mantle cell lymphoma: multipronged approach with targeting of hedgehog signaling., Int J Cancer, PMID 22511234PXD047707 Dataset with its publication pending (from PRIDE) Dataset title: Integrative transcriptomic and proteomic profiling of the effects of cell confluency on gene expression Possible reference: Lobo, V. et al. (2024) Integrative transcriptomic and proteomic profiling of the effects of cell confluency on gene expression., Sci Data, PMID 38866801PXD047700 Dataset with its publication pending (from PRIDE) Dataset title: HYPK controls stability and catalytic activity of the N-terminal acetyltransferase A in Arabidopsis thaliana Possible reference: Gong, X. et al. (2024) HYPK controls stability and catalytic activity of the N-terminal acetyltransferase A in Arabidopsis thaliana., Cell Rep, PMID 38363676PXD047680 no publication (from MassIVE) Dataset title: Small-scale Serial Size Exclusion Chromatography (s3SEC) for High Sensitivity Top-down Proteomics of Large Proteoforms Possible reference: Rogers, HT. et al. (2024) Small-Scale Serial Size Exclusion Chromatography (s3SEC) for High Sensitivity Top-Down Proteomics of Large Proteoforms., Anal Chem, PMID 38315630PXD047674 Dataset with its publication pending (from PRIDE) Dataset title: Mass spectrometry-based proteomic profiling of exosomal proteins in diabetic and non-diabetic ischemic stroke patients: a case-control study Possible reference: Qadri, S. et al. (2024) Mass spectrometry-based proteomic profiling of extracellular vesicle proteins in diabetic and non-diabetic ischemic stroke patients: a case-control study., Front Mol Biosci, PMID 38948080PXD047669 no publication (from MassIVE) Dataset title: Multi-omics analysis of aggregative multicellularity Possible reference: de Carpentier, F. et al. (2022) How abiotic stress-induced socialization leads to the formation of massive aggregates in Chlamydomonas., Plant Physiol, PMID 35775951PXD047668 Dataset with its publication pending (from PRIDE) Dataset title: CSB promotes transcription-coupled repair of DNA-protein crosslinks Possible reference: Carnie, CJ. et al. (2024) Transcription-coupled repair of DNA-protein cross-links depends on CSA and CSB., Nat Cell Biol, PMID 38600235PXD047661 no publication (from MassIVE) Dataset title: Proteostasis perturbation of N-Myc by HSP70 inhibition improves treatment in neuroendocrine prostate cancer Possible reference: Xu, P. et al. (2024) Proteostasis perturbation of N-Myc leveraging HSP70 mediated protein turnover improves treatment of neuroendocrine prostate cancer., Nat Commun, PMID 39103353PXD047659 no publication (from MassIVE) Dataset title: Decrypting lysine deacetylase inhibitor action and protein modifications by dose-resolved proteomics Possible reference: Chang, YC. et al. (2024) Decrypting lysine deacetylase inhibitor action and protein modifications by dose-resolved proteomics., Cell Rep, PMID 38795348PXD047658 Dataset with its publication pending (from PRIDE) Dataset title: Regulation of hepatic inclusions and fibrinogen biogenesis by SEL1L-HRD1 ERAD Possible reference: Song, Z. et al. (2024) Regulation of hepatic inclusions and fibrinogen biogenesis by SEL1L-HRD1 ERAD., Nat Commun, PMID 39455574PXD047650 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of secretomes derived from human dermal and adipose tissue mesenchymal stem/stromal cells for skin wound healing: Not as effective as cells Possible reference: Zomer, HD. et al. (2024) Evaluation of secretomes derived from human dermal and adipose tissue mesenchymal stem/stromal cells for skin wound healing: not as effective as cells., Stem Cell Res Ther, PMID 38229157PXD047641 Dataset with its publication pending (from PRIDE) Dataset title: NeoDisc: A neoantigen discovery pipeline for the development of personalized cancer immunotherapy Possible reference: Huber, F. et al. (2024) A comprehensive proteogenomic pipeline for neoantigen discovery to advance personalized cancer immunotherapy., Nat Biotechnol, PMID 39394480PXD047631 no publication (from MassIVE) Dataset title: Heart proteomics of pathological atrial enlargement associated with atrial fibrillation Possible reference: Scholz, B. et al. (2019) HDAC (Histone Deacetylase) Inhibitor Valproic Acid Attenuates Atrial Remodeling and Delays the Onset of Atrial Fibrillation in Mice., Circ Arrhythm Electrophysiol, PMID 30879335PXD047603 Dataset with its publication pending (from PRIDE) Dataset title: Overactive mitochondrial DNA replication disrupts perinatal cardiac maturation Possible reference: Landoni, JC. et al. (2024) Overactive mitochondrial DNA replication disrupts perinatal cardiac maturation., Nat Commun, PMID 39277581PXD047594 Dataset with its publication pending (from PRIDE) Dataset title: FERONIA controls ABA-mediated seed germination via the regulation of the kinase activity of CARK1 Possible reference: Wang, X. et al. (2024) FERONIA controls ABA-mediated seed germination via the regulation of CARK1 kinase activity., Cell Rep, PMID 39412988PXD047583 Dataset with its publication pending (from PRIDE) Dataset title: Ubiquitin-specific proximity labeling for the identification of E3 ubiquitin ligase substrates Possible reference: Huang, HT. et al. (2024) Ubiquitin-specific proximity labeling for the identification of E3 ligase substrates., Nat Chem Biol, PMID 38514884PXD047571 Dataset with its publication pending (from PRIDE) Dataset title: Insights from multi-omic modelling of neurodegeneration in Xeroderma Pigmentosum using an induced pluripotent stem cell system Possible reference: Badja, C. et al. (2024) Insights from multi-omic modeling of neurodegeneration in xeroderma pigmentosum using an induced pluripotent stem cell system., Cell Rep, PMID 38805398PXD047560 no publication (from MassIVE) Dataset title: Comparison of glioblastoma cell culture platforms based on transcriptional similarity with paired tissue Possible reference: Park, J. et al. (2024) Comparison of Glioblastoma Cell Culture Platforms Based on Transcriptional Similarity with Paired Tissue., Pharmaceuticals (Basel), PMID 38675489PXD047537 Dataset with its publication pending (from PRIDE) Dataset title: Synthetically primed adaptation of Pseudomonas putida to a non-native substrate D-xylose Possible reference: Dvořák, P. et al. (2024) Synthetically-primed adaptation of Pseudomonas putida to a non-native substrate D-xylose., Nat Commun, PMID 38531855PXD047518 Dataset with its publication pending (from iProX) Dataset title: Evolutionary Proteogenomic Landscape from Pre-invasive to Invasive Lung Adenocarcinoma Possible reference: Zhang, Y. et al. (2024) Evolutionary proteogenomic landscape from pre-invasive to invasive lung adenocarcinoma., Cell Rep Med, PMID 38183982PXD047513 no publication (from MassIVE) Dataset title: Comparison of glycopeptide to released glycan abundances and the influence of glycopeptide charge state on N-linked glycosylation of IgG antibodies Possible reference: Remoroza, CA. et al. (2024) Comparison of N-Glycopeptide to Released N-Glycan Abundances and the Influence of Glycopeptide Mass and Charge States on N-Linked Glycosylation of IgG Antibodies., J Proteome Res, PMID 38450643PXD047493 Dataset with its publication pending (from iProX) Dataset title: Hydrogen sulfide mediated persulfidation regulates homocysteine metabolism and enhances ferroptosis in non-small-cell lung cancer Possible reference: Zheng, H. et al. (2024) Hydrogen sulfide-mediated persulfidation regulates homocysteine metabolism and enhances ferroptosis in non-small cell lung cancer., Mol Cell, PMID 39321805PXD047492 Dataset with its publication pending (from iProX) Dataset title: The effect of semaglutide on high-fat diet-induced liver cancer in obese mice Possible reference: Hansen, HH. et al. (2023) Semaglutide reduces tumor burden in the GAN diet-induced obese and biopsy-confirmed mouse model of NASH-HCC with advanced fibrosis., Sci Rep, PMID 38155202PXD047480 Dataset with its publication pending (from iProX) Dataset title: Novel interacting proteins identified by tandem affinity purification and mass spectrometry associated with IFITM3 protein during PDCoV infection Possible reference: Li, C. et al. (2024) Novel interacting proteins identified by tandem affinity purification and mass spectrometry associated with IFITM3 protein during PDCoV infection., Int J Biol Macromol, PMID 38821295PXD047464 Dataset with its publication pending (from PRIDE) Dataset title: Bioactive decellularized extracellular matrix-based hydrogel supports human adipose tissue-derived stem cell maintenance and fibrocartilage phenotype Possible reference: Josino, R. et al. (2023) Bioactive decellularized extracellular matrix-based hydrogel supports human adipose tissue-derived stem cell maintenance and fibrocartilage phenotype., Front Bioeng Biotechnol, PMID 38260748PXD047455 Dataset with its publication pending (from PRIDE) Dataset title: Ubiquitin-specific proximity labeling for the identification of E3 ubiquitin ligase substrates Possible reference: Huang, HT. et al. (2024) Ubiquitin-specific proximity labeling for the identification of E3 ligase substrates., Nat Chem Biol, PMID 38514884PXD047439 Dataset with its publication pending (from PRIDE) Dataset title: Dynamic co-evolution of transposable elements and the piRNA pathway in East African cichlid fishes Possible reference: Almeida, MV. et al. (2024) Dynamic co-evolution of transposable elements and the piRNA pathway in African cichlid fishes., bioRxiv, PMID 38617250PXD047434 no publication (from MassIVE) Dataset title: IER3IP1-mutations cause microcephaly by selective inhibition of ER-Golgi transport Possible reference: Anitei, M. et al. (2024) IER3IP1-mutations cause microcephaly by selective inhibition of ER-Golgi transport., Cell Mol Life Sci, PMID 39115595PXD047431 Dataset with its publication pending (from iProX) Dataset title: Identification of phosphorylated SEPs in Hep3B cells by LC/MS/MS Possible reference: Peng, M. et al. (2024) Identification of phosphorylated small ORF-encoded peptides in Hep3B cells by LC/MS/MS., J Proteomics, PMID 38823442PXD047419 Dataset with its publication pending (from PanoramaPublic) Dataset title: Decrypting lysine deacetylase inhibitor action and protein modifications by dose-resolved proteomics Possible reference: Chang, YC. et al. (2024) Decrypting lysine deacetylase inhibitor action and protein modifications by dose-resolved proteomics., Cell Rep, PMID 38795348PXD047412 Dataset with its publication pending (from PRIDE) Dataset title: A Spatiotemporal Proteomic Map of Human Adipogenesis Possible reference: Klingelhuber, F. et al. (2024) A spatiotemporal proteomic map of human adipogenesis., Nat Metab, PMID 38565923PXD047364 Dataset with its publication pending (from iProX) Dataset title: Granzyme A can be modified by 4-OI Possible reference: Gong, W. et al. (2024) 4-Octyl itaconate blocks GSDMB-mediated pyroptosis and restricts inflammation by inactivating granzyme A., Cell Prolif, PMID 38982510PXD047339 Dataset with its publication pending (from PRIDE) Dataset title: A novel strategy to generate immunocytokines with activity-on-demand using small molecule inhibitors Possible reference: Rotta, G. et al. (2024) A novel strategy to generate immunocytokines with activity-on-demand using small molecule inhibitors., EMBO Mol Med, PMID 38448543PXD047337 Dataset with its publication pending (from PRIDE) Dataset title: ANDROGEN DRIVES MELANOMA INVASIVENESS AND METASTATIC SPREAD BY INDUCING TUMORIGENIC FUCOSYLATION: Fucoproteomics Possible reference: Liu, Q. et al. (2024) Androgen drives melanoma invasiveness and metastatic spread by inducing tumorigenic fucosylation., Nat Commun, PMID 38326303PXD047335 Dataset with its publication pending (from PRIDE) Dataset title: ANDROGEN DRIVES MELANOMA INVASIVENESS AND METASTATIC SPREAD BY INDUCING TUMORIGENIC FUCOSYLATION: Phosphoproteomics Possible reference: Liu, Q. et al. (2024) Androgen drives melanoma invasiveness and metastatic spread by inducing tumorigenic fucosylation., Nat Commun, PMID 38326303PXD047328 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vesicles secreted by 3D tumor organoids are enriched for immune regulatory signaling biomolecules compared to conventional 2D glioblastoma cell systems Possible reference: Schuster, M. et al. (2024) Extracellular vesicles secreted by 3D tumor organoids are enriched for immune regulatory signaling biomolecules compared to conventional 2D glioblastoma cell systems., Front Immunol, PMID 38726003PXD047325 Dataset with its publication pending (from PRIDE) Dataset title: MCT1-governed pyruvate metabolism is essential for antibody class-switch recombination through H3K27 acetylation Possible reference: Chi, W. et al. (2024) MCT1-governed pyruvate metabolism is essential for antibody class-switch recombination through H3K27 acetylation., Nat Commun, PMID 38167945PXD047314 Dataset with its publication pending (from iProX) Dataset title: Application of Label-Free Quantitative Proteomics in saliva of periodontitis Possible reference: Bostanci, N. et al. (2018) Targeted Proteomics Guided by Label-free Quantitative Proteome Analysis in Saliva Reveal Transition Signatures from Health to Periodontal Disease., Mol Cell Proteomics, PMID 29610270PXD047283 Dataset with its publication pending (from jPOST) Dataset title: Subcutaneous white adipose tissue independently regulates burn-induced hypermetabolism via immune-adipose crosstalk Possible reference: Knuth, CM. et al. (2024) Subcutaneous white adipose tissue independently regulates burn-induced hypermetabolism via immune-adipose crosstalk., Cell Rep, PMID 38117653PXD047271 Dataset with its publication pending (from PRIDE) Dataset title: Changes in FUS interactome in motor neurons upon ALS-related mutation Possible reference: Alirzayeva, H. et al. (2024) ALS-FUS mutations cause abnormal PARylation and histone H1.2 interaction, leading to pathological changes., Cell Rep, PMID 39167487PXD047265 Dataset with its publication pending (from PRIDE) Dataset title: EEF1D stabilized by SRSF9 promotes colorectal cancer via enhancing the proliferation and metastasis Possible reference: Wang, R. et al. (2024) EEF1D stabilized by SRSF9 promotes colorectal cancer via enhancing the proliferation and metastasis., Int J Cancer, PMID 38771720PXD047261 Dataset with its publication pending (from PRIDE) Dataset title: CLIPPER 2.0: Peptide level annotation and data analysis for positional proteomics Possible reference: Kalogeropoulos, K. et al. (2024) CLIPPER 2.0: Peptide-Level Annotation and Data Analysis for Positional Proteomics., Mol Cell Proteomics, PMID 38703894PXD047242 Dataset with its publication pending (from jPOST) Dataset title: Site-specific SUMOylation proteomics in Arabidopsis Possible reference: Sang, T. et al. (2024) Highly sensitive site-specific SUMOylation proteomics in Arabidopsis., Nat Plants, PMID 39294263PXD047235 Bhosale SD, Moulder R, Suomi T, et al (2024) Serum proteomics of mother-infant dyads carrying HLA-conferred type 1 diabetes risk. iScience 110048. https://doi.org/https://doi.org/10.1016/j.isci.2024.110048 (from PanoramaPublic) Dataset title: Serum proteomics of mother-infant dyads carrying HLA-conferred type 1 diabetes risk Possible reference: Bhosale, SD. et al. (2024) Serum proteomics of mother-infant dyads carrying HLA-conferred type 1 diabetes risk., iScience, PMID 38883825PXD047226 Dataset with its publication pending (from PRIDE) Dataset title: VAP spatially stabilizes dendritic mitochondria to locally support synaptic plasticity Possible reference: Bapat, O. et al. (2024) VAP spatially stabilizes dendritic mitochondria to locally support synaptic plasticity., Nat Commun, PMID 38177103PXD047219 no publication (from MassIVE) Dataset title: Computationally designed sensors detect Ras activity and signaling effectors at subcellular resolution Possible reference: Zhang, JZ. et al. (2024) Computationally designed sensors detect endogenous Ras activity and signaling effectors at subcellular resolution., Nat Biotechnol, PMID 38273065PXD047170 Dataset with its publication pending (from jPOST) Dataset title: Site-specific SUMOylation proteomics in Arabidopsis Possible reference: Sang, T. et al. (2024) Highly sensitive site-specific SUMOylation proteomics in Arabidopsis., Nat Plants, PMID 39294263PXD047167 Dataset with its publication pending (from PRIDE) Dataset title: A single gene mutation underpins metabolic adaptation and acquisition of filamentous competence in the emerging fungal pathogen Candida auris Possible reference: Deng, Y. et al. (2024) A single gene mutation underpins metabolic adaptation and acquisition of filamentous competence in the emerging fungal pathogen Candida auris., PLoS Pathog, PMID 38976759PXD047124 Dataset with its publication pending (from PRIDE) Dataset title: Post-translational regulation of photosynthetic activity via the TOR kinase in plants. Possible reference: D'Alessandro, S. et al. (2024) Posttranslational regulation of photosynthetic activity via the TOR kinase in plants., Sci Adv, PMID 38896607PXD047112 Dataset with its publication pending (from PRIDE) Dataset title: A complex of the lipid transport ER proteins TMEM24 and C2CD2 with band 4.1 at cell-cell contacts. Possible reference: Johnson, B. et al. (2023) A complex of the lipid transport ER proteins TMEM24 and C2CD2 with band 4.1 at cell-cell contacts., bioRxiv, PMID 38106008PXD047109 Dataset with its publication pending (from PRIDE) Dataset title: Exploring the secretome of Corynebacterium glutamicum ATCC 13032 Possible reference: Balasubramanian, S. et al. (2024) Exploring the secretome of Corynebacterium glutamicum ATCC 13032., Front Bioeng Biotechnol, PMID 38415189PXD047097 Dataset with its publication pending (from PRIDE) Dataset title: The long-chain flavodoxin FldX1 improves the biodegradation of 4-hydroxyphenylacetate and 3-hydroxyphenylacetate and counteracts the oxidative stress associated to aromatic catabolism in Paraburkholderia xenovorans Possible reference: Rodrguez-Castro, L. et al. (2024) The long-chain flavodoxin FldX1 improves the biodegradation of 4-hydroxyphenylacetate and 3-hydroxyphenylacetate and counteracts the oxidative stress associated to aromatic catabolism in Paraburkholderia xenovorans., Biol Res, PMID 38561836PXD047065 Dataset with its publication pending (from PRIDE) Dataset title: TIHAMAC: Streamlined Tandem IMAC-HILIC Workflow for Simultaneous and High-Throughput Plant Phosphoproteomics and N-glycoproteomics Analysis Possible reference: Chen, CW. et al. (2024) TIMAHAC: Streamlined Tandem IMAC-HILIC Workflow for Simultaneous and High-Throughput Plant Phosphoproteomics andN-glycoproteomics., Mol Cell Proteomics, PMID 38608839PXD047042 no publication (from MassIVE) Dataset title: In vivo mapping of protein-protein interactions of schizophrenia risk factors generates an interconnected disease network. Possible reference: McClatchy, DB. et al. (2023) In vivo mapping of protein-protein interactions of schizophrenia risk factors generates an interconnected disease network., bioRxiv, PMID 38168169PXD047034 no publication (from MassIVE) Dataset title: Calorie restriction and rapamycin distinctly restore non-canonical ORF translation in the muscles of aging mice Possible reference: Mittal, N. et al. (2024) Calorie restriction and rapamycin distinctly restore non-canonical ORF translation in the muscles of aging mice., NPJ Regen Med, PMID 39300171PXD047029 Dataset with its publication pending (from PRIDE) Dataset title: Targeted mass spectrometry analyses of somatic mutations in colorectal cancer specimens using differential ion mobility Possible reference: Wu, Z. et al. (2024) Targeted Mass Spectrometry Analyses of Somatic Mutations in Colorectal Cancer Specimens Using Differential Ion Mobility., J Proteome Res, PMID 38153093PXD047024 Dataset with its publication pending (from PRIDE) Dataset title: An Immunological Synapse Formation Between T Regulatory Cells and Cancer-Associated Fibroblasts Promotes Tumour Development Possible reference: Varveri, A. et al. (2024) Immunological synapse formation between T regulatory cells and cancer-associated fibroblasts promotes tumour development., Nat Commun, PMID 38862534PXD047023 Dataset with its publication pending (from PRIDE) Dataset title: Repression of pervasive transcription is the primary role of RNA polymerase II CTD serine 2 phosphorylation in fission yeast Possible reference: Boulanger, C. et al. (2024) Repression of pervasive antisense transcription is the primary role of fission yeast RNA polymerase II CTD serine 2 phosphorylation., Nucleic Acids Res, PMID 38801067PXD047022 Dataset with its publication pending (from PRIDE) Dataset title: A common gene signature of the right ventricle in failing rat and human hearts Possible reference: Deshpande, A. et al. (2021) SH3-Binding Glutamic Acid Rich-Deficiency Augments Apoptosis in Neonatal Rat Cardiomyocytes., Int J Mol Sci, PMID 34681711PXD047019 Dataset with its publication pending (from PRIDE) Dataset title: RNF212B E3 ligase is essential for crossing over maturation and mouse fertility Possible reference: Condezo, YB. et al. (2024) RNF212B E3 ligase is essential for crossover designation and maturation during male and female meiosis in the mouse., Proc Natl Acad Sci U S A, PMID 38865271PXD047009 Dataset with its publication pending (from PRIDE) Dataset title: Exosomes define a local and systemic communication network in healthy pancreas and in pancreatic ductal adenocarcinoma Possible reference: Adem, B. et al. (2024) Exosomes define a local and systemic communication network in healthy pancreas and pancreatic ductal adenocarcinoma., Nat Commun, PMID 38383468PXD046999 Dataset with its publication pending (from PRIDE) Dataset title: Spatial characterization and stratification of colorectal adenomas by Deep Visual Proteomics Possible reference: Kabatnik, S. et al. (2024) Spatial characterization and stratification of colorectal adenomas by deep visual proteomics., iScience, PMID 39252972PXD046976 Dataset with its publication pending (from PRIDE) Dataset title: Differential contributions of interferon classes to driving host inflammatory responses and restricting virus progeny production Possible reference: Lum, KK. et al. (2024) Differential Contributions of Interferon Classes to Host Inflammatory Responses and Restricting Virus Progeny Production., J Proteome Res, PMID 38564653PXD046971 Dataset with its publication pending (from PRIDE) Dataset title: Phosphorylation regulates viral biomolecular condensates to promote infectious progeny production Possible reference: Grams, N. et al. (2024) Phosphorylation regulates viral biomolecular condensates to promote infectious progeny production., EMBO J, PMID 38177504PXD046963 Dataset with its publication pending (from PRIDE) Dataset title: KDM5-mediated transcriptional activation of ribosomal protein genes alters translation efficiency to regulate mitochondrial metabolism Possible reference: Yheskel, M. et al. (2024) KDM5-mediated transcriptional activation of ribosomal protein genes alters translation efficiency to regulate mitochondrial metabolism in neurons., Nucleic Acids Res, PMID 38597673PXD046959 no publication (from MassIVE) Dataset title: Illuminating phenotypic drug responses of sarcoma cells to kinase inhibitors by phosphoproteomics-2 Possible reference: Lee, CY. et al. (2024) Illuminating phenotypic drug responses of sarcoma cells to kinase inhibitors by phosphoproteomics., Mol Syst Biol, PMID 38177929PXD046941 Dataset with its publication pending (from PRIDE) Dataset title: Landscape of protein-protein-interactions during hepatitis C virus assembly and release Possible reference: Matthaei, A. et al. (2024) Landscape of protein-protein interactions during hepatitis C virus assembly and release., Microbiol Spectr, PMID 38230952PXD046931 Dataset with its publication pending (from iProX) Dataset title: PARP5A and RNF146 phase separation restrains RIPK1-dependent necroptosis Possible reference: Hou, S. et al. (2024) PARP5A and RNF146 phase separation restrains RIPK1-dependent necroptosis., Mol Cell, PMID 38272024PXD046926 Dataset with its publication pending (from PRIDE) Dataset title: Cryo-EM structure of the extracellular domain of murine Thrombopoietin Receptor in complex with Thrombopoietin. Possible reference: Sarson-Lawrence, KTG. et al. (2024) Cryo-EM structure of the extracellular domain of murine Thrombopoietin Receptor in complex with Thrombopoietin., Nat Commun, PMID 38326297PXD046904 Dataset with its publication pending (from PRIDE) Dataset title: MeCP2 Represses the Activity of Topoisomerase IIβ in Long Neuronal Genes Possible reference: Nettles, SA. et al. (2023) MeCP2 represses the activity of topoisomerase IIβ in long neuronal genes., Cell Rep, PMID 38096051PXD046902 Dataset with its publication pending (from PRIDE) Dataset title: Two distinct ferredoxins are essential for nitrogen fixation by the iron nitrogenase in Rhodobacter capsulatus Possible reference: Addison, H. et al. (2024) Two distinct ferredoxins are essential for nitrogen fixation by the iron nitrogenase in Rhodobacter capsulatus., mBio, PMID 38377621PXD046881 Dataset with its publication pending (from iProX) Dataset title: Quantitative proteomics based on TMT revealed the response of PK15 cells infected PEDV wild strain Possible reference: Lv, Y. et al. (2024) Quantitative proteomics based on TMT revealed the response of PK15cells infected PEDV wild strain., Microb Pathog, PMID 38142905PXD046869 no publication (from MassIVE) Dataset title: Organelle proteomic profiling reveals lysosomal heterogeneity in association with longevity Possible reference: Yu, Y. et al. (2024) Organelle proteomic profiling reveals lysosomal heterogeneity in association with longevity., Elife, PMID 38240316PXD046866 Rocio Prisby, Alessandra Luchini, Lance A. Liotta, Caroline Solazzo. Wheat-based glues in conservation and cultural heritage: (dis)solving the proteome of flour and starch pastes and their adhering properties. https://doi.org/10.1021/acs.jproteome.3c00804 (from MassIVE) Dataset title: Wheat-based glues in conservation and cultural heritage: (dis)solving the proteome of flour and starch pastes and their adhering properties Possible reference: Prisby, R. et al. (2024) Wheat-Based Glues in Conservation and Cultural Heritage: (Dis)solving the Proteome of Flour and Starch Pastes and Their Adhering Properties., J Proteome Res, PMID 38574199PXD046826 no publication (from MassIVE) Dataset title: Multiomics characterization of a less invasive microfluidic-based cell sorting technique Possible reference: Choudhury, FK. et al. (2024) Multiomics Characterization of a Less Invasive Microfluidic-Based Cell Sorting Technique., J Proteome Res, PMID 38417049PXD046802 Dataset with its publication pending (from PRIDE) Dataset title: DIA-based phosphoproteomics identifies early phosphorylation events in response to EGTA and mannitol in Arabidopsis Possible reference: Sang, T. et al. (2024) DIA-Based Phosphoproteomics Identifies Early Phosphorylation Events in Response to EGTA and Mannitol in Arabidopsis., Mol Cell Proteomics, PMID 38901673PXD046800 Dataset with its publication pending (from iProX) Dataset title: Lactylome and Proteome of Human Hypertrophic Scar Tissues Possible reference: Zhang, E. et al. (2024) Integrative Analysis of Lactylome and Proteome of Hypertrophic Scar To Identify Pathways or Proteins Associated with Disease Development., J Proteome Res, PMID 39012622PXD046798 no publication (from MassIVE) Dataset title: LARP4 Is an RNA-Binding Protein That Binds Nuclear-Encoded Mitochondrial mRNAs To Promote Mitochondrial Function Possible reference: Lewis, BM. et al. (2024) LARP4 is an RNA-binding protein that binds nuclear-encoded mitochondrial mRNAs to promote mitochondrial function., RNA, PMID 38164626PXD046793 Dataset with its publication pending (from PRIDE) Dataset title: LPS-Stimulated Mouse Macrophage RNA Binding Protein Domain Enrichment and Analysis Possible reference: Li, Y. et al. (2024) Fibroblastic reticular cell-derived exosomes are a promising therapeutic approach for septic acute kidney injury., Kidney Int, PMID 38163633PXD046790 no publication (from MassIVE) Dataset title: Mitochondrial ribosomal protein L12 (MRPL12) post-translational modifications Possible reference: Ji, X. et al. (2023) CUL3 induces mitochondrial dysfunction via MRPL12 ubiquitination in renal tubular epithelial cells., FEBS J, PMID 37526061PXD046762 Dataset with its publication pending (from iProX) Dataset title: Proteomic and Phosphoproteomic of Cipangopaludina chinensis Possible reference: Liu, G. et al. (2024) Proteomics and phosphoproteomics reveal novel proteins involved in Cipangopaludina chinensis carcasses., Front Chem, PMID 39268005PXD046759 Dataset with its publication pending (from PRIDE) Dataset title: Role of the Yersinia pestis Phospholipase D (Ymt) in the Initial Aggregation Step of Biofilm Formation in the Flea Possible reference: Jarrett, CO. et al. (2024) Role of the Yersinia pestis phospholipase D (Ymt) in the initial aggregation step of biofilm formation in the flea., mBio, PMID 38722159PXD046748 Dataset with its publication pending (from PRIDE) Dataset title: Histone modification profile of Pristionchus pacificus Possible reference: Werner, MS. et al. (2018) Young genes have distinct gene structure, epigenetic profiles, and transcriptional regulation., Genome Res, PMID 30232198PXD046721 no publication (from MassIVE) Dataset title: The ALPHA Phase 1 Study: Pulmonary ArteriaL Hypertension Treated with CardiosPHere-Derived Allogeneic Stem Cells Possible reference: Lewis, MI. et al. (2024) The ALPHA phase 1 study: pulmonary ArteriaL hypertension treated with CardiosPHere-Derived allogeneic stem cells., EBioMedicine, PMID 38092579PXD046716 Dataset with its publication pending (from iProX) Dataset title: Local Delivery of Dual Stem Cell-derived Exosomes using an Electrospun Nanofibrous Platform for the Treatment of Traumatic Brain Injury Possible reference: Li, J. et al. (2024) Local Delivery of Dual Stem Cell-Derived Exosomes Using an Electrospun Nanofibrous Platform for the Treatment of Traumatic Brain Injury., ACS Appl Mater Interfaces, PMID 38980910PXD046701 Dataset with its publication pending (from PRIDE) Dataset title: Insights from multi-omic modelling of neurodegeneration in Xeroderma Pigmentosum using an induced pluripotent stem cell system Possible reference: Badja, C. et al. (2024) Insights from multi-omic modeling of neurodegeneration in xeroderma pigmentosum using an induced pluripotent stem cell system., Cell Rep, PMID 38805398PXD046689 Dataset with its publication pending (from iProX) Dataset title: MANF facilitates breast cancer cell survival under glucose starvation via PRKN-mediated mitophagy regulation Possible reference: Xiong, Z. et al. (2024) MANF facilitates breast cancer cell survival under glucose-starvation conditions via PRKN-mediated mitophagy regulation., Autophagy, PMID 39147386PXD046687 Dataset with its publication pending (from iProX) Dataset title: Expression of stress responsive genes enables Limosilactobacillus reuteri Possible reference: Josephs-Spaulding, J. et al. (2024) Reconstructing the transcriptional regulatory network of probiotic L. reuteri is enabled by transcriptomics and machine learning., mSystems, PMID 38349131PXD046680 Dataset with its publication pending (from iProX) Dataset title: Mapping start codons of small open reading frames by N-terminomics approach Possible reference: Peng, M. et al. (2024) Mapping start codons of small open reading frames by N-terminomics approach., Mol Cell Proteomics, PMID 39419446PXD046668 no publication (from MassIVE) Dataset title: A mammalian-specific Alex3/Galphaq protein complex regulating mitochondrial dynamics, dendritic complexity, and neuronal survival Possible reference: Izquierdo-Villalba, I. et al. (2024) A mammalian-specific Alex3/Gαq protein complex regulates mitochondrial trafficking, dendritic complexity, and neuronal survival., Sci Signal, PMID 38320000PXD046662 Dataset with its publication pending (from PRIDE) Dataset title: Chloroquine Target Identification with MS-CETSA Possible reference: Gao, P. et al. (2022) Identification of antimalarial targets of chloroquine by a combined deconvolution strategy of ABPP and MS-CETSA., Mil Med Res, PMID 35698214PXD046646 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Landscape of Endoplasmic Reticulum Remodeling During Neurogenesis via Combinatorial Selective ER-phagy Possible reference: Hoyer, MJ. et al. (2023) Combinatorial selective ER-phagy remodels the ER during neurogenesis., bioRxiv, PMID 37425907PXD046642 Dataset with its publication pending (from PRIDE) Dataset title: MK4815 Target Identification with MS-CETSA Possible reference: Wirjanata, G. et al. (2024) Identification of an inhibitory pocket in falcilysin provides a new avenue for malaria drug development., Cell Chem Biol, PMID 38593807PXD046638 Dataset with its publication pending (from PRIDE) Dataset title: Combining metabolic flux analysis with proteomics to shed light on the metabolic flexibility: the case of Desulfovibrio vulgaris Hildenborough Possible reference: Marbehan, X. et al. (2024) Combining metabolic flux analysis with proteomics to shed light on the metabolic flexibility: the case of Desulfovibrio vulgaris Hildenborough., Front Microbiol, PMID 38463485PXD046596 Dataset with its publication pending (from PRIDE) Dataset title: Spatial proteomics of skeletal muscle using thin cryosections reveals metabolic adaption at the muscle-tendon transition zone Possible reference: Schmidt, L. et al. (2024) Spatial proteomics of skeletal muscle using thin cryosections reveals metabolic adaptation at the muscle-tendon transition zone., Cell Rep, PMID 38900641PXD046590 no publication (from MassIVE) Dataset title: Human Keratinocyte Responses to Woodsmoke Possible reference: Lin, LW. et al. (2021) Woodsmoke Extracts Cross-Link Proteins and Induce Cornified Envelope Formation without Stimulating Keratinocyte Terminal Differentiation., Toxicol Sci, PMID 34086961PXD046575 Dataset with its publication pending (from PRIDE) Dataset title: MMV665806 Target Identification with MS-CETSA Possible reference: Wirjanata, G. et al. (2024) Identification of an inhibitory pocket in falcilysin provides a new avenue for malaria drug development., Cell Chem Biol, PMID 38593807PXD046569 Dataset with its publication pending (from jPOST) Dataset title: Proteomic profiling of extracellular vesicles of the Lactiplantibacillus plantarum strains Possible reference: Chernova, OA. et al. (2024) Structure of Extracellular Vesicles and Their Effect on Bacterial Biofilms Change with the Development of Antibiotic Resistance in the Probiotic Strain Lactiplantibacillus plantarum 8p-a3., Dokl Biol Sci, PMID 39400899PXD046567 Dataset with its publication pending (from iProX) Dataset title: Spatial-resolution functional proteomic profiling analysis of colorectal cancer Possible reference: Herold, N. et al. (2024) High-dimensional in situ proteomics imaging to assess γδ T cells in spatial biology., J Leukoc Biol, PMID 38285597PXD046538 Dataset with its publication pending (from PRIDE) Dataset title: MMV000848 Target Identification with MS-CETSA Possible reference: Wirjanata, G. et al. (2024) Identification of an inhibitory pocket in falcilysin provides a new avenue for malaria drug development., Cell Chem Biol, PMID 38593807PXD046520 Dataset with its publication pending (from iProX) Dataset title: Comprehensive Transcriptome and Proteome Analyses in Potato Roots Possible reference: Qin, T. et al. (2024) Comprehensive Transcriptome and Proteome Analyses Reveal the Drought Responsive Gene Network in Potato Roots., Plants (Basel), PMID 38891338PXD046505 Dataset with its publication pending (from PRIDE) Dataset title: PLD3 and PLD4 synthesize lysosomal S,S-BMP Possible reference: Singh, S. et al. (2024) PLD3 and PLD4 synthesize S,S-BMP, a key phospholipid enabling lipid degradation in lysosomes., bioRxiv, PMID 38562702PXD046498 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of P granules Z granules and Mutator foci in C.elegans Possible reference: Suen, KM. et al. (2023) Expansion microscopy reveals subdomains in C. elegans germ granules., Life Sci Alliance, PMID 36750365PXD046487 Dataset with its publication pending (from iProX) Dataset title: Jilin white goose testis proteomics. Possible reference: Song, Y. et al. (2024) Protein profile analysis of Jilin white goose testicles at different stages of the laying cycle by DIA strategy., BMC Genomics, PMID 38561689PXD046457 Dataset with its publication pending (from PRIDE) Dataset title: A SIRT7-dependent acetylation switch regulates early B-cell differentiation and lineage commitment through PAX5 Possible reference: Gamez-Garcia, A. et al. (2024) A SIRT7-dependent acetylation switch regulates early B cell differentiation and lineage commitment through Pax5., Nat Immunol, PMID 39424985PXD046448 Dataset with its publication pending (from PRIDE) Dataset title: The CDK Pho85 inhibits Whi7 Start repressor to promote cell cycle entry in budding yeast Possible reference: Ros-Carrero, C. et al. (2024) The CDK Pho85 inhibits Whi7 Start repressor to promote cell cycle entry in budding yeast., EMBO Rep, PMID 38233717PXD046445 Dataset with its publication pending (from PRIDE) Dataset title: (N)1-methylpseudouridylation of mRNA causes +1 ribosomal frameshifting Possible reference: Mulroney, TE. et al. (2024) N1-methylpseudouridylation of mRNA causes +1 ribosomal frameshifting., Nature, PMID 38057663PXD046431 no publication (from MassIVE) Dataset title: Recruitment of FBXO22 for Targeted Degradation of NSD2 Possible reference: Nie, DY. et al. (2023) Recruitment of FBXO22 for Targeted Degradation of NSD2., bioRxiv, PMID 37961297PXD046414 Dataset with its publication pending (from PRIDE) Dataset title: Leveraging a self-cleaving peptide for tailored control in proximity labeling proteomics Possible reference: Delhaye, L. et al. (2024) Leveraging a self-cleaving peptide for tailored control in proximity labeling proteomics., Cell Rep Methods, PMID 38986614PXD046413 Dataset with its publication pending (from PRIDE) Dataset title: Leveraging a self-cleaving peptide for tailored control in proximity labeling proteomics Possible reference: Delhaye, L. et al. (2024) Leveraging a self-cleaving peptide for tailored control in proximity labeling proteomics., Cell Rep Methods, PMID 38986614PXD046412 Dataset with its publication pending (from PRIDE) Dataset title: Leveraging a self-cleaving peptide for tailored control in proximity labeling proteomics Possible reference: Delhaye, L. et al. (2024) Leveraging a self-cleaving peptide for tailored control in proximity labeling proteomics., Cell Rep Methods, PMID 38986614PXD046411 no publication (from MassIVE) Dataset title: Mapping the immunopeptidome of several SARS-CoV-2 antigens across common HLA haplotypes Possible reference: Braun, A. et al. (2024) Mapping the immunopeptidome of seven SARS-CoV-2 antigens across common HLA haplotypes., Nat Commun, PMID 39214998PXD046409 Dataset with its publication pending (from iProX) Dataset title: Integrated transcriptomics, proteomics and functional analysis to characterize the tissue-specific small extracellular vesicle network of breast cancer Possible reference: Shen, L. et al. (2023) Integrated transcriptomics, proteomics, and functional analysis to characterize the tissue-specific small extracellular vesicle network of breast cancer., MedComm (2020), PMID 38053815PXD046408 Dataset with its publication pending (from iProX) Dataset title: Multi-omic Analyses Identified a Novel Biomarker in Abnormal Uterine Bleeding with Ovulatory Dysfunction Possible reference: Zhao, Y. et al. (2024) Multi-omic analyses identified SFRP4 as a novel biomarker in abnormal uterine bleeding with ovulatory dysfunction., Heliyon, PMID 39286067PXD046405 Dataset with its publication pending (from PRIDE) Dataset title: Position-specific N- and O-glycosylation of the reactive centre loop impacts neutrophil elastase-mediated proteolysis of corticosteroid-binding globulin Possible reference: Chernykh, A. et al. (2024) Position-specific N- and O-glycosylation of the reactive center loop impacts neutrophil elastase-mediated proteolysis of corticosteroid-binding globulin., J Biol Chem, PMID 38042488PXD046404 Dataset with its publication pending (from iProX) Dataset title: In-depth Profiling of 4-hydroxy-2-nonenal Modification via Reversible Thiazolidine Chemistry Possible reference: Wang, J. et al. (2024) In-Depth Profiling of 4-Hydroxy-2-nonenal Modification via Reversible Thiazolidine Chemistry., Anal Chem, PMID 38502245PXD046385 Dataset with its publication pending (from PRIDE) Dataset title: Ribosomal Protein SA (RPSA) is required for localized translation and sarcomere maintenance Possible reference: Haddad, R. et al. (2024) Localized translation and sarcomere maintenance requires ribosomal protein SA in mice., J Clin Invest, PMID 38743494PXD046382 Dataset with its publication pending (from PRIDE) Dataset title: Cross-link assisted spatial proteomics to map sub-organelle proteomes and membrane protein topology Possible reference: Zhu, Y. et al. (2024) Cross-link assisted spatial proteomics to map sub-organelle proteomes and membrane protein topologies., Nat Commun, PMID 38632225PXD046380 Dataset with its publication pending (from PRIDE) Dataset title: Nucleolar stress caused by arginine-rich peptides triggers a ribosomopathy and accelerates ageing in mice Possible reference: Sirozh, O. et al. (2024) Nucleolar stress caused by arginine-rich peptides triggers a ribosomopathy and accelerates aging in mice., Mol Cell, PMID 38521064PXD046358 Dataset with its publication pending (from PRIDE) Dataset title: The virulence regulator VirB from Shigella flexneri uses a CTPdependent switch mechanism to activate gene expression Possible reference: Jakob, S. et al. (2024) The virulence regulator VirB from Shigella flexneri uses a CTP-dependent switch mechanism to activate gene expression., Nat Commun, PMID 38182620PXD046355 Dataset with its publication pending (from PRIDE) Dataset title: Bile proteome reveals biliary regeneration during normothermic preservation of human donor livers Possible reference: Thorne, AM. et al. (2023) Bile proteome reveals biliary regeneration during normothermic preservation of human donor livers., Nat Commun, PMID 38036513PXD046335 Dataset with its publication pending (from PRIDE) Dataset title: The fatty liver disease-causing protein PNPLA3-I148M alters lipid droplet-Golgi dynamics Possible reference: Sherman, DJ. et al. (2023) The fatty liver disease-causing protein PNPLA3-I148M alters lipid droplet-Golgi dynamics., bioRxiv, PMID 37873239PXD046333 Dataset with its publication pending (from PRIDE) Dataset title: Remodeling of the gastric environment in Helicobacter pylori-induced atrophic gastritis Possible reference: Shuman, JHB. et al. (2024) Remodeling of the gastric environment in Helicobacter pylori-induced atrophic gastritis., mSystems, PMID 38059647PXD046331 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial translation is the primary determinant of secondary mitochondrial complex I deficiencies Possible reference: Čunátová, K. et al. (2024) Mitochondrial translation is the primary determinant of secondary mitochondrial complex I deficiencies., iScience, PMID 39184436PXD046297 Dataset with its publication pending (from iProX) Dataset title: BIN2 Inhibition Suppress Cancer Progression and Protect Ovarian function through Downregulating HDAC1 Phosphorylation Possible reference: Li, CR. et al. (2024) BIN2 inhibition suppress ovarian cancer progression meanwhile protect ovarian function through downregulating HDAC1 and RPS6 phosphorylation respectively., Clin Transl Med, PMID 39412213PXD046294 Dataset with its publication pending (from iProX) Dataset title: Protein expression signature in cell competition in HCC Possible reference: Zhang, HY. et al. (2024) A prognostic four-gene signature and a therapeutic strategy for hepatocellular carcinoma: Construction and analysis of a circRNA-mediated competing endogenous RNA network., Hepatobiliary Pancreat Dis Int, PMID 37407412PXD046282 Dataset with its publication pending (from jPOST) Dataset title: Cell cycle-dependent gene networks for cell proliferation activated by nuclear CK2 complexes Possible reference: Homma, MK. et al. (2024) Cell cycle-dependent gene networks for cell proliferation activated by nuclear CK2α complexes., Life Sci Alliance, PMID 37907238PXD046264 Dataset with its publication pending (from PRIDE) Dataset title: Proteolysis Targeting Chimeras With Reduced Off-targets Possible reference: Nguyen, TM. et al. (2024) Proteolysis-targeting chimeras with reduced off-targets., Nat Chem, PMID 38110475PXD046263 Dataset with its publication pending (from PRIDE) Dataset title: Repression of pattern-triggered immunity by the hypoxia response program Possible reference: Mooney, BC. et al. (2024) Hypoxia represses pattern-triggered immune responses in Arabidopsis., Plant Physiol, PMID 39158089PXD046260 Dataset with its publication pending (from PRIDE) Dataset title: Predicting the efficacy of glucocorticoids in pediatric primary immune thrombocytopenia using plasma proteomics Possible reference: Cao, Q. et al. (2023) Predicting the efficacy of glucocorticoids in pediatric primary immune thrombocytopenia using plasma proteomics., Front Immunol, PMID 38162645PXD046256 Dataset with its publication pending (from PRIDE) Dataset title: Global, neuronal, and beta-cell specific deletion of the insulin inhibitory receptor (inceptor) improves glucose homeostasis in diet-induced obese male mice Possible reference: Grandl, G. et al. (2024) Global, neuronal or β cell-specific deletion of inceptor improves glucose homeostasis in male mice with diet-induced obesity., Nat Metab, PMID 38418586PXD046243 Dataset with its publication pending (from PRIDE) Dataset title: A synthetically methylotrophic Escherichia coli as a chassis for bioproduction Possible reference: Reiter, MA. et al. (2024) A synthetic methylotrophic Escherichia coli as a chassis for bioproduction from methanol., Nat Catal, PMID 38828428PXD046237 Dataset with its publication pending (from PRIDE) Dataset title: Benchmarking and integrating human B-cell receptor genomic and antibody proteomic profiling Possible reference: L Qu, K. et al. (2024) Benchmarking and integrating human B-cell receptor genomic and antibody proteomic profiling., NPJ Syst Biol Appl, PMID 38997321PXD046229 no publication (from MassIVE) Dataset title: Fully defined NGN2 neuron protocol reveals diverse signatures of neuronal maturation Possible reference: Shan, X. et al. (2024) Fully defined NGN2 neuron protocol reveals diverse signatures of neuronal maturation., Cell Rep Methods, PMID 39255791PXD046219 Dataset with its publication pending (from PRIDE) Dataset title: Differential Protein Expression and Metabolite Profiling in Glaucoma: Insights from a Multi-Omics Analysis Possible reference: Mok, JH. et al. (2024) Differential protein expression and metabolite profiling in glaucoma: Insights from a multi-omics analysis., Biofactors, PMID 38818964PXD046218 Dataset with its publication pending (from jPOST) Dataset title: Phosphoproteomics analysis of serum from dogs affected with pulmonary hypertension secondary to degenerative mitral valve disease Possible reference: Sakarin, S. et al. (2024) Phosphoproteomics analysis of serum from dogs affected with pulmonary hypertension secondary to degenerative mitral valve disease., PeerJ, PMID 38708342PXD046200 no publication (from MassIVE) Dataset title: Signatures of Cysteine Oxidation on Structural and Contractile Proteins Are Associated with Physical Performance and Muscle Function in Older Adults Possible reference: Day, NJ. et al. (2023) Signatures of Cysteine Oxidation on Muscle Structural and Contractile Proteins Are Associated with Physical Performance and Muscle Function in Older Adults: Study of Muscle, Mobility and Aging (SOMMA)., medRxiv, PMID 37986748PXD046198 Dataset with its publication pending (from iProX) Dataset title: hnRNPA1 SUMOylation promotes cold hypersensitivity in chronic inflammatory pain by stabilizing TRPA1 mRNA Possible reference: Zhang, Q. et al. (2023) hnRNPA1 SUMOylation promotes cold hypersensitivity in chronic inflammatory pain by stabilizing TRPA1 mRNA., Cell Rep, PMID 37943660PXD046186 Dataset with its publication pending (from iProX) Dataset title: SP3-induced Timeless transcription contributes to cell proliferation and pemetrexed resistance of A549 cells Possible reference: Tian, P. et al. (2024) SP3-induced Timeless transcription contributes to cell growth of lung adenocarcinoma cells., PLoS One, PMID 38354174PXD046171 Dataset with its publication pending (from iProX) Dataset title: Deep Learning Powers Protein Identification from Precursor MS Information Possible reference: Dai, Y. et al. (2024) Deep Learning Powers Protein Identification from Precursor MS Information., J Proteome Res, PMID 39167422PXD046164 Dataset with its publication pending (from PRIDE) Dataset title: Protein-protein interactions of the N-terminal region of PRPF40A Possible reference: Martnez-Lumbreras, S. et al. (2024) Intramolecular autoinhibition regulates the selectivity of PRPF40A tandem WW domains for proline-rich motifs., Nat Commun, PMID 38719828PXD046152 Dataset with its publication pending (from PRIDE) Dataset title: The plastidial protein acetyltransferase GNAT1 interacts with GNAT2 without affecting state transitions Possible reference: Brnje, A. et al. (2024) The plastidial protein acetyltransferase GNAT1 forms a complex with GNAT2, yet their interaction is dispensable for state transitions., Mol Cell Proteomics, PMID 39349166PXD046146 Dataset with its publication pending (from iProX) Dataset title: Rab10-CAV1 mediated intraluminal vesicles transport to migrasomes Possible reference: Li, Y. et al. (2024) Rab10-CAV1 mediated intraluminal vesicle transport to migrasomes., Proc Natl Acad Sci U S A, PMID 39008679PXD046137 no publication (from MassIVE) Dataset title: Self-assembly of nanofilaments in cyanobacteria for protein co-localization Possible reference: Zedler, JAZ. et al. (2023) Self-Assembly of Nanofilaments in Cyanobacteria for Protein Co-localization., ACS Nano, PMID 38065569PXD046120 Dataset with its publication pending (from PRIDE) Dataset title: The deubiquitinase cofactor UAF1 interacts with USP1 and plays an essential role in spermiogenesis Possible reference: Wang, Z. et al. (2024) The deubiquitinase cofactor UAF1 interacts with USP1 and plays an essential role in spermiogenesis., iScience, PMID 38591005PXD046119 Dataset with its publication pending (from PRIDE) Dataset title: Cryo-EM structures of type IV pili complexed with nanobodies reveal immune escape mechanisms Possible reference: Fernandez-Martinez, D. et al. (2024) Cryo-EM structures of type IV pili complexed with nanobodies reveal immune escape mechanisms., Nat Commun, PMID 38499587PXD046118 Dataset with its publication pending (from PRIDE) Dataset title: Identification of Ngo-B interacting proteins Possible reference: Parajuli, B. et al. (2020) Identification of a glycan cluster in gp120 essential for irreversible HIV-1 lytic inactivation by a lectin-based recombinantly engineered protein conjugate., Biochem J, PMID 33057580PXD046064 no publication (from MassIVE) Dataset title: PHF6 cooperates with SWI/SNF complexes to facilitate transcriptional progression Possible reference: Mittal, P. et al. (2024) PHF6 cooperates with SWI/SNF complexes to facilitate transcriptional progression., Nat Commun, PMID 39181868PXD046059 Dataset with its publication pending (from jPOST) Dataset title: Comparative serum proteome profiling of canine benign prostatic hyperplasia before and after castration Possible reference: Ploypetch, S. et al. (2023) Comparative Serum Proteome Profiling of Canine Benign Prostatic Hyperplasia before and after Castration., Animals (Basel), PMID 38136890PXD046058 Dataset with its publication pending (from PRIDE) Dataset title: Protein profiling of plasma extracellular vesicles from rheumatoid arthritis patients. Possible reference: Rodrguez-Carrio, J. et al. (2015) Altered profile of circulating microparticles in rheumatoid arthritis patients., Clin Sci (Lond), PMID 25369551PXD046050 Dataset with its publication pending (from PRIDE) Dataset title: Proteome along the dorso-ventral axis of the early Drosophila embryo Possible reference: Gomez, JM. et al. (2024) Differential regulation of the proteome and phosphoproteome along the dorso-ventral axis of the early Drosophila embryo., Elife, PMID 39221782PXD046048 Dataset with its publication pending (from jPOST) Dataset title: OGE sensitizes HCC to cisplatin treatment Possible reference: Chen, JH. et al. (2024) Aqueous Extracts of Ocimum gratissimum Sensitize Hepatocellular Carcinoma Cells to Cisplatin through BRCA1 Inhibition., Int J Mol Sci, PMID 39125994PXD046038 no publication (from MassIVE) Dataset title: (N)1-methylpseudouridylation of mRNA causes +1 ribosomal frameshifting Possible reference: Mulroney, TE. et al. (2024) N1-methylpseudouridylation of mRNA causes +1 ribosomal frameshifting., Nature, PMID 38057663PXD046016 Dataset with its publication pending (from iProX) Dataset title: NAMPT-targeting PROTAC and nicotinic acid co-administration elicits safe and robust anti-tumor efficacy in NAPRT-deficient pan-cancers Possible reference: Zhu, X. et al. (2024) NAMPT-targeting PROTAC and nicotinic acid co-administration elicit safe and robust anti-tumor efficacy in NAPRT-deficient pan-cancers., Cell Chem Biol, PMID 38906111PXD046006 Dataset with its publication pending (from PRIDE) Dataset title: On-target, dual aminopeptidase inhibition provides cross-species antimalarial activity Possible reference: Edgar, RCS. et al. (2024) On-target, dual aminopeptidase inhibition provides cross-species antimalarial activity., mBio, PMID 38717141PXD045996 Dataset with its publication pending (from PRIDE) Dataset title: p38γ/δ activation alters cardiac electrical activity and predisposes to ventricular arrhythmia Possible reference: Romero-Becerra, R. et al. (2023) p38γ/δ activation alters cardiac electrical activity and predisposes to ventricular arrhythmia., Nat Cardiovasc Res, PMID 39196141PXD045992 Dataset with its publication pending (from PRIDE) Dataset title: Profiling the interactome of oligonucleotide drugs by proximity biotinylation Possible reference: Hanswillemenke, A. et al. (2024) Profiling the interactome of oligonucleotide drugs by proximity biotinylation., Nat Chem Biol, PMID 38233583PXD045982 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of cerebrospinal fluid for development of biomarker in medulloblastoma Possible reference: Low, SYY. et al. (2020) Cerebrospinal fluid cytokines in metastatic group 3 and 4 medulloblastoma., BMC Cancer, PMID 32539808PXD045973 Dataset with its publication pending (from iProX) Dataset title: Proteomic investigation on the direct corona of nanoparticles Possible reference: Pisani, C. et al. (2017) The timeline of corona formation around silica nanocarriers highlights the role of the protein interactome., Nanoscale, PMID 27858044PXD045972 Dataset with its publication pending (from iProX) Dataset title: Chemical Sensors Detect and Resolve Proteome Aggregation in Peripheral Neuropathy induced by Chemotherapeutic Agents Possible reference: Wang, Z. et al. (2024) Chemical sensors detect and resolve proteome aggregation in peripheral neuropathy cell model induced by chemotherapeutic agents., Bioorg Chem, PMID 38788365PXD045943 Dataset with its publication pending (from iProX) Dataset title: iTRAQ proteomic analysis of peaonia ostii ‘Fengdan’ leaf Possible reference: Zheng, W. et al. (2024) iTRAQ proteome analysis reveals the underling mechanisms of foliage zinc-spraying to improve photosynthetic capacity and seed yields of Peaonia ostii 'Fengdan'., Plant Physiol Biochem, PMID 39217824PXD045938 Dataset with its publication pending (from iProX) Dataset title: Exogenous pyruvate promotes gentamicin uptake to kill antibiotic-resistant Vibrio alginolyticus Possible reference: Zhang, S. et al. (2019) Reduced redox-dependent mechanism and glucose-mediated reversal in gentamicin-resistant Vibrio alginolyticus., Environ Microbiol, PMID 31595636PXD045934 Dataset with its publication pending (from PRIDE) Dataset title: RHBDL4-triggered downregulation of COPII adaptor protein TMED7 suppresses TLR4-mediated inflammatory signaling Possible reference: Knopf, JD. et al. (2024) RHBDL4-triggered downregulation of COPII adaptor protein TMED7 suppresses TLR4-mediated inflammatory signaling., Nat Commun, PMID 38453906PXD045921 Dataset with its publication pending (from PRIDE) Dataset title: Immunoproximity biotinylation reveals the axon initial segment proteome Possible reference: Zhang, W. et al. (2023) Immunoproximity biotinylation reveals the axon initial segment proteome., Nat Commun, PMID 38081810PXD045915 no publication (from MassIVE) Dataset title: Systematic perturbations of SETD2, NSD1, NSD2, NSD3 and ASH1L reveals their distinct contributions to H3K36 methylation Possible reference: Shipman, GA. et al. (2023) Systematic perturbations of SETD2, NSD1, NSD2, NSD3 and ASH1L reveals their distinct contributions to H3K36 methylation., bioRxiv, PMID 37905045PXD045910 Dataset with its publication pending (from PRIDE) Dataset title: Physiological variability in mitochondrial rRNA may predispose to metabolic syndrome Possible reference: Pecina, P. et al. (2024) Haplotype variability in mitochondrial rRNA predisposes to metabolic syndrome., Commun Biol, PMID 39261587PXD045899 Dataset with its publication pending (from PRIDE) Dataset title: The Proteomic Landscape of in vitro Cultured Endothelial Cells across Vascular Beds Possible reference: Groten, SA. et al. (2024) The proteomic landscape of in vitro cultured endothelial cells across vascular beds., Commun Biol, PMID 39143368PXD045892 Dataset with its publication pending (from PRIDE) Dataset title: Discovery of molecular glue degraders via isogenic morphological profiling Possible reference: Ng, A. et al. (2023) Discovery of Molecular Glue Degraders via Isogenic Morphological Profiling., ACS Chem Biol, PMID 38098458PXD045890 Dataset with its publication pending (from PRIDE) Dataset title: Calliactis polypus secreted venom Possible reference: Smith, HL. et al. (2023) Acontia, a Specialised Defensive Structure, Has Low Venom Complexity in Calliactis polypus., Toxins (Basel), PMID 36977109PXD045887 Dataset with its publication pending (from PRIDE) Dataset title: An Intra-Individual Paired Mass Spectrometry dataset for decoding Solar-Induced Proteomic Changes in Facial Skin Possible reference: Camillo-Andrade, AC. et al. (2024) Intra-Individual Paired Mass Spectrometry Dataset for Decoding Solar-Induced Proteomic Changes in Facial Skin., Sci Data, PMID 38702328PXD045862 Dataset with its publication pending (from PRIDE) Dataset title: Proximity proteomics reveals UCH-L1 as an essential regulator of NLRP3-mediated IL-1β production in human macrophages and microglia Possible reference: Liang, Z. et al. (2024) Proximity proteomics reveals UCH-L1 as an essential regulator of NLRP3-mediated IL-1β production in human macrophages and microglia., Cell Rep, PMID 38669140PXD045855 no publication (from MassIVE) Dataset title: Integrated Immunopeptidomic and Proteomic Analysis of COVID-19 lung biopsies Possible reference: Yin, S. et al. (2023) Integrated Immunopeptidomic and Proteomic Analysis of COVID-19 lung biopsies., Front Immunol, PMID 37942334PXD045852 Dataset with its publication pending (from jPOST) Dataset title: Comparative proteomic profiling represents an inhibition of protein synthesis to regulate osmotic stress in Nile tilapia (Oreochromis niloticus) embryos Possible reference: Withyachumnarnkul, B. et al. (2024) Comparative proteomic profiling represents an inhibition of protein synthesis to regulate osmotic stress in Nile tilapia (Oreochromis niloticus) embryos., Comp Biochem Physiol Part D Genomics Proteomics, PMID 38061253PXD045845 Dataset with its publication pending (from PRIDE) Dataset title: Structural basis for the modulation of MRP2 activity by phosphorylation and drugs Possible reference: Mazza, T. et al. (2024) Structural basis for the modulation of MRP2 activity by phosphorylation and drugs., Nat Commun, PMID 38438394PXD045840 Dataset with its publication pending (from PRIDE) Dataset title: A framework for performing single-cell spatial metabolomics with cell-type specific protein profiling for tissue systems biology Possible reference: Srivastava, AK. et al. (2016) Human genome meeting 2016 : Houston, TX, USA. 28 February - 2 March 2016., Hum Genomics, PMID 27294413PXD045836 Dataset with its publication pending (from PRIDE) Dataset title: Myeloid-derived grancalcin instigates obesity-induced insulin resistance and metabolic inflammation Possible reference: Su, T. et al. (2024) Myeloid-derived grancalcin instigates obesity-induced insulin resistance and metabolic inflammation in male mice., Nat Commun, PMID 38167327PXD045828 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondria proteomics of murine kidney podocytes Possible reference: Qi, W. et al. (2017) Pyruvate kinase M2 activation may protect against the progression of diabetic glomerular pathology and mitochondrial dysfunction., Nat Med, PMID 28436957PXD045827 no publication (from MassIVE) Dataset title: An inhibitor/anti-inhibitor system controls the activity of lytic transglycosylase MltF in Pseudomonas aeruginosa Possible reference: Wang, M. et al. (2023) An inhibitor/anti-inhibitor system controls the activity of lytic transglycosylase MltF in Pseudomonas aeruginosa., bioRxiv, PMID 37546783PXD045808 Dataset with its publication pending (from PRIDE) Dataset title: Regulation of the DLC3 tumor suppressor by a novel phosphoswitch Possible reference: Frey, Y. et al. (2024) Regulation of the DLC3 tumor suppressor by a novel phosphoswitch., iScience, PMID 39021807PXD045787 Dataset with its publication pending (from PRIDE) Dataset title: A brain-enriched circular RNA controls excitatory neurotransmission and restricts sensitivity to aversive stimuli Possible reference: Giusti, SA. et al. (2024) A brain-enriched circular RNA controls excitatory neurotransmission and restricts sensitivity to aversive stimuli., Sci Adv, PMID 38787942PXD045773 no publication (from MassIVE) Dataset title: Generation and Characterization of a Monoclonal Antibody Against an African Swine Fever Virus Protein Encoded by the A137R Gene Possible reference: Embury-Hyatt, C. et al. (2023) Generation and characterization of a monoclonal antibody against an African swine fever virus protein encoded by the A137R gene., Front Vet Sci, PMID 37929283PXD045754 Dataset with its publication pending (from PRIDE) Dataset title: Neuroligin 2 Governs Synaptic Morphology and Function Through RACK1-Cofilin Signaling in Drosophila Possible reference: Sun, Y. et al. (2023) Neuroligin 2 governs synaptic morphology and function through RACK1-cofilin signaling in Drosophila., Commun Biol, PMID 37853189PXD045753 Dataset with its publication pending (from PRIDE) Dataset title: Peptidomic analysis of follicular fluid in patients with polycystic ovarian syndrome Possible reference: Dai, G. et al. (2012) Different protein expression patterns associated with polycystic ovary syndrome in human follicular fluid during controlled ovarian hyperstimulation., Reprod Fertil Dev, PMID 22935150PXD045744 Dataset with its publication pending (from jPOST) Dataset title: DIAPH1-MFN2 interaction regulates mitochondria-SR/ER contact and modulates ischemic/hypoxic stress Possible reference: Yepuri, G. et al. (2023) DIAPH1-MFN2 interaction regulates mitochondria-SR/ER contact and modulates ischemic/hypoxic stress., Nat Commun, PMID 37903764PXD045741 Dataset with its publication pending (from PRIDE) Dataset title: MmoD regulates soluble methane monooxygenase and methanobactin production in Methylosinus trichosporium OB3b Possible reference: Semrau, JD. et al. (2013) Methanobactin and MmoD work in concert to act as the 'copper-switch' in methanotrophs., Environ Microbiol, PMID 23682956PXD045719 Dataset with its publication pending (from PRIDE) Dataset title: Microglial Rac1 is essential for experience-dependent brain plasticity and cognitive performance Possible reference: Socodato, R. et al. (2023) Microglial Rac1 is essential for experience-dependent brain plasticity and cognitive performance., Cell Rep, PMID 37980559PXD045715 Dataset with its publication pending (from PRIDE) Dataset title: Chemoproteomics-guided development of SLC15A4 inhibitors with anti-inflammatory activity Possible reference: Boeszoermenyi, A. et al. (2023) A conformation-locking inhibitor of SLC15A4 with TASL proteostatic anti-inflammatory activity., Nat Commun, PMID 37863876PXD045712 Dataset with its publication pending (from PRIDE) Dataset title: Chemoproteomics-guided development of SLC15A4 inhibitors with anti-inflammatory activity Possible reference: Boeszoermenyi, A. et al. (2023) A conformation-locking inhibitor of SLC15A4 with TASL proteostatic anti-inflammatory activity., Nat Commun, PMID 37863876PXD045692 Dataset with its publication pending (from iProX) Dataset title: Proteomics of the faba bean root system Possible reference: Yan, S. et al. (2014) Proteomics insights into the basis of interspecific facilitation for maize (Zea mays) in faba bean (Vicia faba)/maize intercropping., J Proteomics, PMID 25009142PXD045685 Dataset with its publication pending (from jPOST) Dataset title: Synergistic effects of polymyxin and vancomycin combinations on carbapenem- and polymyxin-resistant Klebsiella pneumoniae and their molecular characteristics Possible reference: Nwabor, OF. et al. (2023) Synergistic effects of polymyxin and vancomycin combinations on carbapenem- and polymyxin-resistant Klebsiella pneumoniae and their molecular characteristics., Microbiol Spectr, PMID 37905823PXD045677 Dataset with its publication pending (from PRIDE) Dataset title: Human HFpEF Myocardial Proteomics Possible reference: Tschpe, C. et al. (2016) Cardiac contractility modulation signals improve exercise intolerance and maladaptive regulation of cardiac key proteins for systolic and diastolic function in HFpEF., Int J Cardiol, PMID 26638055PXD045672 no publication (from MassIVE) Dataset title: Physiological and Cognitive Changes after Treatments of Cyclophosphamide, Methotrexate, and Fluorouracil: Implications of the Gut Microbiome and Depressive-Like Behavior Possible reference: Corley, C. et al. (2023) Physiological and cognitive changes after treatments of cyclophosphamide, methotrexate, and fluorouracil: implications of the gut microbiome and depressive-like behavior., Front Neurosci, PMID 37869506PXD045671 Dataset with its publication pending (from PRIDE) Dataset title: Parkinson’s VPS35[D620N] mutation induces LRRK2 mediated lysosomal association of RILPL1 and TMEM55B Possible reference: Pal, P. et al. (2023) Parkinson's VPS35[D620N] mutation induces LRRK2-mediated lysosomal association of RILPL1 and TMEM55B., Sci Adv, PMID 38091401PXD045652 Dataset with its publication pending (from PRIDE) Dataset title: BDNF-TrkB signaling orchestrates the buildup process for local sleep Possible reference: ElGrawani, W. et al. (2024) BDNF-TrkB signaling orchestrates the buildup process of local sleep., Cell Rep, PMID 39046880PXD045646 no publication (from MassIVE) Dataset title: Proteomic analysis of PROSER2 overexpressing cells Possible reference: Lee, YS. et al. (2024) New Function Annotation of PROSER2 in Pancreatic Ductal Adenocarcinoma., J Proteome Res, PMID 38293943PXD045622 Dataset with its publication pending (from PRIDE) Dataset title: USP36 stabilizes nucleolar Snail1 to promote ribosome biogenesis and cancer cell survival upon ribotoxic stress Possible reference: Qin, K. et al. (2023) USP36 stabilizes nucleolar Snail1 to promote ribosome biogenesis and cancer cell survival upon ribotoxic stress., Nat Commun, PMID 37833415PXD045603 no publication (from MassIVE) Dataset title: STING induces LUBAC synthesis of linear ubiquitin chains to activate NFkB Possible reference: Chu, Y. et al. (2021) LUBAC and OTULIN regulate autophagy initiation and maturation by mediating the linear ubiquitination and the stabilization of ATG13., Autophagy, PMID 32543267PXD045586 Dataset with its publication pending (from PRIDE) Dataset title: Phosphorylation of CFP10 modulates Mycobacterium tuberculosis virulence Possible reference: Malakar, B. et al. (2023) Phosphorylation of CFP10 modulates Mycobacterium tuberculosis virulence., mBio, PMID 37791794PXD045565 Dataset with its publication pending (from PRIDE) Dataset title: Cathepsin B Promotes Aβ Proteotoxicity by Modulating Aging Regulating Mechanisms Possible reference: Siddiqui, AA. et al. (2024) Cathepsin B promotes Aβ proteotoxicity by modulating aging regulating mechanisms., Nat Commun, PMID 39362844PXD045562 Dataset with its publication pending (from PRIDE) Dataset title: Aspartyl-tRNA synthetase 2 orchestrates iron-sulfur metabolism in hematopoietic stem cells via fine-tuning alternative RNA splicing Possible reference: Gu, X. et al. (2023) Aspartyl-tRNA synthetase 2 orchestrates iron-sulfur metabolism in hematopoietic stem cells via fine-tuning alternative RNA splicing., Cell Rep, PMID 37838946PXD045561 Dataset with its publication pending (from PRIDE) Dataset title: Cathepsin B Promotes Aβ Proteotoxicity by Modulating Aging Regulating Mechanisms Possible reference: Siddiqui, AA. et al. (2024) Cathepsin B promotes Aβ proteotoxicity by modulating aging regulating mechanisms., Nat Commun, PMID 39362844PXD045538 Dataset with its publication pending (from iProX) Dataset title: metaproteome of an anammox community Possible reference: Hawley, AK. et al. (2014) Metaproteomics reveals differential modes of metabolic coupling among ubiquitous oxygen minimum zone microbes., Proc Natl Acad Sci U S A, PMID 25053816PXD045536 no publication (from MassIVE) Dataset title: Jorge Gomez Deza_Claire Le Pichon_16LFQ_Human Possible reference: Gmez-Deza, J. et al. (2024) DLK-dependent axonal mitochondrial fission drives degeneration following axotomy., bioRxiv, PMID 36778383PXD045533 no publication (from MassIVE) Dataset title: Shared and Distinct Mechanisms of UBA1 Inactivation Across Different Diseases Possible reference: Collins, JC. et al. (2023) Shared and Distinct Mechanisms of UBA1 Inactivation Across Different Diseases., bioRxiv, PMID 37873213PXD045531 Dataset with its publication pending (from PRIDE) Dataset title: Cathepsin B Promotes Aβ Proteotoxicity by Modulating Aging Regulating Mechanisms Possible reference: Siddiqui, AA. et al. (2024) Cathepsin B promotes Aβ proteotoxicity by modulating aging regulating mechanisms., Nat Commun, PMID 39362844PXD045525 Dataset with its publication pending (from PRIDE) Dataset title: Secreted footprint of pluripotency in Man-13 HeSCs Possible reference: Lewis, PA. et al. (2024) A secreted proteomic footprint for stem cell pluripotency., PLoS One, PMID 38875182PXD045522 Dataset with its publication pending (from PRIDE) Dataset title: Multi-Omic and Functional Analysis for Classification and Treatment of Sarcomas with FUS-TFCP2 or EWSR1-TFCP2 Fusions Possible reference: Agaram, NP. et al. (2019) Expanding the Spectrum of Intraosseous Rhabdomyosarcoma: Correlation Between 2 Distinct Gene Fusions and Phenotype., Am J Surg Pathol, PMID 30720533PXD045519 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic biomarkers in seminal plasma as predictors of reproductive potential in azoospermic men Possible reference: Fietz, D. et al. (2024) Proteomic biomarkers in seminal plasma as predictors of reproductive potential in azoospermic men., Front Endocrinol (Lausanne), PMID 38654926PXD045499 no publication (from MassIVE) Dataset title: Staphylococcus aureus LukAB stem domain unlatching influences toxin oligomerization Possible reference: Ilmain, JK. et al. (2023) Unlatching of the stem domains in the Staphylococcus aureus pore-forming leukocidin LukAB influences toxin oligomerization., J Biol Chem, PMID 37802313PXD045489 Dataset with its publication pending (from jPOST) Dataset title: Tyrosinase-based proximity labeling in living cell and in vivo Possible reference: Zhu, H. et al. (2024) Tyrosinase-Based Proximity Labeling in Living Cells and In Vivo., J Am Chem Soc, PMID 38445591PXD045483 Dataset with its publication pending (from PRIDE) Dataset title: Aged gastrocnemius muscle of mice positively responds to a late onset adapted physical training Possible reference: Cisterna, B. et al. (2023) Aged gastrocnemius muscle of mice positively responds to a late onset adapted physical training., Front Cell Dev Biol, PMID 38020923PXD045468 Dataset with its publication pending (from PRIDE) Dataset title: Tamm-Horsfall protein augments neutrophil NETosis Possible reference: Mercado-Evans, V. et al. (2024) Tamm-Horsfall protein augments neutrophil NETosis during urinary tract infection., bioRxiv, PMID 38370726PXD045454 Dataset with its publication pending (from PRIDE) Dataset title: The interactome of histone deacetylase HDA19 in dark-grown Arabidopsis seedlings Possible reference: Vlez-Bermdez, IC. et al. (2023) The interactome of histone deacetylase HDA19 in dark-grown Arabidopsis seedlings., Front Plant Sci, PMID 38078106PXD045452 Dataset with its publication pending (from PRIDE) Dataset title: The name of the game: palaeoproteomics and radiocarbon dates further refine the presence and dispersal of caprines in eastern and southern Africa Possible reference: Le Meillour, L. et al. (2023) The name of the game: palaeoproteomics and radiocarbon dates further refine the presence and dispersal of caprines in eastern and southern Africa., R Soc Open Sci, PMID 38026023PXD045446 Dataset with its publication pending (from PRIDE) Dataset title: Structure of transcribing RNA polymerase II-Elongin complex Possible reference: Chen, Y. et al. (2023) Structure of the transcribing RNA polymerase II-Elongin complex., Nat Struct Mol Biol, PMID 37932450PXD045443 Dataset with its publication pending (from PRIDE) Dataset title: METTL17 is an Fe-S cluster checkpoint for mitochondrial translation Possible reference: Ast, T. et al. (2024) METTL17 is an Fe-S cluster checkpoint for mitochondrial translation., Mol Cell, PMID 38199006PXD045423 no publication (from MassIVE) Dataset title: Dynamics of single-cell protein covariation during epithelial-mesenchymal transition Possible reference: Khan, S. et al. (2024) Dynamics of single-cell protein covariation during epithelial-mesenchymal transition., bioRxiv, PMID 38187715PXD045415 Dataset with its publication pending (from PRIDE) Dataset title: DDA1, a novel factor in transcription-coupled repair, modulates CRL4CSA dynamics at DNA damage-stalled RNA polymerase II Possible reference: Schiffmacher, DL. et al. (2023) DDA1, a novel factor in transcription-coupled repair, modulates CRL4CSA dynamics at DNA damage-stalled RNA polymerase II., Res Sq, PMID 37886519PXD045411 Dataset with its publication pending (from PRIDE) Dataset title: Functional analysis of Cdc20 reveals a critical role of CRY box in mitotic checkpoint signaling Possible reference: Zhang, Y. et al. (2024) Functional analysis of Cdc20 reveals a critical role of CRY box in mitotic checkpoint signaling., Commun Biol, PMID 38337031PXD045396 Dataset with its publication pending (from iProX) Dataset title: circRNA regulates macrophage pyroptosis in infection Possible reference: Yang, D. et al. (2023) CircRNA_0075723 protects against pneumonia-induced sepsis through inhibiting macrophage pyroptosis by sponging miR-155-5p and regulating SHIP1 expression., Front Immunol, PMID 36923408PXD045393 Dataset with its publication pending (from PRIDE) Dataset title: Multiple phosphorylation sites regulate the activity of the repressor Mig1 in Candida albicans Possible reference: Ramrez-Zavala, B. et al. (2023) Multiple phosphorylation sites regulate the activity of the repressor Mig1 in Candida albicans., mSphere, PMID 38010000PXD045380 Dataset with its publication pending (from PRIDE) Dataset title: Human cell surface-AAV interactomes identify LRP6 as blood-brain-barrier transcytosis receptor and immune cytokine IL3 as AAV9 binder Possible reference: Shay, TF. et al. (2024) Human cell surface-AAV interactomes identify LRP6 as blood-brain barrier transcytosis receptor and immune cytokine IL3 as AAV9 binder., Nat Commun, PMID 39245720PXD045377 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of granulomas from cattle and pigs naturally infected with Mycobacterium tuberculosis complex by MALDI-MSI Possible reference: Larenas-Muoz, F. et al. (2024) Proteomic analysis of granulomas from cattle and pigs naturally infected with Mycobacterium tuberculosis complex by MALDI imaging., Front Immunol, PMID 39021575PXD045375 Dataset with its publication pending (from iProX) Dataset title: Integrating physiological features and proteomic analyses provides new insight in blue/red light-treated moso bamboo (Phyllostachys edulis) Possible reference: Zhang, C. et al. (2024) Integrating Physiological Features and Proteomic Analyses Provides New Insights in Blue/Red Light-Treated Moso Bamboo (Phyllostachys edulis)., J Agric Food Chem, PMID 38780458PXD045328 Dataset with its publication pending (from PRIDE) Dataset title: Characterizing the secretome of EGFR mutant lung adenocarcinoma Possible reference: Luu, JK. et al. (2023) Characterizing the secretome of EGFR mutant lung adenocarcinoma., Front Oncol, PMID 38260835PXD045311 Dataset with its publication pending (from PRIDE) Dataset title: A comprehensive portrait of tissue-, age- and sex-specific DNA modifications in rodents and humans Possible reference: Guilbaud, A. et al. (2023) Discovery adductomics provides a comprehensive portrait of tissue-, age- and sex-specific DNA modifications in rodents and humans., Nucleic Acids Res, PMID 37843128PXD045278 N. Pierre, V.A. Huynh-Thu, D. Baiwir, et al., Serum proteome
signatures associated with ileal and colonic ulcers in Crohn's disease, Journal of
Proteomics (2023), https://doi.org/10.1016/j.jprot.2024.105199 (from PanoramaPublic) Dataset title: Serum proteome signatures associated with ileal and colonic ulcers in Crohn's disease Possible reference: Pierre, N. et al. (2024) Serum proteome signatures associated with ileal and colonic ulcers in Crohn's disease., J Proteomics, PMID 38763457PXD045272 Dataset with its publication pending (from PRIDE) Dataset title: Tur1 regulates alternative TSS usage in Cryptococcus Possible reference: Dang, TTV. et al. (2024) Alternative TSS use is widespread in Cryptococcus fungi in response to environmental cues and regulated genome-wide by the transcription factor Tur1., PLoS Biol, PMID 39052688PXD045270 Dataset with its publication pending (from PRIDE) Dataset title: TMT-based quantitative proteomics reveals the protective mechanism of Tenuigenin after experimental intracerebral hemorrhage in mice Possible reference: Wang, P. et al. (2024) TMT-based quantitative proteomics reveals the protective mechanism of tenuigenin after experimental intracerebral hemorrhage in mice., J Ethnopharmacol, PMID 37739103PXD045248 Dataset with its publication pending (from iProX) Dataset title: Prediction of glycopeptide fragment mass spectra by deep learning Possible reference: Yang, Y. et al. (2024) Prediction of glycopeptide fragment mass spectra by deep learning., Nat Commun, PMID 38503734PXD045246 Dataset with its publication pending (from PRIDE) Dataset title: Glycoproteomic and Proteomic analysis of Burkholderia cenocepacia reveals glycosylation events within FliF and MotB are dispensable for motility. - FliF DIA Possible reference: Lewis, JM. et al. (2024) Glycoproteomic and proteomic analysis of Burkholderia cenocepacia reveals glycosylation events within FliF and MotB are dispensable for motility., Microbiol Spectr, PMID 38709084PXD045244 Dataset with its publication pending (from jPOST) Dataset title: Secretomic effects of amyloid beta peptides on Alzheimer’s disease related proteins in differentiated SH-SY5Y neuroblastoma cell Possible reference: Roytrakul, S. et al. (2024) Secretomic changes of amyloid beta peptides on Alzheimer's disease related proteins in differentiated human SH-SY5Y neuroblastoma cells., PeerJ, PMID 39035166PXD045240 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of pulmonary arteries and lung tissues from dogs affected with pulmonary hypertension secondary to degenerative mitral valve disease Possible reference: Sakarin, S. et al. (2024) Proteomic analysis of pulmonary arteries and lung tissues from dogs affected with pulmonary hypertension secondary to degenerative mitral valve disease., PLoS One, PMID 38181036PXD045239 Dataset with its publication pending (from PRIDE) Dataset title: Adaptive design of mRNA-loaded extracellular vesicles for targeted immunotherapy of cancer Possible reference: Dong, S. et al. (2023) Adaptive design of mRNA-loaded extracellular vesicles for targeted immunotherapy of cancer., Nat Commun, PMID 37857647PXD045234 Dataset with its publication pending (from PRIDE) Dataset title: The CASP3 Prodomain Regulates Human Cell Survival and Proliferation Possible reference: Eskandari, E. et al. (2024) Dependence of human cell survival and proliferation on the CASP3 prodomain., Cell Death Discov, PMID 38321033PXD045213 Dataset with its publication pending (from PRIDE) Dataset title: Phosphorylation and protein interactions in plant gravity sensing Possible reference: Kruse, CPS. et al. (2020) Spaceflight induces novel regulatory responses in Arabidopsis seedling as revealed by combined proteomic and transcriptomic analyses., BMC Plant Biol, PMID 32460700PXD045210 Dataset with its publication pending (from jPOST) Dataset title: Mapping Nanoscale-to-Single Cell Phosphoproteomic Landscape by Chip-DIA Possible reference: Muneer, G. et al. (2024) Mapping Nanoscale-To-Single-Cell Phosphoproteomic Landscape by Chip-DIA., Adv Sci (Weinh), PMID 39401432PXD045198 Dataset with its publication pending (from jPOST) Dataset title: In-depth proteome profiling of small extracellular vesicles isolated from cancer cell lines and patient serum Possible reference: Abhange, K. et al. (2024) In-Depth Proteome Profiling of Small Extracellular Vesicles Isolated from Cancer Cell Lines and Patient Serum., J Proteome Res, PMID 38113368PXD045194 Dataset with its publication pending (from PRIDE) Dataset title: Targeting metabolic fluxes reverts metastatic transitions in ovarian cancer Possible reference: Arora, G. et al. (2023) Targeting metabolic fluxes reverts metastatic transitions in ovarian cancer., iScience, PMID 37876796PXD045192 Dataset with its publication pending (from jPOST) Dataset title: Hands-free Proteomic Profiling of Urinary Extracellular Vesicles with a High-throughput Automated Workflow Possible reference: Lee, ZC. et al. (2023) Hands-Free Proteomic Profiling of Urinary Extracellular Vesicles with a High-Throughput Automated Workflow., J Am Soc Mass Spectrom, PMID 37870912PXD045180 no publication (from MassIVE) Dataset title: Assessing the precision of a detergent-assisted cartridge precipitation workflow for quantitative proteomics Possible reference: Nickerson, JL. et al. (2024) Assessing the precision of a detergent-assisted cartridge precipitation workflow for non-targeted quantitative proteomics., Proteomics, PMID 38299459PXD045179 Dataset with its publication pending (from PRIDE) Dataset title: A Non-symmetrical p97 Conformation Favors Ufd1/Npl4 Recruitment Possible reference: Arie, M. et al. (2024) A non-symmetrical p97 conformation initiates a multistep recruitment of Ufd1/Npl4., iScience, PMID 38947518PXD045174 Dataset with its publication pending (from iProX) Dataset title: Dissection of Blood Ecosystem in SARS-CoV-2 Omicron Patients Possible reference: Wang, H. et al. (2023) Multi-omics blood atlas reveals unique features of immune and platelet responses to SARS-CoV-2 Omicron breakthrough infection., Immunity, PMID 37257450PXD045171 Dataset with its publication pending (from PRIDE) Dataset title: Identification of Plasma Biomarkers from Rheumatoid Arthritis Patients Using an Optimized SWATH Proteomics Workflow Possible reference: Jin, L. et al. (2023) Identification of Plasma Biomarkers from Rheumatoid Arthritis Patients Using an Optimized Sequential Window Acquisition of All THeoretical Mass Spectra (SWATH) Proteomics Workflow., Proteomes, PMID 37873874PXD045154 Dataset with its publication pending (from PRIDE) Dataset title: Interferon restores replication fork stability and cell viability in BRCA-defective cells via ISG15 Possible reference: Moro, RN. et al. (2023) Interferon restores replication fork stability and cell viability in BRCA-defective cells via ISG15., Nat Commun, PMID 37783689PXD045088 Dataset with its publication pending (from PRIDE) Dataset title: Impaired cAMP Processivity by Phosphodiesterase-Protein Kinase A complexes in Acrodysostosis Possible reference: Venkatakrishnan, V. et al. (2023) Impaired cAMP processivity by phosphodiesterase-protein kinase A complexes in acrodysostosis., Front Mol Biosci, PMID 37808519PXD045086 no publication (from MassIVE) Dataset title: Imidacloprid increases the prevalence of Lotmaria passim in honey bee workers Possible reference: Erban, T. et al. (2023) Imidacloprid increases the prevalence of the intestinal parasite Lotmaria passim in honey bee workers., Sci Total Environ, PMID 37699488PXD045052 Dataset with its publication pending (from PRIDE) Dataset title: Regulation of eDHFR-tagged proteins with trimethoprim PROTACs Possible reference: Etersque, JM. et al. (2023) Regulation of eDHFR-tagged proteins with trimethoprim PROTACs., Nat Commun, PMID 37923771PXD045042 Dataset with its publication pending (from PRIDE) Dataset title: Adipose triglyceride lipase is a therapeutic target in advanced prostate cancer that promotes metabolic plasticity Possible reference: Awad, D. et al. (2024) Adipose Triglyceride Lipase Is a Therapeutic Target in Advanced Prostate Cancer That Promotes Metabolic Plasticity., Cancer Res, PMID 38038968PXD045029 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis reveals activation of platelet- and fibrosis-related pathways in hearts of ApoE-/- mice exposed to diesel exhaust particles Possible reference: Jung, I. et al. (2023) Proteomic analysis reveals activation of platelet- and fibrosis-related pathways in hearts of ApoE-/- mice exposed to diesel exhaust particles., Sci Rep, PMID 38114606PXD045015 Dataset with its publication pending (from iProX) Dataset title: FBXO7 Ubiquitinates PRMT1 to Suppress Serine Synthesis and Tumor Growth in Hepatocellular Carcinoma Possible reference: Luo, L. et al. (2024) FBXO7 ubiquitinates PRMT1 to suppress serine synthesis and tumor growth in hepatocellular carcinoma., Nat Commun, PMID 38839752PXD045013 Dataset with its publication pending (from PRIDE) Dataset title: Cysteine-rich with EGF-like domains 2 (CRELD2) is an endoplasmic reticulum stress-inducible angiogenic growth factor promoting ischemic heart repair Possible reference: Wu, X. et al. (2024) Cysteine-rich with EGF-like domains 2 (CRELD2) is an endoplasmic reticulum stress-inducible angiogenic growth factor promoting ischemic heart repair., Nat Cardiovasc Res, PMID 39196188PXD045012 Dataset with its publication pending (from PRIDE) Dataset title: Automating data analysis for hydrogen/deuterium exchange mass spectrometry using data-independent acquisition methodology Possible reference: Burns, KM. et al. (2015) HX-MS2 for high performance conformational analysis of complex protein states., Protein Sci, PMID 26009873PXD044991 Dataset with its publication pending (from PRIDE) Dataset title: One-Tip enables comprehensive proteome coverage in minimal cells and single zygotes Possible reference: Ye, Z. et al. (2024) One-Tip enables comprehensive proteome coverage in minimal cells and single zygotes., Nat Commun, PMID 38503780PXD044989 Dataset with its publication pending (from iProX) Dataset title: The resistance mechanism of baohuoside I in Staphylococcus aureus Possible reference: Wen, Z. et al. (2024) Baohuoside I inhibits virulence of multidrug-resistant Staphylococcus aureus by targeting the transcription Staphylococcus accessory regulator factor SarZ., Phytomedicine, PMID 38810547PXD044980 Dataset with its publication pending (from PRIDE) Dataset title: Paternal under and over nutrition modify semen composition and preimplantation embryo developmental kinetics in mice Possible reference: Morgan, HL. et al. (2024) Paternal undernutrition and overnutrition modify semen composition and preimplantation embryo developmental kinetics in mice., BMC Biol, PMID 39278917PXD044979 no publication (from MassIVE) Dataset title: Speg Interactions that Regulate the Stability of Excitation-Contraction Coupling Protein Complexes in Triads and Dyads Possible reference: Lee, CS. et al. (2023) Speg interactions that regulate the stability of excitation-contraction coupling protein complexes in triads and dyads., Commun Biol, PMID 37709832PXD044970 Dataset with its publication pending (from PRIDE) Dataset title: An adaptive biomolecular condensation response is conserved across environmentally divergent species Possible reference: Kik, SK. et al. (2023) An adaptive biomolecular condensation response is conserved across environmentally divergent species., bioRxiv, PMID 37546789PXD044965 no publication (from MassIVE) Dataset title: ALK signalling primes the DNA damage response sensitizing ALK-driven neuroblastoma to therapeutic ATR inhibition Possible reference: Borens, M. et al. (2024) ALK signaling primes the DNA damage response sensitizing ALK-driven neuroblastoma to therapeutic ATR inhibition., Proc Natl Acad Sci U S A, PMID 38154064PXD044950 Dataset with its publication pending (from PRIDE) Dataset title: Structural basis for the toxicity of Legionella pneumophila effector SidH Possible reference: Sharma, R. et al. (2023) Structural basis for the toxicity of Legionella pneumophila effector SidH., Nat Commun, PMID 37923743PXD044946 Dataset with its publication pending (from iProX) Dataset title: The target landscape of clinical covalent drugs Possible reference: Zylberberg, C. et al. (2016) Pharmaceutical liposomal drug delivery: a review of new delivery systems and a look at the regulatory landscape., Drug Deliv, PMID 27145899PXD044925 Dataset with its publication pending (from PRIDE) Dataset title: Hydrogen Sulfide Coordinates Glucose Metabolism Switch through Destabilizing Tetrameric Pyruvate Kinase M2 Possible reference: Wang, RH. et al. (2024) Hydrogen sulfide coordinates glucose metabolism switch through destabilizing tetrameric pyruvate kinase M2., Nat Commun, PMID 39198443PXD044918 Dataset with its publication pending (from iProX) Dataset title: Immunoprecipitation-Mass Spectrometry in MDA-MB-231 cells Possible reference: Li, SS. et al. (2017) p62/SQSTM1 interacts with vimentin to enhance breast cancer metastasis., Carcinogenesis, PMID 28968743PXD044915 Dataset with its publication pending (from PRIDE) Dataset title: Ustilago maydis PR-1-like protein has evolved two distinct domains for dual virulence activities Possible reference: Lin, YH. et al. (2023) Ustilago maydis PR-1-like protein has evolved two distinct domains for dual virulence activities., Nat Commun, PMID 37716995PXD044911 Dataset with its publication pending (from PRIDE) Dataset title: pH-gated nanoparticles selectively regulate lysosomal function of tumour-associated macrophages for cancer immunotherapy Possible reference: Tang, M. et al. (2023) pH-gated nanoparticles selectively regulate lysosomal function of tumour-associated macrophages for cancer immunotherapy., Nat Commun, PMID 37735462PXD044898 Dataset with its publication pending (from PRIDE) Dataset title: DUSP8 dephosphorylates Pur-alpha Possible reference: Chuang, HC. et al. (2023) DUSP8 induces TGF-β-stimulated IL-9 transcription and Th9-mediated allergic inflammation by promoting nuclear export of Pur-α., J Clin Invest, PMID 37909329PXD044874 Dataset with its publication pending (from PRIDE) Dataset title: Integrated widely targeted metabolomics and network pharmacology revealed quality disparities between Guizhou and conventional producing areas of Codonopsis Radix Possible reference: Zhang, K. et al. (2023) Integrated widely targeted metabolomics and network pharmacology revealed quality disparities between Guizhou and conventional producing areas of Codonopsis Radix., Front Nutr, PMID 37915621PXD044866 Dataset with its publication pending (from PRIDE) Dataset title: FAM210A is essential for cold-induced mitochondrial remodeling in brown adipocytes Possible reference: Qiu, J. et al. (2023) FAM210A is essential for cold-induced mitochondrial remodeling in brown adipocytes., Nat Commun, PMID 37816711PXD044865 Cruz-Mireles N, Oss-Ruiz M, Derbyshire P, Jgousse C, Ryder LS, Bautista MJ, Eseola AB, Sklenar J, Tang B, Yan X, Ma W, Findlay KC, Were V, MacLean D, Talbot NJ, Menke FLH. The phosphorylation landscape of infection-related development by the rice blast (from PanoramaPublic) Dataset title: The phosphorylation landscape of infection-related development by the rice blast fungus Possible reference: Cruz-Mireles, N. et al. (2024) The phosphorylation landscape of infection-related development by the rice blast fungus., Cell, PMID 38729111PXD044856 Dataset with its publication pending (from PRIDE) Dataset title: Germline-specific RNA helicase DDX4 forms cytoplasmic granules in cancer cells and promotes tumor growth Possible reference: Olotu, O. et al. (2024) Germline-specific RNA helicase DDX4 forms cytoplasmic granules in cancer cells and promotes tumor growth., Cell Rep, PMID 38963760PXD044850 Dataset with its publication pending (from PRIDE) Dataset title: Transport properties of canonical PIN proteins and the role of the loop in auxin transport Possible reference: Janacek, DP. et al. (2024) Transport properties of canonical PIN-FORMED proteins from Arabidopsis and the role of the loop domain in auxin transport., Dev Cell, PMID 39413780PXD044830 Dataset with its publication pending (from PRIDE) Dataset title: The phosphorylation landscape of infection-related development by the rice blast fungus Possible reference: Cruz-Mireles, N. et al. (2024) The phosphorylation landscape of infection-related development by the rice blast fungus., Cell, PMID 38729111PXD044829 Dataset with its publication pending (from PRIDE) Dataset title: MARK2/MARK3 kinases are catalytic co-dependencies of YAP/TAZ in human cancer Possible reference: Klingbeil, O. et al. (2024) MARK2/MARK3 kinases are catalytic co-dependencies of YAP/TAZ in human cancer., Cancer Discov, PMID 39058094PXD044824 Dataset with its publication pending (from PRIDE) Dataset title: DUSP8 induces TGF-β-stimulated IL-9 transcription and Th9-mediated allergic inflammation by promoting nuclear export of Pur-α Possible reference: Chuang, HC. et al. (2023) DUSP8 induces TGF-β-stimulated IL-9 transcription and Th9-mediated allergic inflammation by promoting nuclear export of Pur-α., J Clin Invest, PMID 37909329PXD044823 Dataset with its publication pending (from iProX) Dataset title: Proteomic Analysis of Spry1-Amh-cre Conditional Knockout Mouse Testis Possible reference: Fukuda, E. et al. (2021) Identification and characterization of the antigen recognized by the germ cell mAb TRA98 using a human comprehensive wet protein array., Genes Cells, PMID 33527666PXD044818 Dataset with its publication pending (from PRIDE) Dataset title: DUSP8 induces TGF-β-stimulated IL-9 transcription and Th9-mediated allergic inflammation by promoting nuclear export of Pur-α Possible reference: Chuang, HC. et al. (2023) DUSP8 induces TGF-β-stimulated IL-9 transcription and Th9-mediated allergic inflammation by promoting nuclear export of Pur-α., J Clin Invest, PMID 37909329PXD044816 no publication (from MassIVE) Dataset title: PML::RARA and GATA2 proteins interact via DNA templates to induce aberrant self-renewal in hematopoietic cells Possible reference: Katerndahl, CDS. et al. (2024) PML::RARA and GATA2 proteins interact via DNA templates to induce aberrant self-renewal in mouse and human hematopoietic cells., Proc Natl Acad Sci U S A, PMID 38648485PXD044812 Dataset with its publication pending (from PRIDE) Dataset title: Regulators of mitonuclear balance link mitochondrial metabolism to mtDNA expression Possible reference: Kramer, NJ. et al. (2023) Regulators of mitonuclear balance link mitochondrial metabolism to mtDNA expression., Nat Cell Biol, PMID 37770567PXD044806 Dataset with its publication pending (from jPOST) Dataset title: HTRA1 prevents and reverses α-synuclein aggregation, rendering it non-toxic and seeding incompetent Possible reference: Chen, S. et al. (2023) HtrA1 prevents and reverses α-synuclein aggregation, rendering it non-toxic and seeding incompetent., Res Sq, PMID 37674720PXD044800 Dataset with its publication pending (from PRIDE) Dataset title: A stop-and-go mechanism controls mitochondrial respiration Possible reference: Moretti-Horten, DN. et al. (2024) Synchronized assembly of the oxidative phosphorylation system controls mitochondrial respiration in yeast., Dev Cell, PMID 38508182PXD044784 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive proteomic analysis of JC polyomavirus-infected human astrocytes and their extracellular vesicles Possible reference: Oberholster, L. et al. (2023) Comprehensive proteomic analysis of JC polyomavirus-infected human astrocytes and their extracellular vesicles., Microbiol Spectr, PMID 37815349PXD044782 Dataset with its publication pending (from PRIDE) Dataset title: DNA damage stress control is a tLT- and EHMT2-dependent central feature of Merkel Cell Carcinoma Possible reference: Bachiri, K. et al. (2024) DNA Damage Stress Control Is a Truncated Large T Antigen and Euchromatic Histone Lysine Methyltransferase 2-Dependent Central Feature of Merkel Cell Carcinoma., J Invest Dermatol, PMID 38908781PXD044780 Dataset with its publication pending (from PRIDE) Dataset title: A synthetic lethal strategy to target chromosome 8p deleted cancers Possible reference: Yan, X. et al. (2019) Inhibition of Thioredoxin/Thioredoxin Reductase Induces Synthetic Lethality in Lung Cancers with Compromised Glutathione Homeostasis., Cancer Res, PMID 30401714PXD044773 Dataset with its publication pending (from PRIDE) Dataset title: Cell-specific crosstalk proteomics reveals cathepsin B signaling as a driver of glioblastoma malignancy near the subventricular zone Possible reference: Norton, ES. et al. (2023) Cell-specific crosstalk proteomics reveals cathepsin B signaling as a driver of glioblastoma malignancy near the subventricular zone., bioRxiv, PMID 37662251PXD044749 Dataset with its publication pending (from PRIDE) Dataset title: A stop-and-go mechanism controls mitochondrial respiration Possible reference: Moretti-Horten, DN. et al. (2024) Synchronized assembly of the oxidative phosphorylation system controls mitochondrial respiration in yeast., Dev Cell, PMID 38508182PXD044737 Dataset with its publication pending (from jPOST) Dataset title: RNA pulldown label-free proteomics analysis Possible reference: Tenzer, S. et al. (2013) Proteome-wide characterization of the RNA-binding protein RALY-interactome using the in vivo-biotinylation-pulldown-quant (iBioPQ) approach., J Proteome Res, PMID 23614458PXD044724 Dataset with its publication pending (from PRIDE) Dataset title: STPP-UP: A alternative method for drug target identification using protein thermal stability Possible reference: Zijlmans, DW. et al. (2023) STPP-UP: An alternative method for drug target identification using protein thermal stability., J Biol Chem, PMID 37742922PXD044714 Dataset with its publication pending (from PRIDE) Dataset title: Spatial Proteomics of a Human Brain Tumour at 40 µm resolution Possible reference: Davis, S. et al. (2023) Deep topographic proteomics of a human brain tumour., Nat Commun, PMID 38001067PXD044710 Dataset with its publication pending (from iProX) Dataset title: Identification of CBX3 interacting proteins by mass spec Possible reference: Kulyyassov, A. et al. (2021) Application of Skyline for Analysis of Protein-Protein Interactions In Vivo., Molecules, PMID 34885753PXD044702 Dataset with its publication pending (from PRIDE) Dataset title: An adaptive biomolecular condensation response is conserved across environmentally divergent species Possible reference: Kik, SK. et al. (2023) An adaptive biomolecular condensation response is conserved across environmentally divergent species., bioRxiv, PMID 37546789PXD044698 Dataset with its publication pending (from PRIDE) Dataset title: Combined inhibition of MNK signaling and BET proteins reveals TGM2 as a novel vulnerability in melanoma Possible reference: Mant, A. et al. (2024) Combined Inhibition of MNK Signaling and BET Proteins Reveals TGM2 as a Novel Vulnerability in Melanoma., J Invest Dermatol, PMID 39357785PXD044684 Dataset with its publication pending (from PRIDE) Dataset title: MYL3 protects chondrocytes from senescence by inhibiting clathrin-mediated endocytosis and activating of Notch signaling Possible reference: Cao, H. et al. (2023) MYL3 protects chondrocytes from senescence by inhibiting clathrin-mediated endocytosis and activating of Notch signaling., Nat Commun, PMID 37794006PXD044682 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomic Landscape of Pseudorabies Virus Infection Reveals Multiple Potential Antiviral Targets Possible reference: Bo, Z. et al. (2024) Phosphoproteomic landscape of pseudorabies virus infection reveals multiple potential antiviral targets., Microbiol Spectr, PMID 37991362PXD044669 Dataset with its publication pending (from iProX) Dataset title: LC-MS/MS analysis of secreted proteins from CAFs or CAF cells transfected with miR-33a Possible reference: Melchionna, R. et al. (2020) The actin modulator hMENA regulates GAS6-AXL axis and pro-tumor cancer/stromal cell cooperation., EMBO Rep, PMID 32909687PXD044661 no publication (from MassIVE) Dataset title: CRL4-DCAF15 control of cohesin dynamics sustains 1 cell proliferation Possible reference: Grothusen, GP. et al. (2024) DCAF15 control of cohesin dynamics sustains acute myeloid leukemia., Nat Commun, PMID 38961054PXD044642 Dataset with its publication pending (from PRIDE) Dataset title: Development of pathophysiologically relevant models of sickle cell disease and β-thalassemia for therapeutic studies Possible reference: Gupta, P. et al. (2024) Development of pathophysiologically relevant models of sickle cell disease and β-thalassemia for therapeutic studies., Nat Commun, PMID 38413594PXD044614 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of Cowpea aphid Aphis craccivora saliva Possible reference: Pavithran, S. et al. (2024) Identification of salivary proteins of the cowpea aphid Aphis craccivora by transcriptome and LC-MS/MS analyses., Insect Biochem Mol Biol, PMID 38123026PXD044608 no publication (from MassIVE) Dataset title: Blood proteome profiling reveals biomarkers and pathway al-terations in fragile X PM at risk for developing fragile X Possible reference: Zafarullah, M. et al. (2023) Blood Proteome Profiling Reveals Biomarkers and Pathway Alterations in Fragile X PM at Risk for Developing FXTAS., Int J Mol Sci, PMID 37686279PXD044591 Dataset with its publication pending (from jPOST) Dataset title: The Alpha-1A Adrenergic Receptor Regulates Fatty Acid-Dependent Oxidative Phosphorylation in the Mouse Heart Possible reference: Sandroni, PB. et al. (2024) The alpha-1A adrenergic receptor regulates mitochondrial oxidative metabolism in the mouse heart., J Mol Cell Cardiol, PMID 38331556PXD044576 no publication (from MassIVE) Dataset title: EndoGenius: Optimized neuropeptide identification from mass spectrometry datasets Possible reference: Fields, L. et al. (2024) EndoGenius: Optimized Neuropeptide Identification from Mass Spectrometry Datasets., J Proteome Res, PMID 38426863PXD044569 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics reveals tissue-specific, infection-induced and species-specific neutrophil protein signatures – human blood neutrophils Possible reference: Sollberger, G. et al. (2024) Quantitative proteomics reveals tissue-specific, infection-induced and species-specific neutrophil protein signatures., Sci Rep, PMID 38472281PXD044550 Dataset with its publication pending (from PRIDE) Dataset title: Coordinated miRNA activity mediates the cellular transition into dormancy during embryonic diapause Possible reference: Iyer, DP. et al. (2024) Combinatorial microRNA activity is essential for the transition of pluripotent cells from proliferation into dormancy., Genome Res, PMID 38719471PXD044535 Dataset with its publication pending (from iProX) Dataset title: Proteomics of liver of Mus musculus infected by Clonorchis sinensis and the molecular mechanism of the interaction of Clonorchis sinensis with the liver of its host Possible reference: Wu, Y. et al. (2023) Multilayer omics reveals the molecular mechanism of early infection of Clonorchis sinensis juvenile., Parasit Vectors, PMID 37587524PXD044528 Dataset with its publication pending (from PRIDE) Dataset title: Rab30 regulates lipid homeostasis in the hepatocyte during fasting Possible reference: Régnier, M. et al. (2018) Insights into the role of hepatocyte PPARα activity in response to fasting., Mol Cell Endocrinol, PMID 28774777PXD044527 no publication (from MassIVE) Dataset title: Precision-engineered organoids of the human fallopian tube Possible reference: Crawford, AJ. et al. (2023) Precision-engineered biomimetics: the human fallopian tube., bioRxiv, PMID 37333379PXD044525 Dataset with its publication pending (from PRIDE) Dataset title: Eggs of the mosquito Aedes aegypti survive desiccation by rewiring their polyamine and lipid metabolism Possible reference: Prasad, A. et al. (2023) Eggs of the mosquito Aedes aegypti survive desiccation by rewiring their polyamine and lipid metabolism., PLoS Biol, PMID 37874799PXD044523 Dataset with its publication pending (from PRIDE) Dataset title: Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast Possible reference: Teyssonnire, E. et al. (2023) Species-wide quantitative transcriptomes and proteomes reveal distinct genetic control of gene expression variation in yeast., bioRxiv, PMID 37781592PXD044517 no publication (from MassIVE) Dataset title: Identification of LMAN1 and SURF4 dependent secretory cargoes Possible reference: Tang, VT. et al. (2023) Identification of LMAN1 and SURF4 dependent secretory cargoes., bioRxiv, PMID 37066360PXD044499 Dataset with its publication pending (from iProX) Dataset title: Irisin reduces Amyloid-β by inducing the release of neprilysin from astrocytes following downregulation of ERK-STAT3 signaling Possible reference: Kim, E. et al. (2023) Irisin reduces amyloid-β by inducing the release of neprilysin from astrocytes following downregulation of ERK-STAT3 signaling., Neuron, PMID 37689059PXD044498 Dataset with its publication pending (from jPOST) Dataset title: Integration of shoot-derived polypeptide signals by root TGA transcription factors is essential for survival under fluctuating nitrogen environments Possible reference: Kobayashi, R. et al. (2024) Integration of shoot-derived polypeptide signals by root TGA transcription factors is essential for survival under fluctuating nitrogen environments., Nat Commun, PMID 39179528PXD044470 Dataset with its publication pending (from PRIDE) Dataset title: The selfish yeast plasmid exploits a SWI/SNF-type chromatin remodeling complex for hitchhiking on chromosomes and ensuring high-fidelity propagation Possible reference: Ma, CH. et al. (2023) The selfish yeast plasmid exploits a SWI/SNF-type chromatin remodeling complex for hitchhiking on chromosomes and ensuring high-fidelity propagation., PLoS Genet, PMID 37812641PXD044456 no publication (from MassIVE) Dataset title: Tissue-specific proteome profile analysis reveals regulatory and stress responsive networks in passion fruit during storage Possible reference: Garcia, E. et al. (2024) Tissue-specific proteome profile analysis reveals regulatory and stress responsive networks in passion fruit during storage., Sci Rep, PMID 38346991PXD044412 Dataset with its publication pending (from PRIDE) Dataset title: Metabolite interactions in the bacterial Calvin cycle and implications for flux regulation Possible reference: Sporre, E. et al. (2023) Metabolite interactions in the bacterial Calvin cycle and implications for flux regulation., Commun Biol, PMID 37723200PXD044410 Dataset with its publication pending (from PRIDE) Dataset title: UBE2D3 facilitates NHEJ by orchestrating ATM signalling through multi-level control of RNF168 Possible reference: Yalin, Z. et al. (2024) UBE2D3 facilitates NHEJ by orchestrating ATM signalling through multi-level control of RNF168., Nat Commun, PMID 38866770PXD044409 Dataset with its publication pending (from PRIDE) Dataset title: In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation Possible reference: Llamas, E. et al. (2023) In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation., Nat Aging, PMID 37783816PXD044408 Dataset with its publication pending (from PRIDE) Dataset title: In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation. Possible reference: Llamas, E. et al. (2023) In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation., Nat Aging, PMID 37783816PXD044395 Dataset with its publication pending (from PRIDE) Dataset title: BV-2 cells treated with different nanoparticles Possible reference: Gorojod, RM. et al. (2019) Nanohydroxyapatite Exerts Cytotoxic Effects and Prevents Cellular Proliferation and Migration in Glioma Cells., Toxicol Sci, PMID 30649537PXD044382 Dataset with its publication pending (from PRIDE) Dataset title: Non-canonical function of histone methyltransferase G9a in the translational regulation of chronic inflammation Possible reference: Muneer, A. et al. (2023) Non-canonical function of histone methyltransferase G9a in the translational regulation of chronic inflammation., Cell Chem Biol, PMID 37858336PXD044372 Dataset with its publication pending (from iProX) Dataset title: Proteomics coupled transcriptomics reveals Slc34a1 and Slc34a3 downregulation as potential features of nephrotoxin-induced acute kidney injury Possible reference: Zhang, J. et al. (2024) Proteomics coupled transcriptomics reveals Slc34a1 and Slc34a3 downregulation as potential features of nephrotoxin-induced acute kidney injury., J Proteomics, PMID 38782357PXD044360 Dataset with its publication pending (from PRIDE) Dataset title: AMPK activator 991 specifically activates SnRK1 and thereby affects seed germination in rice Possible reference: Hu, Y. et al. (2024) AMPK activator 991 specifically activates SnRK1 and thereby affects seed germination in rice., J Exp Bot, PMID 38465908PXD044343 Dataset with its publication pending (from PRIDE) Dataset title: Proteome analysis in the TcMAC21 mouse model of Down syndrome Possible reference: Kurabayashi, N. et al. (2023) Neocortical neuronal production and maturation defects in the TcMAC21 mouse model of Down syndrome., iScience, PMID 38025769PXD044337 Dataset with its publication pending (from PRIDE) Dataset title: Inducible degradation-coupled phosphoproteomics identifies PP2A-Rts1 as a novel eisosome regulator Possible reference: DeMarco, AG. et al. (2023) Inducible degradation-coupled phosphoproteomics identifies PP2ARts1 as a novel eisosome regulator., bioRxiv, PMID 37961087PXD044313 no publication (from MassIVE) Dataset title: Quantitative proteomic profiling of HCC1954 cells treated with a CDK12 degrader Possible reference: Kuchukulla, RR. et al. (2024) Identification of a novel potent CDK inhibitor degrading cyclinK with a superb activity to reverse trastuzumab-resistance in HER2-positive breast cancer in vivo., Eur J Med Chem, PMID 38061230PXD044293 Dataset with its publication pending (from PRIDE) Dataset title: In vitro and In vivo Antimicrobial Potential of Lithium Complex against Multi Drug Resistant Acinetobacter baumannii Possible reference: Zehra, M. et al. (2023) In vitro and in vivo antimicrobial potential of lithium complex against multi-drug resistant Acinetobacter baumannii., Microbiol Spectr, PMID 37861330PXD044290 Dataset with its publication pending (from jPOST) Dataset title: LplA modified trastuzumab digested with multiple enzymes Possible reference: Shikida, N. et al. (2023) Analytical studies on the conjugation site specificity of trastuzumab modified by Escherichia coli lipoate ligase A: multiple-enzyme digestion approach for peptide mapping., Anal Bioanal Chem, PMID 37702772PXD044287 Dataset with its publication pending (from PRIDE) Dataset title: Targeting IRE1α reprograms the tumor microenvironment and enhances anti-tumor immunity in prostate cancer Possible reference: Unal, B. et al. (2024) Targeting IRE1α reprograms the tumor microenvironment and enhances anti-tumor immunity in prostate cancer., Nat Commun, PMID 39406723PXD044275 Dataset with its publication pending (from PRIDE) Dataset title: Protein interaction map of APOBEC3 enzyme family Possible reference: Duan, S. et al. (2020) A novel HIV-1 inhibitor that blocks viral replication and rescues APOBEC3s by interrupting vif/CBFβ interaction., J Biol Chem, PMID 32817167PXD044264 Dataset with its publication pending (from PRIDE) Dataset title: Interpreting biologically informed neural networks for enhanced proteomic biomarker discovery and pathway analysis Possible reference: Srivastava, AK. et al. (2016) Human genome meeting 2016 : Houston, TX, USA. 28 February - 2 March 2016., Hum Genomics, PMID 27294413PXD044263 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic identification of Rab GTPase interactors in Arabidopsis Possible reference: Persyn, F. et al. (2024) A Nitrogen-specific Interactome Analysis Sheds Light on the Role of the SnRK1 and TOR Kinases in Plant Nitrogen Signaling., Mol Cell Proteomics, PMID 39307424PXD044258 Dataset with its publication pending (from PRIDE) Dataset title: Catalytic and non-catalytic functions of DNA polymerase kappa in translesion DNA synthesis Possible reference: Kanemaru, Y. et al. (2015) Catalytic and non-catalytic roles of DNA polymerase κ in the protection of human cells against genotoxic stresses., Environ Mol Mutagen, PMID 26031400PXD044239 Dataset with its publication pending (from PRIDE) Dataset title: Parallel proteomics and phosphoproteomics defines starvation signal specific processes in cell quiescence Possible reference: Sun, S. et al. (2023) Parallel proteomics and phosphoproteomics defines starvation signal specific processes in cell quiescence., bioRxiv, PMID 37577636PXD044211 Dataset with its publication pending (from iProX) Dataset title: DARTS proteomic response of S. aureus to Baohuoside I Possible reference: Wen, Z. et al. (2024) Baohuoside I inhibits virulence of multidrug-resistant Staphylococcus aureus by targeting the transcription Staphylococcus accessory regulator factor SarZ., Phytomedicine, PMID 38810547PXD044207 Dataset with its publication pending (from iProX) Dataset title: Proteomic response of S. aureus with baohuoside I Possible reference: Wen, Z. et al. (2024) Baohuoside I inhibits virulence of multidrug-resistant Staphylococcus aureus by targeting the transcription Staphylococcus accessory regulator factor SarZ., Phytomedicine, PMID 38810547PXD044190 Dataset with its publication pending (from PRIDE) Dataset title: A phylogenetic approach to explore the Aspergillus fumigatus conidial surfome and its role in pathogenesis Possible reference: Goldman, G. et al. (2023) A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis., Res Sq, PMID 37790311PXD044180 Dataset with its publication pending (from PRIDE) Dataset title: FAM111A regulates replication origin activation and cell fitness Possible reference: Rios-Szwed, DO. et al. (2023) FAM111A regulates replication origin activation and cell fitness., Life Sci Alliance, PMID 37793778PXD044176 Dataset with its publication pending (from PRIDE) Dataset title: 1 Enhanced assembly of bacteriophage T7 produced in cell-free reactions under simulated microgravity Possible reference: Lehr, FX. et al. (2024) Enhanced assembly of bacteriophage T7 produced in cell-free reactions under simulated microgravity., NPJ Microgravity, PMID 38491014PXD044167 Dataset with its publication pending (from jPOST) Dataset title: The state transition acetyltransferase GNAT2 interacts with GNAT1 and GNAT3 in independent complexes Possible reference: Brnje, A. et al. (2024) The plastidial protein acetyltransferase GNAT1 forms a complex with GNAT2, yet their interaction is dispensable for state transitions., Mol Cell Proteomics, PMID 39349166PXD044163 Dataset with its publication pending (from iProX) Dataset title: GlycoTCFM: glycoproteomics based on two complementary fragmentation methods reveals distinctive O-glycosylation in human semen Possible reference: Luo, M. et al. (2023) GlycoTCFM: Glycoproteomics Based on Two Complementary Fragmentation Methods Reveals Distinctive O-Glycosylation in Human Sperm and Seminal Plasma., J Proteome Res, PMID 37943980PXD044159 Dataset with its publication pending (from PRIDE) Dataset title: CD98hc is a target for brain delivery of biotherapeutics Possible reference: Chew, KS. et al. (2023) CD98hc is a target for brain delivery of biotherapeutics., Nat Commun, PMID 37598178PXD044157 Dataset with its publication pending (from PRIDE) Dataset title: ProteoMixture: A Cell Deconvolution Tool for Bulk Tissue Proteomics Data Possible reference: Teng, PN. et al. (2024) ProteoMixture: A cell type deconvolution tool for bulk tissue proteomic data., iScience, PMID 38439970PXD044145 Dataset with its publication pending (from PRIDE) Dataset title: In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation. Possible reference: Llamas, E. et al. (2023) In planta expression of human polyQ-expanded huntingtin fragment reveals mechanisms to prevent disease-related protein aggregation., Nat Aging, PMID 37783816PXD044144 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive proteomic analysis of JC polyomavirus-infected human astrocytes and their extracellular vesicles Possible reference: Oberholster, L. et al. (2023) Comprehensive proteomic analysis of JC polyomavirus-infected human astrocytes and their extracellular vesicles., Microbiol Spectr, PMID 37815349PXD044142 Dataset with its publication pending (from PanoramaPublic) Dataset title: Regulation of adaptive growth decisions via phosphorylation of the TRAPPII complex in Arabidopsis. Possible reference: Wiese, C. et al. (2023) Regulation of adaptive growth decisions via phosphorylation of the TRAPPII complex in Arabidopsis., bioRxiv, PMID 37986925PXD044141 no publication (from MassIVE) Dataset title: Cancer-associated Histone H3 N-terminal arginine mutations disrupt PRC2 activity and impair differentiation Possible reference: Nacev, BA. et al. (2024) Cancer-associated Histone H3 N-terminal arginine mutations disrupt PRC2 activity and impair differentiation., Nat Commun, PMID 38886411PXD044136 Dataset with its publication pending (from PRIDE) Dataset title: Pteromalus puparum larval saliva Possible reference: Shi, J. et al. (2022) The larval saliva of an endoparasitic wasp, Pteromalus puparum, suppresses host immunity., J Insect Physiol, PMID 35878702PXD044113 no publication (from MassIVE) Dataset title: The maintenance of oocytes in the mammalian ovary involves extreme protein longevity Possible reference: Harasimov, K. et al. (2024) The maintenance of oocytes in the mammalian ovary involves extreme protein longevity., Nat Cell Biol, PMID 38902423PXD044112 no publication (from MassIVE) Dataset title: Stabilizing the Proteomes of Acute Myeloid Leukemia Cells: Implications for Cancer Proteomics Possible reference: Inoue, D. et al. (2018) A novel ASXL1-OGT axis plays roles in H3K4 methylation and tumor suppression in myeloid malignancies., Leukemia, PMID 29556021PXD044094 Dataset with its publication pending (from iProX) Dataset title: An axonemal intron splicing program sustains Plasmodium male development Possible reference: Guan, J. et al. (2024) An axonemal intron splicing program sustains Plasmodium male development., Nat Commun, PMID 38824128PXD044086 Dataset with its publication pending (from PRIDE) Dataset title: Human lung cancer TMT-labeling LC-MS Possible reference: Dai, T. et al. (2023) In-depth proteomics reveals the characteristic developmental profiles of early lung adenocarcinoma with epidermal growth factor receptor mutation., Cancer Med, PMID 37004157PXD044071 Dataset with its publication pending (from PRIDE) Dataset title: The divergent ER-mitochondria encounter structures (ERMES) are conserved in parabasalids but lost in several anaerobic lineages with hydrogenosomes. Possible reference: Kučerová, J. et al. (2023) The divergent ER-mitochondria encounter structures (ERMES) are conserved in parabasalids but lost in several anaerobic lineages with hydrogenosomes., BMC Biol, PMID 37968591PXD044065 Dataset with its publication pending (from PRIDE) Dataset title: proteome analysis of Nilaparvata lugens cuticle Possible reference: Pan, PL. et al. (2018) A comprehensive omics analysis and functional survey of cuticular proteins in the brown planthopper., Proc Natl Acad Sci U S A, PMID 29712872PXD044062 Dataset with its publication pending (from PRIDE) Dataset title: Comparative analysis of the proteome of Th2 lymphocytes from WT or ASB2 KO mice Possible reference: Ferret-Bernard, S. et al. (2012) Plasma membrane proteomes of differentially matured dendritic cells identified by LC-MS/MS combined with iTRAQ labelling., J Proteomics, PMID 22040742PXD044012 Dataset with its publication pending (from iProX) Dataset title: The Protein omics data of Streptomyces Possible reference: Busche, T. et al. (2018) Multi-Omics and Targeted Approaches to Determine the Role of Cellular Proteases in Streptomyces Protein Secretion., Front Microbiol, PMID 29915569PXD044005 Dataset with its publication pending (from PRIDE) Dataset title: Self-anticoagulant sponges for whole blood auto-transfusion and its mechanism of coagulation factor inactivation Possible reference: Xu, T. et al. (2023) Self-anticoagulant sponge for whole blood auto-transfusion and its mechanism of coagulation factor inactivation., Nat Commun, PMID 37573353PXD044004 Dataset with its publication pending (from PRIDE) Dataset title: Skeletal muscle cell protein dysregulation highlights the pathogenesis mechanism of myopathy-associated p97/VCP R155H mutations Possible reference: Luzzi, A. et al. (2023) Skeletal muscle cell protein dysregulation highlights the pathogenesis mechanism of myopathy-associated p97/VCP R155H mutations., Front Neurol, PMID 37602234PXD044001 Dataset with its publication pending (from PRIDE) Dataset title: A clinically applicable connectivity signature for glioblastoma includes the tumor network driver CHI3L1 Possible reference: Hai, L. et al. (2024) A clinically applicable connectivity signature for glioblastoma includes the tumor network driver CHI3L1., Nat Commun, PMID 38320988PXD043952 Dataset with its publication pending (from PRIDE) Dataset title: Iron Drives Anabolic Metabolism Through Active Histone Demethylation and mTORC1 Possible reference: Shapiro, JS. et al. (2023) Iron drives anabolic metabolism through active histone demethylation and mTORC1., Nat Cell Biol, PMID 37749225PXD043946 Dataset with its publication pending (from PRIDE) Dataset title: Inceptor facilitates acrosomal vesicle formation in spermatids and is required for male fertility Possible reference: Bilekova, S. et al. (2023) Inceptor facilitates acrosomal vesicle formation in spermatids and is required for male fertility., Front Cell Dev Biol, PMID 37691832PXD043931 Dataset with its publication pending (from iProX) Dataset title: Methylation of KRAS by SETD7 promotes KRAS degradation in non-small cell lung cancer Possible reference: Chiang, CY. et al. (2023) Methylation of KRAS by SETD7 promotes KRAS degradation in non-small cell lung cancer., Cell Rep, PMID 37682707PXD043889 Dataset with its publication pending (from iProX) Dataset title: LncRNA DGCR5-encoded polypeptide RIP aggravates steroid-induced osteonecrosis of the femoral head by repressing nuclear localization of β-catenin in BMSCs Possible reference: Jiang, W. et al. (2023) LncRNA DGCR5-encoded polypeptide RIP aggravates SONFH by repressing nuclear localization of β-catenin in BMSCs., Cell Rep, PMID 37573506PXD043879 Dataset with its publication pending (from PRIDE) Dataset title: Multi-omic stratification of the missense variant cysteinome Possible reference: Desai, H. et al. (2023) Multi-omic stratification of the missense variant cysteinome., bioRxiv, PMID 37645963PXD043878 Dataset with its publication pending (from PRIDE) Dataset title: Utilization of Stability-based Proteomics for the Investigation of Structured RNA-protein Interactions Possible reference: Bailey, MA. et al. (2024) Stability-Based Proteomics for Investigation of Structured RNA-Protein Interactions., Anal Chem, PMID 38341805PXD043844 no publication (from MassIVE) Dataset title: Fragment ion intensity prediction improves the identification rate of non-tryptic peptides in TimsTOF Possible reference: Adams, C. et al. (2024) Fragment ion intensity prediction improves the identification rate of non-tryptic peptides in timsTOF., Nat Commun, PMID 38730277PXD043837 Dataset with its publication pending (from PRIDE) Dataset title: The self-association equilibrium of DNAJA2 regulates its interaction with unfolded substrate proteins and with Hsc70 Possible reference: Velasco-Carneros, L. et al. (2023) The self-association equilibrium of DNAJA2 regulates its interaction with unfolded substrate proteins and with Hsc70., Nat Commun, PMID 37670029PXD043836 Dataset with its publication pending (from PRIDE) Dataset title: Species-specific metabolic reprogramming in human and mouse microglia during inflammatory pathway induction Possible reference: Sabogal-Guqueta, AM. et al. (2023) Species-specific metabolic reprogramming in human and mouse microglia during inflammatory pathway induction., Nat Commun, PMID 37833292PXD043821 Dataset with its publication pending (from iProX) Dataset title: Proteomic study of colon cancer infected with HIV Possible reference: Hensley-McBain, T. et al. (2018) Intestinal damage precedes mucosal immune dysfunction in SIV infection., Mucosal Immunol, PMID 29907866PXD043818 Dataset with its publication pending (from PRIDE) Dataset title: Defining neutralization and allostery by antibodies against COVID-19 variants Possible reference: Tulsian, NK. et al. (2023) Defining neutralization and allostery by antibodies against COVID-19 variants., Nat Commun, PMID 37907459PXD043808 Dataset with its publication pending (from PRIDE) Dataset title: The transcription factor AP2XI-2 is a key negative regulator of Toxoplasma gondii merogony Possible reference: Wang, JL. et al. (2024) The transcription factor AP2XI-2 is a key negative regulator of Toxoplasma gondii merogony., Nat Commun, PMID 38278808PXD043799 Dataset with its publication pending (from PRIDE) Dataset title: Targeted mass spectrometry analyses of somatic mutations in colorectal cancer specimens using differential ion mobility Possible reference: Wu, Z. et al. (2024) Targeted Mass Spectrometry Analyses of Somatic Mutations in Colorectal Cancer Specimens Using Differential Ion Mobility., J Proteome Res, PMID 38153093PXD043793 no publication (from MassIVE) Dataset title: Outer membrane vesicles and the outer membrane protein OmpU govern Vibrio cholerae biofilm matrix assembly Possible reference: Potapova, A. et al. (2024) Outer membrane vesicles and the outer membrane protein OmpU govern Vibrio cholerae biofilm matrix assembly., mBio, PMID 38206049PXD043762 no publication (from MassIVE) Dataset title: A thylakoid biogenesis BtpA protein is required for the initial step of tetrapyrrole biosynthesis in cyanobacteria Possible reference: Skotnicov, P. et al. (2024) A thylakoid biogenesis BtpA protein is required for the initial step of tetrapyrrole biosynthesis in cyanobacteria., New Phytol, PMID 37986097PXD043759 Dataset with its publication pending (from PRIDE) Dataset title: A 3D printed plastic frame deeply impacts yeast cell growth Possible reference: Molina-Menor, E. et al. (2023) A 3D printed plastic frame deeply impacts yeast cell growth., Front Bioeng Biotechnol, PMID 37771573PXD043752 Dataset with its publication pending (from PRIDE) Dataset title: Nucleolar stress caused by arginine-rich peptides triggers a ribosomopathy and accelerates ageing in mice Possible reference: Sirozh, O. et al. (2024) Nucleolar stress caused by arginine-rich peptides triggers a ribosomopathy and accelerates aging in mice., Mol Cell, PMID 38521064PXD043741 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of larval secreted proteins for Leptopilina boulardi and Leptopilina heterotoma Possible reference: Heavner, ME. et al. (2017) Novel Organelles with Elements of Bacterial and Eukaryotic Secretion Systems Weaponize Parasites of Drosophila., Curr Biol, PMID 28889977PXD043731 Dataset with its publication pending (from PRIDE) Dataset title: TDP-43 forms amyloid filaments with a distinct fold in type A FTLD-TDP Possible reference: Arseni, D. et al. (2023) TDP-43 forms amyloid filaments with a distinct fold in type A FTLD-TDP., Nature, PMID 37532939PXD043725 no publication (from MassIVE) Dataset title: Distinct states of nucleolar stress induced by anti-cancer drugs Possible reference: Potapova, TA. et al. (2023) Distinct states of nucleolar stress induced by anticancer drugs., Elife, PMID 38099650PXD043714 no publication (from MassIVE) Dataset title: A high-sensitivity low-nanoflow LC-MS configuration for high-throughput sample-limited proteomics Possible reference: Zheng, R. et al. (2023) A High-Sensitivity Low-Nanoflow LC-MS Configuration for High-Throughput Sample-Limited Proteomics., Anal Chem, PMID 38088903PXD043691 Dataset with its publication pending (from PRIDE) Dataset title: Clinical and molecular delineation of classical-like Ehlers–Danlos syndrome through a comprehensive next-generation sequencing-based screening system Possible reference: Yamaguchi, T. et al. (2023) Clinical and molecular delineation of classical-like Ehlers-Danlos syndrome through a comprehensive next-generation sequencing-based screening system., Front Genet, PMID 37712068PXD043671 Dataset with its publication pending (from PRIDE) Dataset title: Native Prohibitin Complex Enrichment Possible reference: Van Strien, J. et al. (2019) COmplexome Profiling ALignment (COPAL) reveals remodeling of mitochondrial protein complexes in Barth syndrome., Bioinformatics, PMID 30649188PXD043656 Dataset with its publication pending (from jPOST) Dataset title: Salivary Metabolomic Identification of Biomarker Candidates for Canine Oral Cancers Using Chemical Isotope Labeling Liquid Chromatography Mass Spectrometry Possible reference: Ploypetch, S. et al. (2024) Salivary metabolomic identification of biomarker candidates for oral melanoma and oral squamous cell carcinoma in dogs., J Vet Intern Med, PMID 38703129PXD043645 Dataset with its publication pending (from PRIDE) Dataset title: PRPF8-mediated dysregulation of hBrr2 helicase disrupts human spliceosome kinetics and 5-splice-site selection causing tissue-specific defects Possible reference: Atkinson, R. et al. (2024) PRPF8-mediated dysregulation of hBrr2 helicase disrupts human spliceosome kinetics and 5-splice-site selection causing tissue-specific defects., Nat Commun, PMID 38605034PXD043639 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial RelA empowers mtDNA G-quadruplex formation for hypoxia adaptation in cancer cells Possible reference: Tang, GX. et al. (2024) Mitochondrial RelA empowers mtDNA G-quadruplex formation for hypoxia adaptation in cancer cells., Cell Chem Biol, PMID 38821064PXD043619 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative Multi-Omics Atlas of the Model Chordate Ciona Possible reference: Frese, AN. et al. (2024) Quantitative proteome dynamics across embryogenesis in a model chordate., iScience, PMID 38510129PXD043608 Dataset with its publication pending (from PRIDE) Dataset title: Therapeutic potential of pomegranate juice-derived nanovesicles in nude mouse benign prostatic hyperplasia (BPH) xenograft model Possible reference: Sreekumar, A. et al. (2023) Therapeutic potential of pomegranate juice-derived nanovesicles in nude mouse benign prostatic hyperplasia (BPH) xenograft model., Sci Rep, PMID 37528206PXD043607 Dataset with its publication pending (from PRIDE) Dataset title: Supersulphide airway protection in viral and chronic lung diseases Possible reference: Matsunaga, T. et al. (2023) Supersulphides provide airway protection in viral and chronic lung diseases., Nat Commun, PMID 37491435PXD043601 Dataset with its publication pending (from PRIDE) Dataset title: Prdm16 mutation determines sex-specific cardiac metabolism and identifies two novel cardiac metabolic regulators Possible reference: Khnisch, J. et al. (2024) Prdm16 mutation determines sex-specific cardiac metabolism and identifies two novel cardiac metabolic regulators., Cardiovasc Res, PMID 37842925PXD043600 Dataset with its publication pending (from PRIDE) Dataset title: HYPK controls stability and catalytic activity of the N-terminal acetyltransferase A in Arabidopsis thaliana Possible reference: Gong, X. et al. (2024) HYPK controls stability and catalytic activity of the N-terminal acetyltransferase A in Arabidopsis thaliana., Cell Rep, PMID 38363676PXD043576 Dataset with its publication pending (from iProX) Dataset title: The phosphorylation of the MFSD12 Possible reference: He, L. et al. (2023) Lysosomal cyst(e)ine storage potentiates tolerance to oxidative stress in cancer cells., Mol Cell, PMID 37751742PXD043574 Dataset with its publication pending (from jPOST) Dataset title: Multi-omics analysis using antibody-based in situ biotinylation technique reveals the mechanism of Cajal body formation Possible reference: Noguchi, K. et al. (2024) Multi-omics analysis using antibody-based in situ biotinylation technique suggests the mechanism of Cajal body formation., Cell Rep, PMID 39283744PXD043560 Dataset with its publication pending (from PRIDE) Dataset title: A RIPK1-specific PROTAC degrader achieves potent antitumor activity by enhancing immunogenic cell death Possible reference: Mannion, J. et al. (2024) A RIPK1-specific PROTAC degrader achieves potent antitumor activity by enhancing immunogenic cell death., Immunity, PMID 38788712PXD043554 Dataset with its publication pending (from jPOST) Dataset title: Deciphering cellular processes responding to lethality of 17β-estradiol by quantitative phosphoproteomics Possible reference: Li, Y. et al. (2024) [Deciphering cellular processes responding to lethality of 17β-estradiol by quantitative phosphoproteomics]., Se Pu, PMID 38566422PXD043545 Dataset with its publication pending (from PRIDE) Dataset title: MULTIMODAL STIMULATION SCREENS REVEAL UNIQUE AND SHARED GENES LIMITING T-CELL FITNESS Possible reference: Lin, CP. et al. (2024) Multimodal stimulation screens reveal unique and shared genes limiting Tcell fitness., Cancer Cell, PMID 38490212PXD043539 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteome analysis of TgPP1 depleted Toxoplasma gondii tachyzoites Possible reference: Khelifa, AS. et al. (2024) PP1 phosphatase controls both daughter cell formation and amylopectin levels in Toxoplasma gondii., PLoS Biol, PMID 39255306PXD043533 Dataset with its publication pending (from PRIDE) Dataset title: Human and animal skin identified by palaeoproteomics in Scythian leather objects from Ukraine Possible reference: Brandt, L. et al. (2023) Human and animal skin identified by palaeoproteomics in Scythian leather objects from Ukraine., PLoS One, PMID 38091270PXD043532 Dataset with its publication pending (from PRIDE) Dataset title: A hierarchical assembly pathway directs the unique subunit arrangement of TRiC/CCT Possible reference: Betancourt Moreira, K. et al. (2023) A hierarchical assembly pathway directs the unique subunit arrangement of TRiC/CCT., Mol Cell, PMID 37625406PXD043517 Dataset with its publication pending (from iProX) Dataset title: Tissue proteome data of mouse PDX model Possible reference: Gunawardena, HP. et al. (2016) QuantFusion: Novel Unified Methodology for Enhanced Coverage and Precision in Quantifying Global Proteomic Changes in Whole Tissues., Mol Cell Proteomics, PMID 26598639PXD043513 Dataset with its publication pending (from PRIDE) Dataset title: Disrupted propionate metabolism evokes transcriptional changes in the heart by increasing histone acetylation and propionylation Possible reference: Park, KC. et al. (2023) Disrupted propionate metabolism evokes transcriptional changes in the heart by increasing histone acetylation and propionylation., Nat Cardiovasc Res, PMID 38500966PXD043485 Dataset with its publication pending (from jPOST) Dataset title: Spatially resolved profiling of protein conformation and interactions by biocompatible chemical cross-linking in living cells Possible reference: Zhao, L. et al. (2024) Spatially resolved profiling of protein conformation and interactions by biocompatible chemical cross-linking in living cells., Nat Commun, PMID 39333085PXD043482 Dataset with its publication pending (from PRIDE) Dataset title: A widespread family of oxidoreductive sulfoquinovosidases at the gateway to sulfoquinovose catabolism Possible reference: Kaur, A. et al. (2023) Widespread Family of NAD+-Dependent Sulfoquinovosidases at the Gateway to Sulfoquinovose Catabolism., J Am Chem Soc, PMID 38100472PXD043469 Dataset with its publication pending (from iProX) Dataset title: Proteomics analysis of CD4+ T-cell-derived-exosomes Possible reference: Huang, L. et al. (2023) Proteomics profiling of CD4+T-cell-derived exosomes from patients with rheumatoid arthritis., Int Immunopharmacol, PMID 37423153PXD043448 Dataset with its publication pending (from PRIDE) Dataset title: Reward System Activation Improves Recovery from Acute Myocardial Infarction". Possible reference: Haykin, H. et al. (2024) Reward system activation improves recovery from acute myocardial infarction., Nat Cardiovasc Res, PMID 39196183PXD043444 Dataset with its publication pending (from PRIDE) Dataset title: Therapeutic targeting nudix hydrolase 1 creates a MYC-driven metabolic vulnerability Possible reference: Ye, M. et al. (2024) Therapeutic targeting nudix hydrolase 1 creates a MYC-driven metabolic vulnerability., Nat Commun, PMID 38493213PXD043441 no publication (from MassIVE) Dataset title: Nix Interacts with WIPI2 to Induce Mitophagy Possible reference: Bunker, EN. et al. (2023) Nix interacts with WIPI2 to induce mitophagy., EMBO J, PMID 37621214PXD043418 Dataset with its publication pending (from jPOST) Dataset title: The proteome dataset for extracellular vesicles in human cerebrospinal fluid Possible reference: Chiasserini, D. et al. (2014) Proteomic analysis of cerebrospinal fluid extracellular vesicles: a comprehensive dataset., J Proteomics, PMID 24769233PXD043411 Dataset with its publication pending (from iProX) Dataset title: proteomics of Hirsutella satumaensis Possible reference: Qu, J. et al. (2024) Transcriptome and proteome analyses reveal genes and signaling pathways involved in the response to two insect hormones in the insect-fungal pathogen Hirsutella satumaensis., mSystems, PMID 38984826PXD043408 no publication (from MassIVE) Dataset title: Amyloid fibril proteomics of AD brains reveals modifiers of aggregation and toxicity Possible reference: Konstantoulea, K. et al. (2022) Heterotypic Amyloid β interactions facilitate amyloid assembly and modify amyloid structure., EMBO J, PMID 34842295PXD043405 no publication (from MassIVE) Dataset title: Towards the definition of the molecular hallmarks of Idiopathic Membranous Nephropathy in serum proteome: a DIA-PASEF approach Possible reference: Previtali, P. et al. (2023) Towards the Definition of the Molecular Hallmarks of Idiopathic Membranous Nephropathy in Serum Proteome: A DIA-PASEF Approach., Int J Mol Sci, PMID 37511514PXD043389 Dataset with its publication pending (from PRIDE) Dataset title: A multi-omics dataset of human transcriptome and proteome stable reference Possible reference: Lu, S. et al. (2023) A multi-omics dataset of human transcriptome and proteome stable reference., Sci Data, PMID 37443183PXD043380 Dataset with its publication pending (from iProX) Dataset title: Deep metaproteomics of inflammatory bowel diseases Possible reference: Zhang, X. et al. (2017) Deep Metaproteomics Approach for the Study of Human Microbiomes., Anal Chem, PMID 28749657PXD043370 Dataset with its publication pending (from PRIDE) Dataset title: Phos: a scalable and sensitive platform for functional phosphoproteomics Possible reference: Oliinyk, D. et al. (2024) Phos: a scalable and sensitive platform for high-dimensional phosphoproteomics., Mol Syst Biol, PMID 38907068PXD043368 Dataset with its publication pending (from jPOST) Dataset title: Involvement of the AKT pathway in resistance to erlotinib and cabozantinib in triple negative breast cancer cell lines. Possible reference: Lefebvre, C. et al. (2023) Involvement of the AKT Pathway in Resistance to Erlotinib and Cabozantinib in Triple-Negative Breast Cancer Cell Lines., Biomedicines, PMID 37760847PXD043367 Dataset with its publication pending (from PRIDE) Dataset title: The chromatin associated lncREST interacts with the replication fork to ensure effective replication stress response Possible reference: Statello, L. et al. (2024) The chromatin-associated lncREST ensures effective replication stress response by promoting the assembly of fork signaling factors., Nat Commun, PMID 38302450PXD043359 Dataset with its publication pending (from PRIDE) Dataset title: Bergenin inhibits growth of human cervical cancer cells by decreasing Galectin-3 and MMP-9 expression Possible reference: Chauhan, R. et al. (2024) Bergenin inhibits growth of human cervical cancer cells by decreasing Galectin-3 and MMP-9 expression., Sci Rep, PMID 38961106PXD043337 no publication (from MassIVE) Dataset title: Proteomic profile of extracellular vesicles from plasma and CSF of multiple sclerosis patients reveals disease activity-associated EAAT2 Possible reference: D'Ambrosio, A. et al. (2024) Proteomic profile of extracellular vesicles from plasma and CSF of multiple sclerosis patients reveals disease activity-associated EAAT2., J Neuroinflammation, PMID 39223661PXD043325 Dataset with its publication pending (from iProX) Dataset title: Potential binding proteins of CAV1 obtained from LC-MS/MS Possible reference: Brunet, S. et al. (2015) Phosphorylation sites in the Hook domain of CaVβ subunits differentially modulate CaV1.2 channel function., J Mol Cell Cardiol, PMID 26271711PXD043317 Waugh S, Ranasinghe A, Gomez A, Houston S, Lithgow KV, Eshghi A, Fleetwood J, Conway K, Reynolds LA and Cameron CE. Syphilis and the host; multi-omic analysis of host cellular responses to Treponema pallidum provides novel insight into syphilis pathogenes (from MassIVE) Dataset title: Syphilis and the Host; multi-omic analysis of host cellular responses to Treponema pallidum provides novel insight into syphilis pathogenesis. Possible reference: Waugh, S. et al. (2023) Syphilis and the host: multi-omic analysis of host cellular responses to Treponema pallidum provides novel insight into syphilis pathogenesis., Front Microbiol, PMID 37795301PXD043293 Dataset with its publication pending (from PRIDE) Dataset title: Adipogenic characterization of immortalized CD55+ progenitor cells frAdipogenic characterization of immortalized CD55+ progenitor cells from human white adipose tissueom human white adipose tissue Possible reference: Couchet, M. et al. (2023) Adipogenic characterization of immortalized CD55+ progenitor cells from human white adipose tissue., Adipocyte, PMID 37982546PXD043289 Dataset with its publication pending (from PRIDE) Dataset title: DEAD box RNA helicases are pervasive protein kinase interactors and activators Possible reference: Hirth, A. et al. (2024) DEAD box RNA helicases are pervasive protein kinase interactors and activators., Genome Res, PMID 38986579PXD043280 Dataset with its publication pending (from PRIDE) Dataset title: Glycoproteomic and Proteomic analysis of Burkholderia cenocepacia reveals glycosylation events within FliF and MotB are dispensable for motility. - DIA Possible reference: Lewis, JM. et al. (2024) Glycoproteomic and proteomic analysis of Burkholderia cenocepacia reveals glycosylation events within FliF and MotB are dispensable for motility., Microbiol Spectr, PMID 38709084PXD043274 Dataset with its publication pending (from iProX) Dataset title: Label-free quantitative proteomics of human plasma exosomes Possible reference: Harshman, SW. et al. (2013) Characterization of multiple myeloma vesicles by label-free relative quantitation., Proteomics, PMID 23983189PXD043260 Dataset with its publication pending (from PRIDE) Dataset title: A conserved membrane curvature-generating protein is crucial for autophagosome formation in fission yeast Possible reference: Wang, N. et al. (2023) A conserved membrane curvature-generating protein is crucial for autophagosome formation in fission yeast., Nat Commun, PMID 37553386PXD043221 Dataset with its publication pending (from PRIDE) Dataset title: Glycoproteomic and Proteomic analysis of Burkholderia cenocepacia reveals glycosylation events within FliF and MotB are dispensable for motility. Possible reference: Lewis, JM. et al. (2024) Glycoproteomic and proteomic analysis of Burkholderia cenocepacia reveals glycosylation events within FliF and MotB are dispensable for motility., Microbiol Spectr, PMID 38709084PXD043219 Dataset with its publication pending (from PRIDE) Dataset title: Bacteroides thetaiotaomicron OMV proteomics Possible reference: Elhenawy, W. et al. (2014) Preferential packing of acidic glycosidases and proteases into Bacteroides outer membrane vesicles., mBio, PMID 24618254PXD043190 Dataset with its publication pending (from PRIDE) Dataset title: Light regulates nuclear detainment of intron-retained transcripts through COP1-spliceosome to modulate photomorphogenesis Possible reference: Zhou, H. et al. (2024) Light regulates nuclear detainment of intron-retained transcripts through COP1-spliceosome to modulate photomorphogenesis., Nat Commun, PMID 38879536PXD043183 no publication (from MassIVE) Dataset title: High-throughput Extracellular Matrix Proteomics of Human Lungs Enabled by Photocleavable Surfactant and diaPASEF Possible reference: Bayne, EF. et al. (2024) High-Throughput Extracellular Matrix Proteomics of Human Lungs Enabled by Photocleavable Surfactant and diaPASEF., J Proteome Res, PMID 38315831PXD043160 Dataset with its publication pending (from jPOST) Dataset title: Aurantiochytrium sp SW1 proteomic profile Possible reference: Prabhakaran, P. et al. (2023) Uncovering global lipid accumulation routes towards docosahexaenoic acid (DHA) production in Aurantiochytrium sp. SW1 using integrative proteomic analysis., Biochim Biophys Acta Mol Cell Biol Lipids, PMID 37625782PXD043151 Dataset with its publication pending (from jPOST) Dataset title: Intestinal Paneth cell differentiation relies on asymmetric regulation of Wnt signaling by Daam1/2 Possible reference: Colozza, G. et al. (2023) Intestinal Paneth cell differentiation relies on asymmetric regulation of Wnt signaling by Daam1/2., Sci Adv, PMID 38000028PXD043141 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic analysis and verification identify global protein profiling dynamics in pig saliva during the estrus cycle Possible reference: Xin, H. et al. (2023) Quantitative proteomic analysis and verification identify global protein profiling dynamics in pig during the estrous cycle., Front Vet Sci, PMID 37841454PXD043135 Dataset with its publication pending (from PRIDE) Dataset title: STPP-UP: A alternative method for drug target identification using protein thermal stability Possible reference: Zijlmans, DW. et al. (2023) STPP-UP: An alternative method for drug target identification using protein thermal stability., J Biol Chem, PMID 37742922PXD043133 Dataset with its publication pending (from PRIDE) Dataset title: Inhibition of GPX4 enhances CDK4/6 inhibitor activity in breast cancer. Possible reference: Zhu, X. et al. (2024) Cotargeting CDK4/6 and BRD4 Promotes Senescence and Ferroptosis Sensitivity in Cancer., Cancer Res, PMID 38277141PXD043128 Dataset with its publication pending (from jPOST) Dataset title: Development of a contacting transwell co-culture system for the in vitro culture of primary central nervous system lymphomas Possible reference: Nishi, M. et al. (2023) Development of a contacting transwell co-culture system for the in vitro propagation of primary central nervous system lymphoma., Front Cell Dev Biol, PMID 38089883PXD043112 no publication (from MassIVE) Dataset title: Endocytic vesicles act as vehicles for glucose uptake in response to growth factor stimulation Possible reference: Tsutsumi, R. et al. (2023) Endocytic vesicles act as vehicles for glucose uptake in response to growth factor stimulation., bioRxiv, PMID 37546742PXD043109 Dataset with its publication pending (from jPOST) Dataset title: Proteomics of isolated NK cells from treated mice Possible reference: Abu, N. et al. (2015) In vivo antitumor and antimetastatic effects of flavokawain B in 4T1 breast cancer cell-challenged mice., Drug Des Devel Ther, PMID 25834398PXD043103 Dataset with its publication pending (from PRIDE) Dataset title: Immunorecognition of Streptococcus mutans secreted proteins protects against caries by limiting tooth adhesion Possible reference: Bender, O. et al. (2024) Immunorecognition of Streptococcus mutans secreted proteins protects against caries by limiting tooth adhesion., J Dent, PMID 38101504PXD043084 Dataset with its publication pending (from PRIDE) Dataset title: ZNF524 directly interacts with telomeric DNA and supports telomere integrity Possible reference: Braun, H. et al. (2023) ZNF524 directly interacts with telomeric DNA and supports telomere integrity., Nat Commun, PMID 38086788PXD043076 Dataset with its publication pending (from PRIDE) Dataset title: A protein kinase coordinates cycles of autophagy and glutaminolysis in invasive hyphae of the fungus Magnaporthe oryzae within rice cells Possible reference: Li, G. et al. (2023) A protein kinase coordinates cycles of autophagy and glutaminolysis in invasive hyphae of the fungus Magnaporthe oryzae within rice cells., Nat Commun, PMID 37438395PXD043058 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular Vesicles in COVID-19 convalescence can regulate T cell metabolism and function Possible reference: George, MS. et al. (2023) Extracellular vesicles in COVID-19 convalescence can regulate Tcell metabolism and function., iScience, PMID 37520724PXD043038 Dataset with its publication pending (from iProX) Dataset title: PIAS3/TGF-β/TXNIP axis promotes ferroptosis in HCC Possible reference: Bao, W. et al. (2023) PIAS3 promotes ferroptosis by regulating TXNIP via TGF-β signaling pathway in hepatocellular carcinoma., Pharmacol Res, PMID 37689128PXD043033 Dataset with its publication pending (from PRIDE) Dataset title: Infected erythrocytes and plasma proteomics reveal a specific protein signature of severe malaria Possible reference: Fraering, J. et al. (2024) Infected erythrocytes and plasma proteomics reveal a specific protein signature of severe malaria., EMBO Mol Med, PMID 38297098PXD043027 Dataset with its publication pending (from jPOST) Dataset title: Characterization of Unbranched Ubiquitin Tetramers by Combining Ultraviolet Photodissociation with Proton Transfer Charge Reduction Reactions Possible reference: Bashyal, A. et al. (2023) Characterization of Unbranched Ubiquitin Tetramers by Combining Ultraviolet Photodissociation with Proton Transfer Charge Reduction Reactions., Anal Chem, PMID 37677053PXD043024 no publication (from MassIVE) Dataset title: The twin-arginine translocation system of Achromobacter xylosoxidans Possible reference: Khademi, SMH. et al. (2024) The twin-arginine translocation system is vital for cell adhesion and uptake of iron in the cystic fibrosis pathogen Achromobacter xylosoxidans., Virulence, PMID 37974335PXD043023 no publication (from MassIVE) Dataset title: derailed protein turnover in the aging mammalian brain Possible reference: Danckwardt, S. et al. (2023) Post-transcriptional control of haemostatic genes: mechanisms and emerging therapeutic concepts in thrombo-inflammatory disorders., Cardiovasc Res, PMID 36943786PXD043021 Dataset with its publication pending (from PRIDE) Dataset title: Escherichia coli displays a conserved membrane proteomic response to a range of alcohols Possible reference: Sen, O. et al. (2023) Escherichia coli displays a conserved membrane proteomic response to a range of alcohols., Biotechnol Biofuels Bioprod, PMID 37789404PXD043003 Dataset with its publication pending (from PRIDE) Dataset title: The function of ER-phagy receptors is regulated through phosphorylation-dependent ubiquitination pathways. Possible reference: Rui, YN. et al. (2015) The GST-BHMT assay reveals a distinct mechanism underlying proteasome inhibition-induced macroautophagy in mammalian cells., Autophagy, PMID 25984893PXD043002 Dataset with its publication pending (from PRIDE) Dataset title: Global phosphoproteome of Leishmania mexicana developmental stages Possible reference: Porta, EO. et al. (2023) Inhibition of HSP90 distinctively modulates the global phosphoproteome of Leishmania mexicana developmental stages., Microbiol Spectr, PMID 37905935PXD042994 Dataset with its publication pending (from PRIDE) Dataset title: Altered GM1 catabolism affects NMDAR-mediated Ca2+ signaling at ER-PM junctions and increases synaptic spine formation Possible reference: Weesner, JA. et al. (2024) Altered GM1 catabolism affects NMDAR-mediated Ca2+ signaling at ER-PM junctions and increases synaptic spine formation in a GM1-gangliosidosis model., Cell Rep, PMID 38630590PXD042993 Dataset with its publication pending (from PRIDE) Dataset title: Nardilysin-Regulated Scission Mechanism Activates Polo-like Kinase 3 to Suppress the Development of Pancreatic Cancer Possible reference: Fu, J. et al. (2024) Nardilysin-regulated scission mechanism activates polo-like kinase 3 to suppress the development of pancreatic cancer., Nat Commun, PMID 38605037PXD042976 Dataset with its publication pending (from jPOST) Dataset title: The Plasmodium falciparum CCCH zinc finger protein MD3 regulates male gametocytogenesis through its interaction with RNA-binding proteins Possible reference: Farrukh, A. et al. (2024) The Plasmodium falciparum CCCH zinc finger protein MD3 regulates male gametocytogenesis through its interaction with RNA-binding proteins., Mol Microbiol, PMID 38148574PXD042965 Dataset with its publication pending (from PRIDE) Dataset title: BAG5, a co-chaperone protein, regulates the assembly of HTCA in sperm Possible reference: Gan, S. et al. (2024) BAG5 regulates HSPA8-mediated protein folding required for sperm head-tail coupling apparatus assembly., EMBO Rep, PMID 38454159PXD042954 Dataset with its publication pending (from PRIDE) Dataset title: Integration of Meta-Multi-Omics Data Using Probabilistic Graphs and External Knowledge Possible reference: Can, H. et al. (2023) Integration of Meta-Multi-Omics Data Using Probabilistic Graphs and External Knowledge., Cells, PMID 37566077PXD042949 Dataset with its publication pending (from PRIDE) Dataset title: Targeted proteomics quantittation of NRF2 signaling and predictive biomarkers in HNSCC Possible reference: Wamsley, NT. et al. (2023) Targeted Proteomic Quantitation of NRF2 Signaling and Predictive Biomarkers in HNSCC., Mol Cell Proteomics, PMID 37716475PXD042947 Dataset with its publication pending (from PanoramaPublic) Dataset title: Mag-Net: Rapid enrichment of membrane-bound particles enables high coverage quantitative analysis of the plasma proteome Possible reference: Wu, CC. et al. (2024) Mag-Net: Rapid enrichment of membrane-bound particles enables high coverage quantitative analysis of the plasma proteome., bioRxiv, PMID 38617345PXD042936 Dataset with its publication pending (from PRIDE) Dataset title: High Efficiency Enrichment by Saturating Nanoliters of Protein Affinity Media Possible reference: Raval, S. et al. (2023) High-Efficiency Enrichment by Saturating Nanoliters of Protein Affinity Media., Anal Chem, PMID 37851921PXD042921 Dataset with its publication pending (from PRIDE) Dataset title: 5xFAD transgenic mouse Abeta proteoforms Possible reference: Bugrova, AE. et al. (2021) The Dynamics of β-Amyloid Proteoforms Accumulation in the Brain of a 5xFAD Mouse Model of Alzheimer's Disease., Int J Mol Sci, PMID 35008451PXD042905 Dataset with its publication pending (from PRIDE) Dataset title: The assembly of the Mitochondrial Complex I Assembly complex uncovers a redox pathway coordination Possible reference: McGregor, L. et al. (2023) The assembly of the Mitochondrial Complex I Assembly complex uncovers a redox pathway coordination., Nat Commun, PMID 38086790PXD042903 Dataset with its publication pending (from PRIDE) Dataset title: Pulse-SILAC and interactomics reveal distinct DDB1-CUL4 associated factors (DCAFs), cellular functions, and protein substrates Possible reference: Raisch, J. et al. (2023) Pulse-SILAC and Interactomics Reveal Distinct DDB1-CUL4-Associated Factors, Cellular Functions, and Protein Substrates., Mol Cell Proteomics, PMID 37689310PXD042895 Dataset with its publication pending (from PRIDE) Dataset title: Epigenome-wide impact of MAT2A sustains the androgen-indifferent state and confers synthetic vulnerability in ERG fusion-positive prostate cancer Possible reference: Cacciatore, A. et al. (2024) Epigenome-wide impact of MAT2A sustains the androgen-indifferent state and confers synthetic vulnerability in ERG fusion-positive prostate cancer., Nat Commun, PMID 39107274PXD042878 Dataset with its publication pending (from PRIDE) Dataset title: Bidirectional substrate shuttling between the 26S proteasome and the Cdc48 ATPase promotes protein degradation Possible reference: Li, H. et al. (2023) Bidirectional substrate shuttling between the 26S proteasome and the Cdc48 ATPase promotes protein degradation., bioRxiv, PMID 38187576PXD042871 Dataset with its publication pending (from jPOST) Dataset title: Validity of the cell-extracted proteome as a substrate pool for exploring phosphorylation motifs of kinases Possible reference: Niinae, T. et al. (2023) Validity of the cell-extracted proteome as a substrate pool for exploring phosphorylation motifs of kinases., Genes Cells, PMID 37658684PXD042868 Yixuan Huang, Bhagyashree N. Swarge, Winfried Roseboom, Jurre D. Bleeker, Stanley Brul, Peter Setlow, Gertjan Kramer. Integrative metabolomics and proteomics allow the global intracellular characterization of Bacillus subtilis cells and spores. bioRxiv 20 (from MassIVE) Dataset title: Integrative metabolomics and proteomics allow the global intracellular characterization of Bacillus subtilis cells and spores. Possible reference: Huang, Y. et al. (2024) Integrative Metabolomics and Proteomics Allow the Global Intracellular Characterization of Bacillus subtilis Cells and Spores., J Proteome Res, PMID 38190553PXD042860 Dataset with its publication pending (from PRIDE) Dataset title: Spatially differential regulation of ATF2 phosphorylation contributes to warning coloration of gregarious locusts Possible reference: Kang, X. et al. (2023) Spatially differential regulation of ATF2 phosphorylation contributes to warning coloration of gregarious locusts., Sci Adv, PMID 37611100PXD042855 Dataset with its publication pending (from PRIDE) Dataset title: The kinesin Kif21b regulates radial migration of cortical projection neurons through a non-canonical function on actin cytoskeleton. Possible reference: Rivera Alvarez, J. et al. (2023) The kinesin Kif21b regulates radial migration of cortical projection neurons through a non-canonical function on actin cytoskeleton., Cell Rep, PMID 37418324PXD042852 Dataset with its publication pending (from PRIDE) Dataset title: Nanoparticle Enrichment Mass-Spectrometry Proteomics Identifies Protein Altering Variants for Precise pQTL Mapping Possible reference: Suhre, K. et al. (2024) Nanoparticle enrichment mass-spectrometry proteomics identifies protein-altering variants for precise pQTL mapping., Nat Commun, PMID 38307861PXD042825 no publication (from MassIVE) Dataset title: Native Nanoproteomics Captures Structure and Dynamics of Endogenous Protein Complexes in Human Heart Tissue Possible reference: Chapman, EA. et al. (2023) Structure and dynamics of endogenous protein complexes in human heart tissue captured by native nanoproteomics., bioRxiv, PMID 37398031PXD042824 no publication (from MassIVE) Dataset title: Parascedosporium putredinis NO1 tailors its secretome for different lignocellulosic substrates Possible reference: Scott, CJR. et al. (2024) Parascedosporium putredinis NO1 tailors its secretome for different lignocellulosic substrates., Microbiol Spectr, PMID 38757984PXD042806 Dataset with its publication pending (from PRIDE) Dataset title: Cardiomyocyte precursors generated by direct reprogramming and molecular beacon selection attenuate ventricular remodeling after experimental myocardial infarction Possible reference: Bachamanda Somesh, D. et al. (2023) Cardiomyocyte precursors generated by direct reprogramming and molecular beacon selection attenuate ventricular remodeling after experimental myocardial infarction., Stem Cell Res Ther, PMID 37840130PXD042803 no publication (from MassIVE) Dataset title: The Effect of Tamoxifen on Proteome Expression During in vitro Myogenesis in Murine Skeletal Muscle C2C12 Cells Possible reference: Morris, EA. et al. (2023) Effect of Tamoxifen on Proteome Expression during In Vitro Myogenesis in Murine Skeletal Muscle C2C12 Cells., J Proteome Res, PMID 37552804PXD042770 Dataset with its publication pending (from PRIDE) Dataset title: A comprehensive spectral assay library to quantify the Halobacterium salinarum NRC-1 proteome by DIA/SWATH-MS Possible reference: Kusebauch, U. et al. (2023) A comprehensive spectral assay library to quantify the Halobacterium salinarum NRC-1 proteome by DIA/SWATH-MS., Sci Data, PMID 37833331PXD042761 Dataset with its publication pending (from PRIDE) Dataset title: LSM14B is essential for oocyte meiotic maturation by regulating maternal mRNA storage and clearance Possible reference: Wan, Y. et al. (2023) LSM14B is essential for oocyte meiotic maturation by regulating maternal mRNA storage and clearance., Nucleic Acids Res, PMID 37889087PXD042749 Dataset with its publication pending (from PRIDE) Dataset title: Maximizing Heterologous Expression of Engineered Type I Polyketide Synthases: Investigating Codon Optimization Strategies Possible reference: Schmidt, M. et al. (2023) Maximizing Heterologous Expression of Engineered Type I Polyketide Synthases: Investigating Codon Optimization Strategies., ACS Synth Biol, PMID 37851920PXD042691 Dataset with its publication pending (from PRIDE) Dataset title: Ubiquitin-specific proximity labeling for the identification of E3 ubiquitin ligase substrates Possible reference: Huang, HT. et al. (2024) Ubiquitin-specific proximity labeling for the identification of E3 ligase substrates., Nat Chem Biol, PMID 38514884PXD042616 Dataset with its publication pending (from PRIDE) Dataset title: Functional analysis of the Aspergillus fumigatus kinome reveals a DYRK kinase involved in septal plugging is a novel antifungal drug target Possible reference: van Rhijn, N. et al. (2023) Functional analysis of the Aspergillus fumigatus kinome reveals a DYRK kinase involved in septal plugging is a novel antifungal drug target., Res Sq, PMID 37398159PXD042327 Dataset with its publication pending (from jPOST) Dataset title: Proteomic and functional characterisation of Extracellular Vesicles from collagen VI deficient human fibroblasts reveals a role in cell motility. Possible reference: Badosa, C. et al. (2023) Proteomic and functional characterisation of extracellular vesicles from collagen VI deficient human fibroblasts reveals a role in cell motility., Sci Rep, PMID 37670049PXD042309 no publication (from PanoramaPublic) Dataset title: S-Adenosylmethionine Negatively Regulates the Mitochondrial Respiratory Chain Repressor MCJ in the Liver Possible reference: Barbier-Torres, L. et al. (2024) S-Adenosylmethionine Negatively Regulates the Mitochondrial Respiratory Chain Repressor MCJ in the Liver., Int J Biol Sci, PMID 38385082PXD042266 Dataset with its publication pending (from PRIDE) Dataset title: Direct mass spectrometry-based detection and antibody sequencing of Monoclonal Gammopathy of Undetermined Significance from patient serum Possible reference: Peng, W. et al. (2023) Direct Mass Spectrometry-Based Detection and Antibody Sequencing of Monoclonal Gammopathy of Undetermined Significance from Patient Serum: A Case Study., J Proteome Res, PMID 37499263PXD042262 no publication (from MassIVE) Dataset title: Systems level analyses of protein-protein interaction network dysfunctions via epichaperomics identify cancer-specific mechanisms of stress adaptation Possible reference: Rodina, A. et al. (2023) Systems-level analyses of protein-protein interaction network dysfunctions via epichaperomics identify cancer-specific mechanisms of stress adaptation., Nat Commun, PMID 37353488PXD042257 Dataset with its publication pending (from PRIDE) Dataset title: MYCT1 CONTROLS ENVIRONMENTAL SENSING IN HUMAN HEMATOPOIETIC STEM CELLS Possible reference: Aguad-Gorgori, J. et al. (2024) MYCT1 controls environmental sensing in human haematopoietic stem cells., Nature, PMID 38839950PXD042243 Dataset with its publication pending (from PRIDE) Dataset title: Design of a mucin-selective protease for targeted degradation of cancer-associated mucins Possible reference: Pedram, K. et al. (2024) Design of a mucin-selective protease for targeted degradation of cancer-associated mucins., Nat Biotechnol, PMID 37537499PXD042234 Dataset with its publication pending (from PRIDE) Dataset title: Mesothelin secretion by pancreatic cancer cells co-opts macrophages and promotes metastasis Possible reference: Luckett, T. et al. (2024) Mesothelin Secretion by Pancreatic Cancer Cells Co-opts Macrophages and Promotes Metastasis., Cancer Res, PMID 38356443PXD042231 no publication (from MassIVE) Dataset title: The HLA-II immunopeptidome of SARS-CoV-2 Possible reference: Knierman, MD. et al. (2020) The Human Leukocyte Antigen Class II Immunopeptidome of the SARS-CoV-2 Spike Glycoprotein., Cell Rep, PMID 33220791PXD042200 Dataset with its publication pending (from PRIDE) Dataset title: Deep Proteome of the Developing Chick Midbrain Possible reference: Stepler, KE. et al. (2023) Deep Proteome of the Developing Chick Midbrain., J Proteome Res, PMID 37616547PXD042179 Dataset with its publication pending (from PRIDE) Dataset title: Seeding the meiotic DNA break machinery and initiating recombination on chromosome axes Possible reference: Dereli, I. et al. (2023) Seeding the meiotic DNA break machinery and initiating recombination on chromosome axes., bioRxiv, PMID 38077023PXD042154 Dataset with its publication pending (from PRIDE) Dataset title: Blood RNAs predictive of molecular changes in the brain and clinical outcome in Parkinson’s disease Possible reference: Irmady, K. et al. (2023) Blood transcriptomic signatures associated with molecular changes in the brain and clinical outcomes in Parkinson's disease., Nat Commun, PMID 37407548PXD042130 Dataset with its publication pending (from jPOST) Dataset title: Disruption of the Productive Encounter Complex Results in Dysregulation of DIAPH1 Activity Possible reference: Theophall, GG. et al. (2023) Disruption of the productive encounter complex results in dysregulation of DIAPH1 activity., J Biol Chem, PMID 37832872PXD042127 no publication (from MassIVE) Dataset title: Stable isotope informed metaproteogenomics of an anaerobic syntrophic acetate oxidizing consortium Possible reference: McDaniel, EA. et al. (2023) Diverse electron carriers drive syntrophic interactions in an enriched anaerobic acetate-oxidizing consortium., ISME J, PMID 37880541PXD042124 Dataset with its publication pending (from jPOST) Dataset title: Helicobacter pylori cagA+ induces cancer-associated fibroblasts proliferation and migration in vitro Possible reference: Gonciarz, W. et al. (2019) The effect of Helicobacter pylori infection and different H. pylori components on the proliferation and apoptosis of gastric epithelial cells and fibroblasts., PLoS One, PMID 31390383PXD042103 Dataset with its publication pending (from PRIDE) Dataset title: HDL functionality is dependent on hepatocyte stress defense factors NRF1 and NRF2 Possible reference: Trites, MJ. et al. (2023) HDL functionality is dependent on hepatocyte stress defense factors Nrf1 and Nrf2., Front Physiol, PMID 37501930PXD042090 Dataset with its publication pending (from PRIDE) Dataset title: Cas1-Cas2 and DnaK physically and functionally interact to modulate CRISPR Adaptation Possible reference: Killelea, T. et al. (2023) Cas1-Cas2 physically and functionally interactswith DnaK to modulate CRISPR Adaptation., Nucleic Acids Res, PMID 37264902PXD042079 Dataset with its publication pending (from PRIDE) Dataset title: The V-ATPase complex component RNAseK is required for lysosomal hydrolase delivery and autophagosome degradation Possible reference: Makar, AN. et al. (2024) The V-ATPase complex component RNAseK is required for lysosomal hydrolase delivery and autophagosome degradation., Nat Commun, PMID 39231962PXD042077 Dataset with its publication pending (from PRIDE) Dataset title: Versatile human cardiac tissues engineered with perfusable heart extracellular microenvironment for biomedical applications Possible reference: Min, S. et al. (2024) Versatile human cardiac tissues engineered with perfusable heart extracellular microenvironment for biomedical applications., Nat Commun, PMID 38519491PXD042030 Dataset with its publication pending (from iProX) Dataset title: Quantitative proteomics profiling during the development of fungal fluconazole resistance Possible reference: Gutierrez-Gongora, D. et al. (2024) Natural compounds from freshwater mussels disrupt fungal virulence determinants and influence fluconazole susceptibility in the presence of macrophages in Cryptococcus neoformans., Microbiol Spectr, PMID 38329361PXD042011 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of anterior pituitary of heifer calves offered either a high or moderate plane of nutrition in early life Possible reference: Byrne, CJ. et al. (2018) Plane of nutrition before and after 6 months of age in Holstein-Friesian bulls: I. Effects on performance, body composition, age at puberty, and postpubertal semen production., J Dairy Sci, PMID 29428748PXD041990 Dataset with its publication pending (from PRIDE) Dataset title: Carnitine palmitoyltransferase 1A promotes mitochondrial fission by enhancing MFF succinylation in ovarian cancer Possible reference: Zhu, Y. et al. (2023) Carnitine palmitoyltransferase 1A promotes mitochondrial fission by enhancing MFF succinylation in ovarian cancer., Commun Biol, PMID 37291333PXD041978 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of the Helicobacter pylori redox switch HP1021 regulon using a multi-omics approach Possible reference: Noszka, M. et al. (2023) Profiling of the Helicobacter pylori redox switch HP1021 regulon using a multi-omics approach., Nat Commun, PMID 37872172PXD041973 Dataset with its publication pending (from PRIDE) Dataset title: Removal of senescent cells reduces the viral load and attenuates pulmonary and systemic inflammation in SARS-CoV-2-infected, aged hamsters Possible reference: Delval, L. et al. (2023) Removal of senescent cells reduces the viral load and attenuates pulmonary and systemic inflammation in SARS-CoV-2-infected, aged hamsters., Nat Aging, PMID 37414987PXD041970 no publication (from MassIVE) Dataset title: A phase-separated CO2-fixing pyrenoid proteome determined by TurboID in Chlamydomonas reinhardtii Possible reference: Lau, CS. et al. (2023) A phase-separated CO2-fixing pyrenoid proteome determined by TurboID in Chlamydomonas reinhardtii., Plant Cell, PMID 37195994PXD041951 Dataset with its publication pending (from PRIDE) Dataset title: Flavodoxin Landscape in Clostridioidesdifficile Possible reference: Deshpande, A. et al. (2020) Chromosomal Resistance to Metronidazole in Clostridioides difficile Can Be Mediated by Epistasis between Iron Homeostasis and Oxidoreductases., Antimicrob Agents Chemother, PMID 32457109PXD041938 Dataset with its publication pending (from PRIDE) Dataset title: Multiomics analysis of naturally efficacious LNP coronas reveals high-density lipoprotein is necessary for LNP function. Individual corona Possible reference: Liu, K. et al. (2023) Multiomics analysis of naturally efficacious lipid nanoparticle coronas reveals high-density lipoprotein is necessary for their function., Nat Commun, PMID 37414857PXD041928 no publication (from MassIVE) Dataset title: A region-resolved proteomic map of the human brain enabled by high-throughput proteomics Possible reference: Tshaus, J. et al. (2023) A region-resolved proteomic map of the human brain enabled by high-throughput proteomics., EMBO J, PMID 37916885PXD041925 Dataset with its publication pending (from PRIDE) Dataset title: Multiomics analysis of naturally efficacious LNP coronas reveals high-density lipoprotein is necessary for LNP function. Rat Plasma Possible reference: Liu, K. et al. (2023) Multiomics analysis of naturally efficacious lipid nanoparticle coronas reveals high-density lipoprotein is necessary for their function., Nat Commun, PMID 37414857PXD041924 Dataset with its publication pending (from PRIDE) Dataset title: Taxanes trigger cancer cell killing in vivo by inducing non-canonical T cell cytotoxicity Possible reference: Vennin, C. et al. (2023) Taxanes trigger cancer cell killing invivo by inducing non-canonical Tcell cytotoxicity., Cancer Cell, PMID 37311414PXD041914 Dataset with its publication pending (from PRIDE) Dataset title: Dynamics of de novo heterochromatin assembly and disassembly at replication forks ensures fork stability Possible reference: Gaggioli, V. et al. (2023) Dynamic de novo heterochromatin assembly and disassembly at replication forks ensures fork stability., Nat Cell Biol, PMID 37414849PXD041910 no publication (from MassIVE) Dataset title: Comparative proteomic analysis of tail regeneration in the green anole lizard Anolis carolinensis Possible reference: Xu, C. et al. (2024) Comparative proteomic analysis of tail regeneration in the green anole lizard, Anolis carolinensis., Nat Sci (Weinh), PMID 38505006PXD041909 no publication (from MassIVE) Dataset title: Serum proteomics hint at an early T-cell response and modulation of SARS-CoV-2-related pathogenic pathways in COVID-19-ARDS treated with Ruxolitinib Possible reference: Vlkel, S. et al. (2023) Serum proteomics hint at an early T-cell response and modulation of SARS-CoV-2-related pathogenic pathways in COVID-19-ARDS treated with Ruxolitinib., Front Med (Lausanne), PMID 37293294PXD041907 Dataset with its publication pending (from PRIDE) Dataset title: The Toxoplasma protein phosphatase 6 catalytic subunit (TgPP6C) is essential for cell cycle progression and virulence Possible reference: Liang, QL. et al. (2023) The Toxoplasma protein phosphatase 6 catalytic subunit (TgPP6C) is essential for cell cycle progression and virulence., PLoS Pathog, PMID 38091362PXD041899 Dataset with its publication pending (from PRIDE) Dataset title: Proteome and Phosphoproteome of Circulating Extracellular Vesicles in Type 1 Diabetes and Controls Possible reference: Casu, A. et al. (2023) The proteome and phosphoproteome of circulating extracellular vesicle-enriched preparations are associated with characteristic clinical features in type 1 diabetes., Front Endocrinol (Lausanne), PMID 37576973PXD041898 Dataset with its publication pending (from PRIDE) Dataset title: XCP1 cleaves Pathogenesis-related protein 1 into CAPE9 for systemic immunity in Arabidopsis Possible reference: Chen, YL. et al. (2023) XCP1 cleaves Pathogenesis-related protein 1 into CAPE9 for systemic immunity in Arabidopsis., Nat Commun, PMID 37542077PXD041888 no publication (from MassIVE) Dataset title: Brain cell type specific proteomics approach to discover pathological mechanisms in the childhood CNS disorder mucolipidosis type IV Possible reference: Sangster, M. et al. (2023) Brain cell type specific proteomics approach to discover pathological mechanisms in the childhood CNS disorder mucolipidosis type IV., Front Mol Neurosci, PMID 37609073PXD041883 no publication (from MassIVE) Dataset title: mARC1 knockdown protects liver from diet-induced NASH in mouse Possible reference: Guo, Y. et al. (2024) Liver-specific mitochondrial amidoxime-reducing component 1 (Mtarc1) knockdown protects the liver from diet-induced MASH in multiple mouse models., Hepatol Commun, PMID 38696369PXD041862 Dataset with its publication pending (from PRIDE) Dataset title: Integrative analysis reveals a conserved role for the amyloid precursor protein in proteostasis during aging Possible reference: Nithianandam, V. et al. (2023) Integrative analysis reveals a conserved role for the amyloid precursor protein in proteostasis during aging., Nat Commun, PMID 37923712PXD041858 no publication (from MassIVE) Dataset title: Light Activated BioID (LAB): an optically activated proximity labeling system to study protein-protein interactions Possible reference: Shafraz, O. et al. (2023) Light-activated BioID - an optically activated proximity labeling system to study protein-protein interactions., J Cell Sci, PMID 37756605PXD041852 no publication (from MassIVE) Dataset title: Ablation of ZC3H11A causes early embryonic lethality and dysregulation of metabolic processes Possible reference: Younis, S. et al. (2023) Ablation of ZC3H11A causes early embryonic lethality and dysregulation of metabolic processes., Proc Natl Acad Sci U S A, PMID 37252988PXD041850 Dataset with its publication pending (from PRIDE) Dataset title: Astrocyte-Oligodendrocyte interaction regulates central nervous system regeneration Possible reference: Molina-Gonzalez, I. et al. (2023) Astrocyte-oligodendrocyte interaction regulates central nervous system regeneration., Nat Commun, PMID 37291151PXD041848 no publication (from MassIVE) Dataset title: Complexome Profiling of the chloroplast proteome from Arabidopsis thaliana Possible reference: Rhricht, H. et al. (2021) Complexome profiling reveals novel insights into the composition and assembly of the mitochondrial ATP synthase of Arabidopsis thaliana., Biochim Biophys Acta Bioenerg, PMID 33785316PXD041846 Dataset with its publication pending (from PRIDE) Dataset title: Mutant Huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure Possible reference: Lisowski, P. et al. (2024) Mutant huntingtin impairs neurodevelopment in human brain organoids through CHCHD2-mediated neurometabolic failure., Nat Commun, PMID 39174523PXD041844 Dataset with its publication pending (from PRIDE) Dataset title: Longitudinal Effects of Elexacaftor/Tezacaftor/Ivacaftor on Sputum Viscoelastic Properties, Airway Infection and Inflammation in Patients with Cystic Fibrosis Possible reference: Schaupp, L. et al. (2023) Longitudinal effects of elexacaftor/tezacaftor/ivacaftor on sputum viscoelastic properties, airway infection and inflammation in patients with cystic fibrosis., Eur Respir J, PMID 37414422PXD041837 Dataset with its publication pending (from PRIDE) Dataset title: Involvement of extracellular vesicles in the progression, diagnosis, treatment, and prevention of whole-body ionizing radiation-induced immune dysfunction. Possible reference: Seim, RF. et al. (2023) Involvement of extracellular vesicles in the progression, diagnosis, treatment, and prevention of whole-body ionizing radiation-induced immune dysfunction., Front Immunol, PMID 37404812PXD041824 Dataset with its publication pending (from PRIDE) Dataset title: ALK signalling primes the DNA damage response sensitizing ALK-driven neuroblastoma to therapeutic ATR inhibition Possible reference: Borens, M. et al. (2024) ALK signaling primes the DNA damage response sensitizing ALK-driven neuroblastoma to therapeutic ATR inhibition., Proc Natl Acad Sci U S A, PMID 38154064PXD041810 Dataset with its publication pending (from iProX) Dataset title: The proteins binding with locust pre-miR-276 Possible reference: Zhu, YN. et al. (2024) Parental experiences orchestrate locust egg hatching synchrony by regulating nuclear export of precursor miRNA., Nat Commun, PMID 38773155PXD041804 Dataset with its publication pending (from PRIDE) Dataset title: Immunoprecipitation methods impact the peptide repertoire in immunopeptidomics Possible reference: Kuznetsov, A. et al. (2020) Critical Review of Existing MHC I Immunopeptidome Isolation Methods., Molecules, PMID 33228004PXD041801 no publication (from MassIVE) Dataset title: Integrated post-genomic cell wall analysis reveals floating biofilm formation associated with high expression of flocculins in the pathogen Candida krusei. Possible reference: Alvarado, M. et al. (2023) Integrated post-genomic cell wall analysis reveals floating biofilm formation associated with high expression of flocculins in the pathogen Pichia kudriavzevii., PLoS Pathog, PMID 37196016PXD041794 Dataset with its publication pending (from PRIDE) Dataset title: A Bioconductor workflow for processing, evaluating and interpreting expression proteomics data: Case data Possible reference: Hutchings, C. et al. (2023) A Bioconductor workflow for processing, evaluating, and interpreting expression proteomics data., F1000Res, PMID 38021401PXD041784 Dataset with its publication pending (from jPOST) Dataset title: HtrA1 prevents and reverses α-synuclein aggregation, rendering it non-toxic and seeding incompetent Possible reference: Chen, S. et al. (2023) HtrA1 prevents and reverses α-synuclein aggregation, rendering it non-toxic and seeding incompetent., Res Sq, PMID 37674720PXD041783 Dataset with its publication pending (from PRIDE) Dataset title: Defective mitochondrial translation due to loss of COX14 function triggers ROS-induced inflammation in liver Possible reference: Aich, A. et al. (2024) Defective mitochondrial COX1 translation due to loss of COX14 function triggers ROS-induced inflammation in mouse liver., Nat Commun, PMID 39134548PXD041781 Dataset with its publication pending (from PRIDE) Dataset title: Plasma Instead of Serum Avoids Critical Confounding of Clinical Metabolomics Studies by Platelets – serum and plasma Possible reference: Hagn, G. et al. (2024) Plasma Instead of Serum Avoids Critical Confounding of Clinical Metabolomics Studies by Platelets., J Proteome Res, PMID 38520676PXD041742 Dataset with its publication pending (from PRIDE) Dataset title: Dynamics of de novo heterochromatin assembly and disassembly at replication forks ensures fork stability Possible reference: Gaggioli, V. et al. (2023) Dynamic de novo heterochromatin assembly and disassembly at replication forks ensures fork stability., Nat Cell Biol, PMID 37414849PXD041726 no publication (from MassIVE) Dataset title: Determining Site Specific Glycan Profiles of Recombinant SARS CoV 2 Spike Proteins from Multiple Sources Possible reference: Burke, MC. et al. (2023) Determining Site-Specific Glycan Profiles of Recombinant SARS-CoV-2 Spike Proteins from Multiple Sources., J Proteome Res, PMID 37647588PXD041703 Dataset with its publication pending (from iProX) Dataset title: A proteomic atlas of the common wheat Possible reference: Liu, J. et al. (2019) Proteomics of Bulked Rachides Combined with Documented QTL Uncovers Genotype Nonspecific Players of the Fusarium Head Blight Responses in Wheat., Phytopathology, PMID 30040027PXD041696 Dataset with its publication pending (from PRIDE) Dataset title: mTORC2-NDRG1-Cdc42 axis couples fasting to mitochondrial fission Possible reference: Martinez-Lopez, N. et al. (2023) mTORC2-NDRG1-CDC42 axis couples fasting to mitochondrial fission., Nat Cell Biol, PMID 37386153PXD041689 Dataset with its publication pending (from PRIDE) Dataset title: Fibrotic Response to anti-CSF-1R Treatment Potentiates Glioblastoma Recurrence Possible reference: Watson, SS. et al. (2024) Fibrotic response to anti-CSF-1R therapy potentiates glioblastoma recurrence., Cancer Cell, PMID 39255775PXD041686 Dataset with its publication pending (from PRIDE) Dataset title: Transcriptome and proteome analysis reveals the anti-cancer properties of Hypnea musciformis macroalgae extract in liver and intestinal cancer cells Possible reference: Begolli, R. et al. (2023) Transcriptome and proteome analysis reveals the anti-cancer properties of Hypnea musciformis marine macroalga extract in liver and intestinal cancer cells., Hum Genomics, PMID 37525271PXD041680 Dataset with its publication pending (from jPOST) Dataset title: Proteomics in striatal EVs from WT and R6/1 mice Possible reference: Solana-Balaguer, J. et al. (2024) Motor skill learning modulates striatal extracellular vesicles' content in a mouse model of Huntington's disease., Cell Commun Signal, PMID 38863004PXD041679 Dataset with its publication pending (from PRIDE) Dataset title: Transcription-coupled DNA-Protein Crosslink repair by CSB and CRL4(CSA)-mediated degradation Possible reference: van Sluis, M. et al. (2024) Transcription-coupled DNA-protein crosslink repair by CSB and CRL4CSA-mediated degradation., Nat Cell Biol, PMID 38600236PXD041667 Dataset with its publication pending (from iProX) Dataset title: S-nitrosocysteine proteomics of Schistosoma japonicum collected from infected mice and rats Possible reference: Peng, M. et al. (2024) Nitric oxide-induced endoplasmic reticulum stress of Schistosoma japonicum inhibits the worm development in rats., Free Radic Biol Med, PMID 38141890PXD041660 Dataset with its publication pending (from PRIDE) Dataset title: A Defective Extracellular Matrix/Kindlin-2/Actin/ERK Mechanosensing Pathway Affects Fibroblast-To-Myofibroblast Transition in the Old Male Heart Possible reference: Angelini, A. et al. (2023) A defective mechanosensing pathway affects fibroblast-to-myofibroblast transition in the old male mouse heart., iScience, PMID 37520701PXD041630 Dataset with its publication pending (from PRIDE) Dataset title: Cellular stiffness sensing through talin 1 in tissue mechanical homeostasis Possible reference: Chanduri, MVL. et al. (2024) Mechanosensing through talin 1 contributes to tissue mechanical homeostasis., bioRxiv, PMID 38328095PXD041625 Dataset with its publication pending (from PRIDE) Dataset title: Transcriptomics and proteomics reveal distinct biology for lymph node metastases and tumor deposits in colorectal cancer Possible reference: Brouwer, NP. et al. (2023) Transcriptomics and proteomics reveal distinct biology for lymph node metastases and tumour deposits in colorectal cancer., J Pathol, PMID 37792663PXD041613 Dataset with its publication pending (from jPOST) Dataset title: gastric adenocarcinoma HER2 mass spectrometry-based quantification Possible reference: Xu, B. et al. (2023) A comparative study of gastric adenocarcinoma HER2 IHC phenotype and mass spectrometry-based quantification., Front Oncol, PMID 37350943PXD041599 Dataset with its publication pending (from iProX) Dataset title: Degradation of calcium oxalate by Azospirillum OX-1 and its molecular mechanism Possible reference: Xia, D. et al. (2024) Secondary products and molecular mechanism of calcium oxalate degradation by the strain Azospirillum sp. OX-1., Sci Rep, PMID 39379461PXD041589 no publication (from MassIVE) Dataset title: High efficiency preparation of monodisperse plasma membrane derived extracellular vesicles for therapeutic applications Possible reference: Alter, CL. et al. (2023) High efficiency preparation of monodisperse plasma membrane derived extracellular vesicles for therapeutic applications., Commun Biol, PMID 37137966PXD041562 Dataset with its publication pending (from PRIDE) Dataset title: Transmembrane nuclease NUMEN/ENDOD1 regulates DNA repair pathway choice at the nuclear periphery Possible reference: Chen, B. et al. (2023) Transmembrane nuclease NUMEN/ENDOD1 regulates DNA repair pathway choice at the nuclear periphery., Nat Cell Biol, PMID 37322289PXD041551 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of two novel proteins involved in mitochondrial DNA anchoring in Trypanosoma brucei Possible reference: Amodeo, S. et al. (2023) Characterization of two novel proteins involved in mitochondrial DNA anchoring in Trypanosoma brucei., PLoS Pathog, PMID 37459364PXD041546 (from jPOST) Dataset title: Use of data-independent acquisition mass spectrometry to identify an objective serum indicator of the need for osteoporotic therapeutic intervention Possible reference: Nakai, Y. et al. (2024) Use of data-independent acquisition mass spectrometry to identify an objective serum indicator of the need for osteoporotic therapeutic intervention., J Proteomics, PMID 38574990PXD041519 Dataset with its publication pending (from PRIDE) Dataset title: Orphan quality control shapes network dynamics and gene expression Possible reference: Mark, KG. et al. (2023) Orphan quality control shapes network dynamics and gene expression., Cell, PMID 37478862PXD041493 Dataset with its publication pending (from jPOST) Dataset title: Top-Down Analysis of Supercharged Proteins Using Collision-, Electron-, and Photon-Based Activation Methods Possible reference: Juetten, KJ. et al. (2023) Top-Down Analysis of Supercharged Proteins Using Collision-, Electron-, and Photon-Based Activation Methods., J Am Soc Mass Spectrom, PMID 37358018PXD041485 Dataset with its publication pending (from jPOST) Dataset title: Proteomic characterization of aging-driven changes in the mouse brain by co-expression network analysis Possible reference: Tsumagari, K. et al. (2023) Proteomic characterization of aging-driven changes in the mouse brain by co-expression network analysis., Sci Rep, PMID 37875604PXD041452 Dataset with its publication pending (from PRIDE) Dataset title: Human - plasma extracellular vesicles from pSS patients, SLE patients and HD Possible reference: Ferrant, J. et al. (2023) Phenotypic and proteomic analysis of plasma extracellular vesicles highlights them as potential biomarkers of primary Sjgren syndrome., Front Immunol, PMID 37529039PXD041437 Dataset with its publication pending (from iProX) Dataset title: Quantitative proteomic detection of TMT labeling in cell samples based on LC-MS/MS Possible reference: Sandberg, A. et al. (2014) Quantitative accuracy in mass spectrometry based proteomics of complex samples: the impact of labeling and precursor interference., J Proteomics, PMID 24211767PXD041411 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of fatty liver induced by starvation of medaka fish larvae Possible reference: Ikeda, T. et al. (2023) Proteomic analysis of fatty liver induced by starvation of medaka fish larvae., Cell Struct Funct, PMID 37380437PXD041399 Dataset with its publication pending (from PRIDE) Dataset title: Ultrasensitive proteomics depicted an in-depth landscape for the very early stage of mouse maternal-to-zygotic transition Possible reference: Gu, L. et al. (2023) Ultrasensitive proteomics depicted an in-depth landscape for the very early stage of mouse maternal-to-zygotic transition., J Pharm Anal, PMID 37719194PXD041362 Dataset with its publication pending (from iProX) Dataset title: Human Pancreatic cancer sh-RUFY1 MIAPaCa-2 cell label-free quantification proteomics analysis Possible reference: Miao, X. et al. (2024) Systems pharmacodynamic model of combined gemcitabine and trabectedin in pancreatic cancer cells. Part I. Effects on signal transduction pathways related to tumor growth., J Pharm Sci, PMID 38498417PXD041359 Dataset with its publication pending (from PRIDE) Dataset title: Conformational restriction shapes the inhibition of a multidrug efflux adaptor protein Possible reference: Russell Lewis, B. et al. (2023) Conformational restriction shapes the inhibition of a multidrug efflux adaptor protein., Nat Commun, PMID 37463890PXD041355 Dataset with its publication pending (from PRIDE) Dataset title: Identification of an outer membrane protease of Rickettsia rickettsii responsible for maturation of surface exposed autotransporters Possible reference: Nock, AM. et al. (2023) Identification of an autotransporter peptidase of Rickettsia rickettsii responsible for maturation of surface exposed autotransporters., PLoS Pathog, PMID 37523399PXD041351 Dataset with its publication pending (from PRIDE) Dataset title: Adipocyte p53 coordinates the adipose tissue immune cell landscape upon intermittent fasting Possible reference: Reinisch, I. et al. (2024) Adipocyte p53 coordinates the response to intermittent fasting by regulating adipose tissue immune cell landscape., Nat Commun, PMID 38360943PXD041346 Dataset with its publication pending (from PRIDE) Dataset title: Cellular Validation of Chemically Improved Inhibitor Identifies Monoubiquitination on OTUB2 Possible reference: Gan, J. et al. (2023) Cellular Validation of a Chemically Improved Inhibitor Identifies Monoubiquitination on OTUB2., ACS Chem Biol, PMID 37642399PXD041345 Dataset with its publication pending (from jPOST) Dataset title: Cell type-specific proteomics uncovers a RAF15-SnRK2.6/OST1 kinase cascade in guard cells Possible reference: Wang, H. et al. (2023) Cell type-specific proteomics uncovers a RAF15-SnRK2.6/OST1 kinase cascade in guard cells., J Integr Plant Biol, PMID 37226855PXD041343 Dataset with its publication pending (from PRIDE) Dataset title: Targeted Profiling of Epitranscriptomic Reader, Writer and Eraser Proteins Regulated by H3K36me3 Possible reference: Yin, J. et al. (2023) Targeted Profiling of Epitranscriptomic Reader, Writer, and Eraser Proteins Regulated by H3K36me3., Anal Chem, PMID 37296074PXD041314 Dataset with its publication pending (from PRIDE) Dataset title: Assigning functionality to cysteines by base editing of cancer dependency genes Possible reference: Li, H. et al. (2023) Assigning functionality to cysteines by base editing of cancer dependency genes., Nat Chem Biol, PMID 37783940PXD041308 Dataset with its publication pending (from PRIDE) Dataset title: Plasma proteomic profiling of bacterial cold-water disease-resistant and -susceptible rainbow trout lines and biomarker discovery Possible reference: Wiens, GD. et al. (2023) Plasma proteomic profiling of bacterial cold water disease-resistant and -susceptible rainbow trout lines and biomarker discovery., Front Immunol, PMID 37928534PXD041301 Dataset with its publication pending (from PRIDE) Dataset title: The proteome of bacterial membrane vesicles in Escherichia coli - a time course comparison study in two different media Possible reference: Yu, MSC. et al. (2024) The proteome of bacterial membrane vesicles in Escherichia coli-a time course comparison study in two different media., Front Microbiol, PMID 38510998PXD041296 Dataset with its publication pending (from PRIDE) Dataset title: Functional viromic screens uncover regulatory RNA elements Possible reference: Seo, JJ. et al. (2023) Functional viromic screens uncover regulatory RNA elements., Cell, PMID 37413987PXD041295 Dataset with its publication pending (from jPOST) Dataset title: Rapid and Highly-Efficient Purification of Extracellular Vesicles Enabled by TiO2 hybridized Spongy-like Polymer Possible reference: Kanao, E. et al. (2023) Rapid and Highly Efficient Purification of Extracellular Vesicles Enabled by a TiO2 Hybridized Spongy-like Polymer., Anal Chem, PMID 37703188PXD041293 Dataset with its publication pending (from jPOST) Dataset title: The role of B4galt3 in tumor microenvironment Possible reference: Wei, H. et al. (2023) Beta-1,4-galactosyltransferase-3 deficiency suppresses the growth of immunogenic tumors in mice., Front Immunol, PMID 37901252PXD041287 Dataset with its publication pending (from iProX) Dataset title: Identification of key factors in cartilage tissue during the progression of osteoarthritis using a non-targeted metabolomics strategy Possible reference: Sun, S. et al. (2024) Identification of Key Factors in Cartilage Tissue During the Progression of Osteoarthritis Using a Non-targeted Metabolomics Strategy., Phenomics, PMID 39398425PXD041280 Dataset with its publication pending (from PRIDE) Dataset title: A conserved tryptophan in the acylated segment controls β2- integrin-independent cell penetration of RTX toxins Possible reference: Osickova, A. et al. (2023) A conserved tryptophan in the acylated segment of RTX toxins controls their β2 integrin-independent cell penetration., J Biol Chem, PMID 37390987PXD041240 Dataset with its publication pending (from PRIDE) Dataset title: A translational regulator MHZ9 modulates ethylene signaling in rice Possible reference: Huang, YH. et al. (2023) A translational regulator MHZ9 modulates ethylene signaling in rice., Nat Commun, PMID 37542048PXD041229 Dataset with its publication pending (from PRIDE) Dataset title: The genetic and dietary landscape of the muscle insulin signalling network Possible reference: van Gerwen, J. et al. (2024) The genetic and dietary landscape of the muscle insulin signalling network., Elife, PMID 38329473PXD041215 Dataset with its publication pending (from PRIDE) Dataset title: Changes in Protein Turn-over Rates Regulate Tryptophan and Glucosinolate Biosynthesis, IAA Transport and Photosynthesis in Arabidopsis Growth and Defense Transitions Possible reference: Abukhalaf, M. et al. (2023) Changing turn-over rates regulate abundance of tryptophan, GS biosynthesis, IAA transport and photosynthesis proteins in Arabidopsis growth defense transitions., BMC Biol, PMID 37940940PXD041202 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondria proteomics of murine kidney podocytes Possible reference: Qi, W. et al. (2017) Pyruvate kinase M2 activation may protect against the progression of diabetic glomerular pathology and mitochondrial dysfunction., Nat Med, PMID 28436957PXD041197 Dataset with its publication pending (from PRIDE) Dataset title: Mtfp1 ablation enhances respiration and protects against hepatic steatosis Possible reference: Patitucci, C. et al. (2023) Mtfp1 ablation enhances mitochondrial respiration and protects against hepatic steatosis., Nat Commun, PMID 38123539PXD041188 Dataset with its publication pending (from PRIDE) Dataset title: Mass spectrometry-based proteomic landscape of rice reveals a post-transcriptional regulatory role of N6-methyladenosine Possible reference: Li, ST. et al. (2024) Mass spectrometry-based proteomic landscape of rice reveals a post-transcriptional regulatory role of N6-methyladenosine., Nat Plants, PMID 38997433PXD041186 Dataset with its publication pending (from PRIDE) Dataset title: SAA1-dependent reprogramming of adipocytes by tumor cells is associated with triple negative breast cancer aggressiveness Possible reference: Rybinska, I. et al. (2024) SAA1-dependent reprogramming of adipocytes by tumor cells is associated with triple negative breast cancer aggressiveness., Int J Cancer, PMID 38289016PXD041163 Dataset with its publication pending (from PRIDE) Dataset title: Targeted proteomic quantitation of NRF2 signaling and predictive biomarkers in HNSCC Possible reference: Wamsley, NT. et al. (2023) Targeted Proteomic Quantitation of NRF2 Signaling and Predictive Biomarkers in HNSCC., Mol Cell Proteomics, PMID 37716475PXD041162 Dataset with its publication pending (from PRIDE) Dataset title: Targeted proteomic quantitation of NRF2 signaling and predictive biomarkers in HNSCC Possible reference: Wamsley, NT. et al. (2023) Targeted Proteomic Quantitation of NRF2 Signaling and Predictive Biomarkers in HNSCC., Mol Cell Proteomics, PMID 37716475PXD041151 Dataset with its publication pending (from PRIDE) Dataset title: Detection of Nâglycoprotein associated with IgA nephropathy in urine as a potential diagnostic biomarker using glycosylated proteomic analysis Possible reference: Liu, J. et al. (2023) Detection of N‑glycoprotein associated with IgA nephropathy in urine as a potential diagnostic biomarker using glycosylated proteomic analysis., Exp Ther Med, PMID 37753295PXD041149 Dataset with its publication pending (from iProX) Dataset title: Venom proteome of two egg parasitic wasps Possible reference: Nguyen, TT. et al. (2013) Early presence of an enolase in the oviposition injecta of the aphid parasitoid Aphidius ervi analyzed with chitosan beads as artificial hosts., J Insect Physiol, PMID 23201274PXD041146 Dataset with its publication pending (from iProX) Dataset title: Proteomic of human plasma and serum-derived EVs Possible reference: Espejo, C. et al. (2023) Early Cancer Biomarker Discovery Using DIA-MS Proteomic Analysis of EVs from Peripheral Blood., Methods Mol Biol, PMID 36781783PXD041130 no publication (from MassIVE) Dataset title: The intracellular helical bundle of human glucose transporter GLUT4 is of importance for complex formation with ASPL Possible reference: Huang, P. et al. (2023) The intracellular helical bundle of human glucose transporter GLUT4 is important for complex formation with ASPL., FEBS Open Bio, PMID 37731227PXD041118 Dataset with its publication pending (from jPOST) Dataset title: A One-pot Analytical Pipeline for Efficient and Sensitive Proteomic Analysis of Extracellular Vesicles Possible reference: Liu, YK. et al. (2023) One-Pot Analytical Pipeline for Efficient and Sensitive Proteomic Analysis of Extracellular Vesicles., J Proteome Res, PMID 37702715PXD041117 Dataset with its publication pending (from iProX) Dataset title: Venom proteome data of two egg parasitoids Possible reference: Nguyen, TT. et al. (2013) Early presence of an enolase in the oviposition injecta of the aphid parasitoid Aphidius ervi analyzed with chitosan beads as artificial hosts., J Insect Physiol, PMID 23201274PXD041110 Dataset with its publication pending (from PRIDE) Dataset title: Yolk-deprived Caenorhabditis elegans secure brood size at the expense of competitive fitness Possible reference: Geens, E. et al. (2023) Yolk-deprived Caenorhabditis elegans secure brood size at the expense of competitive fitness., Life Sci Alliance, PMID 37059473PXD041093 Dataset with its publication pending (from PRIDE) Dataset title: Cerebrospinal fluid proteomics in recent-onset Narcolepsy type 1 reveals activation of the complement system Possible reference: Ayoub, I. et al. (2023) Cerebrospinal fluid proteomics in recent-onset Narcolepsy type 1 reveals activation of the complement system., Front Immunol, PMID 37122721PXD041085 Dataset with its publication pending (from jPOST) Dataset title: Mapping adipocyte interactome networks by HaloTag-enrichment–mass spectrometry Possible reference: Yazaki, J. et al. (2024) Mapping adipocyte interactome networks by HaloTag-enrichment-mass spectrometry., Biol Methods Protoc, PMID 38884001PXD041069 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Landscape of Endoplasmic Reticulum Remodeling During Neurogenesis via Combinatorial Selective ER-phagy Possible reference: Hoyer, MJ. et al. (2023) Combinatorial selective ER-phagy remodels the ER during neurogenesis., bioRxiv, PMID 37425907PXD041046 Dataset with its publication pending (from PRIDE) Dataset title: SAPrIm, A Semi-Automated Protocol for mid-throughput Immunopeptidomics Possible reference: Lim Kam Sian, TCC. et al. (2023) SAPrIm, a semi-automated protocol for mid-throughput immunopeptidomics., Front Immunol, PMID 37334365PXD041040 Dataset with its publication pending (from PRIDE) Dataset title: A Treg specific long non-coding RNA maintains immune-metabolic homeostasis in ageing liver Possible reference: Ding, C. et al. (2023) A Treg-specific long noncoding RNA maintains immune-metabolic homeostasis in aging liver., Nat Aging, PMID 37277640PXD041039 no publication (from MassIVE) Dataset title: The role of N-glycosylation in spike antigenicity for the SARS-CoV-2 Gamma variant Possible reference: Aloor, A. et al. (2022) Glycosylation in SARS-CoV-2 variants: A path to infection and recovery., Biochem Pharmacol, PMID 36328134PXD041035 Dataset with its publication pending (from PRIDE) Dataset title: Identification and characterization of CC-AMP1-like and CC-AMP2-like peptides in Capsicum spp. Possible reference: Culver, KD. et al. (2024) Identification and Characterization of CC-AMP1-like and CC-AMP2-like Peptides in Capsicum spp., J Proteome Res, PMID 38367000PXD041022 Dataset with its publication pending (from jPOST) Dataset title: Ustilago maydis PR-1-like protein has evolved two distinct domains for dual virulence activities Possible reference: Lin, YH. et al. (2023) Ustilago maydis PR-1-like protein has evolved two distinct domains for dual virulence activities., Nat Commun, PMID 37716995PXD041013 no publication (from MassIVE) Dataset title: Comprehensive Characterization of Endogenous Phospholamban Proteoforms Enabled by Photocleavable Surfactant and Top-down Proteomics Possible reference: Rogers, HT. et al. (2023) Comprehensive Characterization of Endogenous Phospholamban Proteoforms Enabled by Photocleavable Surfactant and Top-down Proteomics., bioRxiv, PMID 37090578PXD041009 Dataset with its publication pending (from jPOST) Dataset title: Computational ranking-assisted identification of Plexin-B2 in homotypic and heterotypic clustering of circulating tumor cells in breast cancer Possible reference: Schuster, E. et al. (2023) Computational ranking-assisted identification of Plexin-B2 in homotypic and heterotypic clustering of circulating tumor cells in breast cancer metastasis., bioRxiv, PMID 37090580PXD041005 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic-based computational stratification of intermediate-risk prostate cancer patients. Possible reference: Zhong, Q. et al. (2024) Proteomic-based stratification of intermediate-risk prostate cancer patients., Life Sci Alliance, PMID 38052461PXD041000 Dataset with its publication pending (from jPOST) Dataset title: Application of peptide barcoding to obtain high-affinity anti-PD-1 nanobodies Possible reference: Miyazaki, T. et al. (2023) Application of peptide barcoding to obtain high-affinity anti-PD-1 nanobodies., J Biosci Bioeng, PMID 37487915PXD040995 no publication (from MassIVE) Dataset title: Arginine reprograms metabolism in liver cancer via RBM39 Possible reference: Mossmann, D. et al. (2023) Arginine reprograms metabolism in liver cancer via RBM39., Cell, PMID 37804830PXD040959 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of serum N-glycome in ovarian cancer by MALDI-MS Possible reference: Park, CW. et al. (2013) Enhancement of ovarian tumor classification by improved reproducibility in matrix-assisted laser desorption/ionization time-of-flight mass spectrometry of serum glycans., Anal Biochem, PMID 23969014PXD040957 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of immune cells from liver tumors reveals immunotherapy targets Possible reference: Yao, H. et al. (2018) Cancer Cell-Intrinsic PD-1 and Implications in Combinatorial Immunotherapy., Front Immunol, PMID 30105035PXD040953 Dataset with its publication pending (from PRIDE) Dataset title: UBR5 Forms Ligand-Dependent Complexes on Chromatin to Regulate Nuclear Hormone Receptor Stability Possible reference: Tsai, JM. et al. (2023) UBR5 forms ligand-dependent complexes on chromatin to regulate nuclear hormone receptor stability., Mol Cell, PMID 37478846PXD040948 Dataset with its publication pending (from PRIDE) Dataset title: The heme-responsive PrrH sRNA regulates Pseudomonas aeruginosa pyochelin gene expression Possible reference: Hoang, TM. et al. (2023) The heme-responsive PrrH sRNA regulates Pseudomonas aeruginosa pyochelin gene expression., bioRxiv, PMID 36712080PXD040947 Dataset with its publication pending (from PRIDE) Dataset title: Expanding the Characterization of Microbial Ecosystems using DIA-PASEF Metaproteomics Possible reference: Gmez-Varela, D. et al. (2023) Increasing taxonomic and functional characterization of host-microbiome interactions by DIA-PASEF metaproteomics., Front Microbiol, PMID 37908546PXD040941 Dataset with its publication pending (from PRIDE) Dataset title: Discovery of a Highly Potent and Selective HDAC3 and HDAC8 PROTAC Dual Degrader Possible reference: Xiao, Y. et al. (2024) Discovery of a Highly Potent and Selective HDAC8 Degrader: Advancing the Functional Understanding and Therapeutic Potential of HDAC8., J Med Chem, PMID 38949959PXD040935 Dataset with its publication pending (from PRIDE) Dataset title: Distinct microRNA and protein profiles of extracellular vesicles secreted from myotubes from morbidly obese donors with type 2 diabetes in response to electrical pulse stimulation Possible reference: Aas, V. et al. (2023) Distinct microRNA and protein profiles of extracellular vesicles secreted from myotubes from morbidly obese donors with type 2 diabetes in response to electrical pulse stimulation., Front Physiol, PMID 37064893PXD040918 Dataset with its publication pending (from PRIDE) Dataset title: Human limbal epithelial cell-derived exosomes cargo profile and their regulatory roles in limbal stromal cells in diabetic and non-diabetic cornea Possible reference: Verma, N. et al. (2023) MicroRNA and Protein Cargos of Human Limbal Epithelial Cell-Derived Exosomes and Their Regulatory Roles in Limbal Stromal Cells of Diabetic and Non-Diabetic Corneas., Cells, PMID 37947602PXD040915 Dataset with its publication pending (from PRIDE) Dataset title: Cytochrome c Lysine Acetylation Regulates Cellular Respiration and Cell Death in Ischemic Skeletal Muscle Possible reference: Morse, PT. et al. (2023) Cytochrome c lysine acetylation regulates cellular respiration and cell death in ischemic skeletal muscle., Nat Commun, PMID 37443314PXD040900 Dataset with its publication pending (from PRIDE) Dataset title: Initiation of fibronectin fibrillogenesis is an enzyme-dependent process Possible reference: Melamed, S. et al. (2023) Initiation of fibronectin fibrillogenesis is an enzyme-dependent process., Cell Rep, PMID 37148241PXD040882 Dataset with its publication pending (from jPOST) Dataset title: Cell cycle-dependent gene networks for cell proliferation activated by nuclear CK2 complexes Possible reference: Homma, MK. et al. (2024) Cell cycle-dependent gene networks for cell proliferation activated by nuclear CK2α complexes., Life Sci Alliance, PMID 37907238PXD040868 Dataset with its publication pending (from PRIDE) Dataset title: Resolving the temporal and spatial splenic proteome during fungal infection for putative dual perspective biomarker discovery Possible reference: Muselius, B. et al. (2023) Resolving the Temporal Splenic Proteome during Fungal Infection for Discovery of Putative Dual Perspective Biomarker Signatures., J Am Soc Mass Spectrom, PMID 37222660PXD040866 Dataset with its publication pending (from PRIDE) Dataset title: "Dissection of paracrine/autocrine interplay in lung tumor microenvironment mimicking cancer cell-monocyte co-culture models reveals proteins that promote inflammation and metastasis" Possible reference: Amin, A. et al. (2023) Dissection of paracrine/autocrine interplay in lung tumor microenvironment mimicking cancer cell-monocyte co-culture models reveals proteins that promote inflammation and metastasis., BMC Cancer, PMID 37784035PXD040858 Dataset with its publication pending (from PRIDE) Dataset title: A microfluidics-enabled automated workflow of sample preparation for MS-based immunopeptidomics Possible reference: Li, X. et al. (2023) A microfluidics-enabled automated workflow of sample preparation for MS-based immunopeptidomics., Cell Rep Methods, PMID 37426762PXD040852 Dataset with its publication pending (from PRIDE) Dataset title: Bacterial Secretion Systems Contribute to Rapid Tissue Decay in Button Mushroom Soft Rot Disease Possible reference: Wein, P. et al. (2023) Bacterial secretion systems contribute to rapid tissue decay in button mushroom soft rot disease., mBio, PMID 37486262PXD040847 Dataset with its publication pending (from PRIDE) Dataset title: Altered profile of glycosylated proteins in serum samples obtained from patients with Hashimoto′s thyroiditis following depletion of highly abundant proteins Possible reference: Xu, Y. et al. (2023) Altered profile of glycosylated proteins in serum samples obtained from patients with Hashimoto's thyroiditis following depletion of highly abundant proteins., Front Immunol, PMID 37457741PXD040825 Dataset with its publication pending (from PRIDE) Dataset title: Generation of zero-valent sulfur from dissimilatory sulfate reduction in sulfate-reducing microorganisms Possible reference: Fang, W. et al. (2020) Generation of zero valent sulfur from dissimilatory sulfate reduction under methanogenic conditions., J Hazard Mater, PMID 31541951PXD040824 Dataset with its publication pending (from PRIDE) Dataset title: Subcellular proteomics for determining iron limited remodeling of plastids in the model diatom Thalassiosira pseudonana Possible reference: Gomes, KM. et al. (2023) Subcellular proteomics for determining iron-limited remodeling of plastids in the model diatom Thalassiosira pseudonana (Bacillariophyta)., J Phycol, PMID 37615442PXD040822 no publication (from MassIVE) Dataset title: Dual domain recognition determines SARS-CoV-2 PLpro selectivity for human ISG15 and K48-linked di-ubiquitin Possible reference: Wydorski, PM. et al. (2023) Dual domain recognition determines SARS-CoV-2 PLpro selectivity for human ISG15 and K48-linked di-ubiquitin., bioRxiv, PMID 35547846PXD040819 Dataset with its publication pending (from PRIDE) Dataset title: Comparative analysis of proteomic adaptations in Enterococcus faecalis and Enterococcus faecium after long term bile acid exposure Possible reference: Dreyer, A. et al. (2024) Comparative analysis of proteomic adaptations in Enterococcus faecalis and Enterococcus faecium after long term bile acid exposure., BMC Microbiol, PMID 38570789PXD040818 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic mapping reveals dysregulated angiogenesis in the cerebral arteries of rats with early-onset hypertension Possible reference: Bastrup, JA. et al. (2023) Proteomic mapping reveals dysregulated angiogenesis in the cerebral arteries of rats with early-onset hypertension., J Biol Chem, PMID 37660920PXD040807 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profile in the diagnostics of portal hypertension in patients with compensated advanced liver disease Possible reference: Pastrovic, F. et al. (2024) Serum proteomic profiling of patients with compensated advanced chronic liver disease with and without clinically significant portal hypertension., PLoS One, PMID 38603681PXD040787 Dataset with its publication pending (from PRIDE) Dataset title: comparative phosphoproteomics uncover proteins from the mechanobiome in Entamoeba histolytica Possible reference: Jhingan, GD. et al. (2023) Live Cells Imaging and Comparative Phosphoproteomics Uncover Proteins from the Mechanobiome in Entamoeba histolytica., Int J Mol Sci, PMID 37240072PXD040783 Dataset with its publication pending (from PRIDE) Dataset title: The RBPome of influenza A virus mRNA reveals a role for TDP-43 in viral replication Possible reference: Dupont, M. et al. (2024) The RBPome of influenza A virus NP-mRNA reveals a role for TDP-43 in viral replication., Nucleic Acids Res, PMID 38686810PXD040769 Dataset with its publication pending (from PRIDE) Dataset title: Functional genomics identifies extension of complex N-glycans as a mechanism to evade lysis by natural killer cells Possible reference: Zhuang, X. et al. (2024) Functional genomics identifies N-acetyllactosamine extension of complex N-glycans as a mechanism to evade lysis by natural killer cells., Cell Rep, PMID 38619967PXD040767 Dataset with its publication pending (from jPOST) Dataset title: Proteome analysis to understand the promotive effects of safranal on soybean growth under salt stress Possible reference: Kausar, R. et al. (2024) Proteomic and molecular analyses to understand the promotive effect of safranal on soybean growth under salt stress., J Proteomics, PMID 38218428PXD040759 Dataset with its publication pending (from jPOST) Dataset title: Detection of bacteria neutral ceramidase in diabetic foot ulcers with optimized substrate and chemoenzymatic probes Possible reference: Zou, JX. et al. (2023) Detection of Bacterial Neutral Ceramidase in Diabetic Foot Ulcers with an Optimized Substrate and Chemoenzymatic Probes., Angew Chem Int Ed Engl, PMID 37340712PXD040756 Dataset with its publication pending (from jPOST) Dataset title: Proteomic Discovery and Array-Based Validation of Biomarkers from Urinary Exosome by Supramolecular Probe Possible reference: Feng, X. et al. (2023) Proteomic Discovery and Array-Based Validation of Biomarkers from Urinary Exosome by Supramolecular Probe., J Proteome Res, PMID 37126797PXD040755 Dataset with its publication pending (from jPOST) Dataset title: The Nα-acetyltransferase NAA50 mediates plant immunity independent of the NatA complex Possible reference: Armbruster, L. et al. (2024) Nα-acetyltransferase NAA50 mediates plant immunity independent of the Nα-acetyltransferase A complex., Plant Physiol, PMID 38588051PXD040754 Dataset with its publication pending (from PRIDE) Dataset title: Intact Transition Epitope Mapping – Serological Inspection by Epitope EXtraction (ITEM – SIX) Possible reference: Zammataro, A. et al. (2023) Intact Transition Epitope Mapping-Serological Inspection by Epitope EXtraction (ITEM-SIX)., Molecules, PMID 37049857PXD040750 Dataset with its publication pending (from iProX) Dataset title: Proteogenomic Landscape of Breast Ductal Carcinoma Reveals Tumor Progression Characteristics and Therapeutic Targets Possible reference: Xu, G. et al. (2024) Proteogenomic Landscape of Breast Ductal Carcinoma Reveals Tumor Progression Characteristics and Therapeutic Targets., Adv Sci (Weinh), PMID 39418072PXD040737 Dataset with its publication pending (from PRIDE) Dataset title: A solid-phase compatible silane-based cleavable linker enables custom isobaric quantitative chemoproteomics Possible reference: Burton, NR. et al. (2023) Solid-Phase Compatible Silane-Based Cleavable Linker Enables Custom Isobaric Quantitative Chemoproteomics., J Am Chem Soc, PMID 37738129PXD040721 Dataset with its publication pending (from PRIDE) Dataset title: Merging full-spectrum and fragment ion intensity predictions from deep learning for high quality spectral libraries Possible reference: Chan, CMJ. et al. (2023) Merging Full-Spectrum and Fragment Ion Intensity Predictions from Deep Learning for High-Quality Spectral Libraries., J Proteome Res, PMID 37910637PXD040718 Dataset with its publication pending (from PRIDE) Dataset title: N-linked glycosylation of the M-protein variable region: Glycoproteogenomics reveals a new layer of personalized complexity in multiple myeloma. Possible reference: Langerhorst, P. et al. (2024) N-linked glycosylation of the M-protein variable region: glycoproteogenomics reveals a new layer of personalized complexity in multiple myeloma., Clin Chem Lab Med, PMID 38332688PXD040716 Dataset with its publication pending (from PRIDE) Dataset title: The GlycoPaSER prototype as a real-time N-glycopeptide identification tool based on the PaSER parallel computing platform Possible reference: Armony, G. et al. (2023) The GlycoPaSER Prototype as a Real-Time N-Glycopeptide Identification Tool Based on the PaSER Parallel Computing Platform., Int J Mol Sci, PMID 37175577PXD040715 Dataset with its publication pending (from PRIDE) Dataset title: Repertoire and abundance of secreted virulence factors shape the pathogenic capacity of Pseudomonas syringae pv. aptata Possible reference: Nikolić, I. et al. (2023) Repertoire and abundance of secreted virulence factors shape the pathogenic capacity of Pseudomonas syringae pv. aptata., Front Microbiol, PMID 37383635PXD040703 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of circulating immune cells identifies novel cellular phenotypes associated with COVID-19 severity Possible reference: Yang, Z. et al. (2022) Genetic Landscape of the ACE2 Coronavirus Receptor., Circulation, PMID 35387486PXD040696 Dataset with its publication pending (from PRIDE) Dataset title: A solid-phase compatible silane-based cleavable linker enables custom isobaric quantitative chemoproteomics Possible reference: Burton, NR. et al. (2023) Solid-Phase Compatible Silane-Based Cleavable Linker Enables Custom Isobaric Quantitative Chemoproteomics., J Am Chem Soc, PMID 37738129PXD040693 no publication (from MassIVE) Dataset title: An N-acetyltransferase required for N-terminal protein acetylation and virulence in Mycobacterium marinum Possible reference: Collars, OA. et al. (2023) An N-acetyltransferase required for EsxA N-terminal protein acetylation and virulence in Mycobacterium marinum., bioRxiv, PMID 36993388PXD040683 Dataset with its publication pending (from PRIDE) Dataset title: Immunometabolic interference between cancer and COVID-19 Possible reference: Sica, A. et al. (2020) Immunometabolic Status of COVID-19 Cancer Patients., Physiol Rev, PMID 32721181PXD040676 Dataset with its publication pending (from PRIDE) Dataset title: PDHE1α, PARylation, Acetyl-CoA, Acetylation, Histones, DNA damage repair Possible reference: Zhang, J. et al. (2023) PARylated PDHE1α generates acetyl-CoA for local chromatin acetylation and DNA damage repair., Nat Struct Mol Biol, PMID 37735618PXD040670 no publication (from MassIVE) Dataset title: Arabidopsis thaliana responses to LCO and Th17 under drought stress Possible reference: Subramanian, S. et al. (2023) Lipo-chitooligosaccharide and thuricin 17 act as plant growth promoters and alleviate drought stress in Arabidopsis thaliana., Front Microbiol, PMID 37601342PXD040668 Dataset with its publication pending (from PRIDE) Dataset title: ITK Degradation to Block T-cell Receptor Signaling and Overcome Therapeutic Resistance in T-Cell Lymphomas Possible reference: Jiang, B. et al. (2023) ITK degradation to block Tcell receptor signaling and overcome therapeutic resistance in Tcell lymphomas., Cell Chem Biol, PMID 37015223PXD040666 Dataset with its publication pending (from PRIDE) Dataset title: The effect of cannabinoid receptor agonists on triple-negative breast cancer cell line (MDA-MB-231) Possible reference: Younes, M. et al. (2024) The molecular anti-metastatic potential of CBD and THC from Lebanese Cannabis via apoptosis induction and alterations in autophagy., Sci Rep, PMID 39463375PXD040658 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of the Cellular Proteome and Phosphoproteome of Klebsiella pneumoniae under Iron Limited and Iron Replete Conditions Possible reference: Reitzel, C. et al. (2023) Profiling of the Klebsiella pneumoniae Phosphoproteome under Iron-Limited and Iron-Replete Conditions., Microbiol Resour Announc, PMID 37358437PXD040655 no publication (from MassIVE) Dataset title: Methionine stress induces ferroptosis in methionine dependent cancer cells Possible reference: Floros, KV. et al. (2022) MYCN upregulates the transsulfuration pathway to suppress the ferroptotic vulnerability in MYCN-amplified neuroblastoma., Cell Stress, PMID 35174317PXD040652 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Analysis of Neural Stem Cell to Oligodendrocyte Precursor Cell Differentiation Reveals Phosphorylation-Dependent Dclk1 Processing Possible reference: Hardt, R. et al. (2023) Proteomic investigation of neural stem cell to oligodendrocyte precursor cell differentiation reveals phosphorylation-dependent Dclk1 processing., Cell Mol Life Sci, PMID 37594553PXD040651 Dataset with its publication pending (from PRIDE) Dataset title: PRAME and CTCFL-reactive TCRs for the treatment of ovarian cancer Possible reference: van Amerongen, RA. et al. (2023) PRAME and CTCFL-reactive TCRs for the treatment of ovarian cancer., Front Immunol, PMID 37026005PXD040624 no publication (from MassIVE) Dataset title: Integrative systems biology characterizes immune-mediated neurodevelopmental changes in murine Zika Virus microcephaly Possible reference: Fujimura, K. et al. (2023) Integrative systems biology characterizes immune-mediated neurodevelopmental changes in murine Zika virus microcephaly., iScience, PMID 37332674PXD040584 Dataset with its publication pending (from PRIDE) Dataset title: Boundary of Life and Death: changes in mitochondrial and cytosolic proteomes of Arabidopsis thaliana suspension cells associated with programmed cell death Possible reference: Schwarze, J. et al. (2023) The boundary of life and death: changes in mitochondrial and cytosolic proteomes associated with programmed cell death of Arabidopsis thaliana suspension culture cells., Front Plant Sci, PMID 37593044PXD040579 Dataset with its publication pending (from PRIDE) Dataset title: Evidence of a role for CutRS and actinorhodin in the secretion stress response in Streptomyces coelicolor M145 Possible reference: McLean, TC. et al. (2023) Evidence of a role for CutRS and actinorhodin in the secretion stress response in Streptomyces coelicolor M145., Microbiology (Reading), PMID 37418299PXD040563 Dataset with its publication pending (from jPOST) Dataset title: Mass spectrometric analysis of purified megalin Possible reference: Lee, A. et al. (2015) Chloride channel ClC-5 binds to aspartyl aminopeptidase to regulate renal albumin endocytosis., Am J Physiol Renal Physiol, PMID 25587118PXD040555 no publication (from MassIVE) Dataset title: Proteomes Reveal Robust Metabolic Capabilities of Yarrowia lipolytica for Biological Upcycling of Polyethylene into High-Value Chemicals Possible reference: Walker, C. et al. (2023) Proteomes reveal metabolic capabilities of Yarrowia lipolytica for biological upcycling of polyethylene into high-value chemicals., mSystems, PMID 37882587PXD040535 no publication (from MassIVE) Dataset title: The HLA class-I immunopeptidomes of AAV capsid proteins Possible reference: Brito-Sierra, CA. et al. (2023) The HLA class I immunopeptidomes of AAV capsid proteins., Front Immunol, PMID 37662941PXD040534 no publication (from MassIVE) Dataset title: Global analysis of post-translational sidechain arginylation using pan-arginylation antibodies Possible reference: MacTaggart, B. et al. (2023) Global Analysis of Post-Translational Side-Chain Arginylation Using Pan-Arginylation Antibodies., Mol Cell Proteomics, PMID 37832787PXD040524 Dataset with its publication pending (from PRIDE) Dataset title: Pooled CRISPR Screening Identifies P-Bodies as Repressors of Cancer Epithelial-Mesenchymal Transition Possible reference: Fang, L. et al. (2024) Pooled CRISPR Screening Identifies P-Bodies as Repressors of Cancer Epithelial-Mesenchymal Transition., Cancer Res, PMID 38190710PXD040521 Dataset with its publication pending (from PRIDE) Dataset title: Succinylation in pseudorabies virus infection Possible reference: Chen, X. et al. (2023) Role of Succinylation in Pseudorabies Virus Infection., J Virol, PMID 36975827PXD040513 Dataset with its publication pending (from iProX) Dataset title: Analysis of proteins interacting with LSM14B Possible reference: Li, H. et al. (2023) LSM14B is an Oocyte-Specific RNA-Binding Protein Indispensable for Maternal mRNA Metabolism and Oocyte Development in Mice., Adv Sci (Weinh), PMID 37083226PXD040509 Dataset with its publication pending (from iProX) Dataset title: Proteomics data of Fusobacterium nucleatum outer membrane vesicles Possible reference: Liu, J. et al. (2019) Proteomic characterization of outer membrane vesicles from gut mucosa-derived fusobacterium nucleatum., J Proteomics, PMID 30634002PXD040506 Dataset with its publication pending (from PRIDE) Dataset title: Salicylic acid treatment and its effect on seed yield and seed molecular composition of Pisum sativum under abiotic stress Possible reference: Berkov, V. et al. (2023) Salicylic Acid Treatment and Its Effect on Seed Yield and Seed Molecular Composition of Pisum sativum under Abiotic Stress., Int J Mol Sci, PMID 36982529PXD040505 Dataset with its publication pending (from PRIDE) Dataset title: Initiation of fibronectin fibrillogenesis is an enzyme-dependent process Possible reference: Melamed, S. et al. (2023) Initiation of fibronectin fibrillogenesis is an enzyme-dependent process., Cell Rep, PMID 37148241PXD040502 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial mechanotransduction through MIEF1 coordinates the nuclear response to forces Possible reference: Romani, P. et al. (2024) Mitochondrial mechanotransduction through MIEF1 coordinates the nuclear response to forces., Nat Cell Biol, PMID 39433949PXD040469 Dataset with its publication pending (from jPOST) Dataset title: ATR phosphoproteomics screening using berzosertib and gartisertib Possible reference: Jadav, R. et al. (2024) Chemo-Phosphoproteomic Profiling with ATR Inhibitors Berzosertib and Gartisertib Uncovers New Biomarkers and DNA Damage Response Regulators., Mol Cell Proteomics, PMID 38880245PXD040467 Dataset with its publication pending (from PRIDE) Dataset title: Metabolic influence of core ciliates within the rumen microbiome Possible reference: Andersen, TO. et al. (2023) Metabolic influence of core ciliates within the rumen microbiome., ISME J, PMID 37169869PXD040459 Dataset with its publication pending (from PRIDE) Dataset title: Development of multifunctional synthetic nucleosomes Possible reference: Liu, Z. et al. (2023) Development of multifunctional synthetic nucleosomes to interrogate chromatin-mediated protein interactions., Sci Adv, PMID 37134166PXD040458 Dataset with its publication pending (from PRIDE) Dataset title: Photophthora sojae extracellular vesicles proteins Possible reference: Li, D. et al. (2013) PsVPS1, a dynamin-related protein, is involved in cyst germination and soybean infection of Phytophthora sojae., PLoS One, PMID 23516518PXD040456 Dataset with its publication pending (from PRIDE) Dataset title: mRNA 3’UTR lengthening by alternative polyadenylation attenuates inflammatory responses and correlates with virulence of Influenza A virus Possible reference: Bergant, V. et al. (2023) mRNA 3'UTR lengthening by alternative polyadenylation attenuates inflammatory responses and correlates with virulence of Influenza A virus., Nat Commun, PMID 37582777PXD040436 Dataset with its publication pending (from PRIDE) Dataset title: TIMP1 mediates astrocyte-dependent local immunosuppression in brain metastasis acting on infiltrating CD8+ T cells. Possible reference: Priego, N. et al. (2024) TIMP1 mediates astrocyte-dependent local immunosuppression in brain metastasis acting on infiltrating CD8+ T cells., Cancer Discov, PMID 39354883PXD040435 Dataset with its publication pending (from PRIDE) Dataset title: The Plant Unique ESCRT Component FREE1 Regulates Autophagosome Closure Possible reference: Zeng, Y. et al. (2023) The plant unique ESCRT component FREE1 regulates autophagosome closure., Nat Commun, PMID 36997511PXD040434 Dataset with its publication pending (from PRIDE) Dataset title: Human adipose tissue proteomics reveal adaptations to exercise and type 2 diabetes Possible reference: Schering, L. et al. (2015) Identification of novel putative adipomyokines by a cross-species annotation of secretomes and expression profiles., Arch Physiol Biochem, PMID 26599229PXD040430 Dataset with its publication pending (from PRIDE) Dataset title: A HUWE1 defect causes PARP inhibitor resistance by modulating the BRCA1-â11q splice variant Possible reference: Pettitt, SJ. et al. (2023) A HUWE1 defect causes PARP inhibitor resistance by modulating the BRCA1-∆11q splice variant., Oncogene, PMID 37491606PXD040428 Dataset with its publication pending (from PRIDE) Dataset title: UNC-45 assisted myosin folding depends on a conserved FX3HY motif implicated in Freeman Sheldon Syndrome Possible reference: Vogel, A. et al. (2024) UNC-45 assisted myosin folding depends on a conserved FX3HY motif implicated in Freeman Sheldon Syndrome., Nat Commun, PMID 39054317PXD040416 Dataset with its publication pending (from jPOST) Dataset title: Deregulated transcription and proteostasis in adult mapt knockout mice Possible reference: Andrs-Benito, P. et al. (2023) Deregulated Transcription and Proteostasis in Adult mapt Knockout Mouse., Int J Mol Sci, PMID 37047532PXD040412 Dataset with its publication pending (from PRIDE) Dataset title: Drosophila brain O-GlcNAc proteome Possible reference: Yu, H. et al. (2024) Tissue-specific O-GlcNAcylation profiling identifies substrates in translational machinery in Drosophila mushroom body contributing to olfactory learning., Elife, PMID 38619103PXD040409 Dataset with its publication pending (from iProX) Dataset title: BmATAD3A mediates mitochondrial ribosomal protein expression to maintain the mitochondrial energy metabolism of the silkworm Bombyx mori Possible reference: Dong, Z. et al. (2024) BmATAD3A mediates mitochondrial ribosomal protein expression to maintain the mitochondrial energy metabolism of the silkworm, Bombyx mori., Insect Sci, PMID 38616538PXD040398 Dataset with its publication pending (from PRIDE) Dataset title: Towards unravelling biological mechanisms behind radiation-induced oral mucositis via mass spectrometry-based proteomics Possible reference: Subedi, P. et al. (2023) Towards unravelling biological mechanisms behind radiation-induced oral mucositis via mass spectrometry-based proteomics., Front Oncol, PMID 37384298PXD040351 Dataset with its publication pending (from PRIDE) Dataset title: HELZ2: a new, interferon-regulated, human 3’-5’ exoribonuclease of the RNB family is expressed from a non-canonical initiation codon Possible reference: Huntzinger, E. et al. (2023) HELZ2: a new, interferon-regulated, human 3'-5' exoribonuclease of the RNB family is expressed from a non-canonical initiation codon., Nucleic Acids Res, PMID 37602378PXD040350 Dataset with its publication pending (from PRIDE) Dataset title: Sts2, a transcriptional activator effector of Ustilago maydis, regulates hyperplasia in maize during pathogen-induced tumor formation Possible reference: Zuo, W. et al. (2023) A transcriptional activator effector of Ustilago maydis regulates hyperplasia in maize during pathogen-induced tumor formation., Nat Commun, PMID 37872143PXD040338 Dataset with its publication pending (from PRIDE) Dataset title: A farnesyl-dependent structural role for CENP-E in expansion of the fibrous corona Possible reference: Wu, J. et al. (2024) A farnesyl-dependent structural role for CENP-E in expansion of the fibrous corona., J Cell Biol, PMID 37934467PXD040329 Dataset with its publication pending (from PRIDE) Dataset title: The mode of action of antimicrobial agents albofungins in eradicating penicillins and cephalosporins-resistant Vibrio parahaemolyticus biofilm Possible reference: She, W. et al. (2023) Mode of action of antimicrobial agents albofungins in eradicating penicillin- and cephalosporin-resistant Vibrio parahaemolyticus biofilm., Microbiol Spectr, PMID 37610246PXD040325 Dataset with its publication pending (from jPOST) Dataset title: Proteome analysis of Nicotiana tabacum cells following isonitrosoacetophenone treatment reveals defence-related responses associated with priming Possible reference: da Camara, N. et al. (2023) Proteome Analysis of Nicotiana tabacum Cells following Isonitrosoacetophenone Treatment Reveals Defence-Related Responses Associated with Priming., Plants (Basel), PMID 36903995PXD040314 Dataset with its publication pending (from jPOST) Dataset title: Destabilization of atherosclerotic plaque by bilirubin deficiency Possible reference: Chen, W. et al. (2023) Destabilization of Atherosclerotic Plaque by Bilirubin Deficiency., Circ Res, PMID 36876485PXD040312 no publication (from MassIVE) Dataset title: Acute ACAT1/SOAT1 blockade increases MAM cholesterol and strengthens ER-mitochondria connectivity Possible reference: Harned, TC. et al. (2023) Acute ACAT1/SOAT1 Blockade Increases MAM Cholesterol and Strengthens ER-Mitochondria Connectivity., Int J Mol Sci, PMID 36982602PXD040302 Dataset with its publication pending (from PRIDE) Dataset title: Control of TurboID-dependent biotinylation intensity in proximity ligation screens Possible reference: Garloff, V. et al. (2023) Control of TurboID-dependent biotinylation intensity in proximity ligation screens., J Proteomics, PMID 36966971PXD040299 Dataset with its publication pending (from iProX) Dataset title: Proteomics and metabolomics analysis of nasal lavage fluid in chronic rhinosinusitis with nasal polyps Possible reference: Yang, Y. et al. (2023) Proteomics and metabolomics analysis of nasal lavage fluid in chronic rhinosinusitis with nasal polyps., Int Forum Allergy Rhinol, PMID 36898695PXD040288 Dataset with its publication pending (from PRIDE) Dataset title: Insulin reverses impaired alveolar fluid clearance in ARDS by inhibiting LPS-induced autophagy and inflammatory Possible reference: Wen, XP. et al. (2023) Insulin reverses impaired alveolar fluid clearance in ARDS by inhibiting LPS-induced autophagy and inflammatory., Front Immunol, PMID 37654494PXD040275 Dataset with its publication pending (from PRIDE) Dataset title: Therapeutic TNF Inhibitors Exhibit Differential Levels of Efficacy in Accelerating Cutaneous Wound Healing Possible reference: Cao, Y. et al. (2024) Therapeutic TNF Inhibitors Exhibit Differential Levels of Efficacy in Accelerating Cutaneous Wound Healing., JID Innov, PMID 38226320PXD040269 Dataset with its publication pending (from PRIDE) Dataset title: Host innate immune responses and microbiome profile of neonatal calves challenged with Cryptosporidium parvum and the effect of bovine colostrum supplementation Possible reference: Gamsjger, L. et al. (2023) Host innate immune responses and microbiome profile of neonatal calves challenged with Cryptosporidium parvum and the effect of bovine colostrum supplementation., Front Cell Infect Microbiol, PMID 37207189PXD040262 Dataset with its publication pending (from PRIDE) Dataset title: A Spatiotemporal Map of Co-Receptor Signaling Networks Underlying B Cell Activation Possible reference: Susa, KJ. et al. (2023) A Spatiotemporal Map of Co-Receptor Signaling Networks Underlying B Cell Activation., bioRxiv, PMID 36993395PXD040260 Dataset with its publication pending (from iProX) Dataset title: Two C4 variants are translated during virus infection Possible reference: Hipp, K. et al. (2016) Translation, modification and cellular distribution of two AC4 variants of African cassava mosaic virus in yeast and their pathogenic potential in plants., Virology, PMID 27584591PXD040256 Dataset with its publication pending (from iProX) Dataset title: Identification of maize xylem sap Possible reference: Constantino, NN. et al. (2013) Root-expressed maize lipoxygenase 3 negatively regulates induced systemic resistance to Colletotrichum graminicola in shoots., Front Plant Sci, PMID 24391653PXD040229 Dataset with its publication pending (from PRIDE) Dataset title: MiRNA 3’ ends shorten during adolescent brain maturation Possible reference: Thomas, KT. et al. (2023) MicroRNA 3' ends shorten during adolescent brain maturation., Front Mol Neurosci, PMID 37122627PXD040227 Dataset with its publication pending (from PRIDE) Dataset title: Membranes prime the RapGEF EPAC1 to transduce cAMP signaling Possible reference: Sartre, C. et al. (2023) Membranes prime the RapGEF EPAC1 to transduce cAMP signaling., Nat Commun, PMID 37438343PXD040220 Dataset with its publication pending (from PRIDE) Dataset title: HA-GABARAPL1 immunoprecipitation with siRNA-mediated NPM1 depletion Possible reference: Song, J. et al. (2021) Nucleolar Phosphoprotein NPM1 Interacts With Porcine Circovirus Type 3 Cap Protein and Facilitates Viral Replication., Front Microbiol, PMID 34113334PXD040217 Dataset with its publication pending (from jPOST) Dataset title: phosphopeptides from primary microglia Possible reference: Viengkhou, B. et al. (2021) A novel phosphoproteomic landscape evoked in response to type I interferon in the brain and in glial cells., J Neuroinflammation, PMID 34656141PXD040213 Dataset with its publication pending (from PRIDE) Dataset title: Geometric morphometrics and paleoproteomics enlighten the paleodiversity of Pongo Possible reference: Kubat, J. et al. (2023) Geometric morphometrics and paleoproteomics enlighten the paleodiversity of Pongo., PLoS One, PMID 38100471PXD040212 Dataset with its publication pending (from PRIDE) Dataset title: Mapping the Binding Interactions Between human Gasdermin D and human Caspase-1 Using Carbene Footprinting Possible reference: Lloyd, JR. et al. (2023) Mapping the Binding Interactions between Human Gasdermin D and Human Caspase-1 Using Carbene Footprinting., JACS Au, PMID 37502151PXD040207 Dataset with its publication pending (from PRIDE) Dataset title: Cell type-specific control of secondary cell wall formation by Musashi-type translational regulators in Arabidopsis Possible reference: Kairouani, A. et al. (2023) Cell-type-specific control of secondary cell wall formation by Musashi-type translational regulators in Arabidopsis., Elife, PMID 37773033PXD040202 Dataset with its publication pending (from PRIDE) Dataset title: Norbergenin prevents LPS-induced inflammatory responses in macrophages through inhibiting NFκB, MAPK and STAT3 activation, and blocking metabolic reprogramming Possible reference: Li, W. et al. (2023) Norbergenin prevents LPS-induced inflammatory responses in macrophages through inhibiting NFκB, MAPK and STAT3 activation and blocking metabolic reprogramming., Front Immunol, PMID 37251401PXD040191 Dataset with its publication pending (from PRIDE) Dataset title: A Lysosome membrane regeneration pathway depends on TBC1D15 and autophagic lysosomal reformation proteins Possible reference: Bhattacharya, A. et al. (2023) A lysosome membrane regeneration pathway depends on TBC1D15 and autophagic lysosomal reformation proteins., Nat Cell Biol, PMID 37024685PXD040166 Dataset with its publication pending (from PRIDE) Dataset title: STAT5b is a key effector of NRG-1/ERBB4-mediated cardiomyocyte growth Possible reference: Vaparanta, K. et al. (2023) STAT5b is a key effector of NRG-1/ERBB4-mediated myocardial growth., EMBO Rep, PMID 37009825PXD040161 Dataset with its publication pending (from PRIDE) Dataset title: Rescue of Escherichia coli auxotrophy by de novo small proteins Possible reference: Babina, AM. et al. (2023) Rescue of Escherichia coli auxotrophy by de novo small proteins., Elife, PMID 36920032PXD040155 Dataset with its publication pending (from PRIDE) Dataset title: A novel antifolate suppresses growth of FPGS-deficient cells and overcomes methotrexate resistance Possible reference: van der Krift, F. et al. (2023) A novel antifolate suppresses growth of FPGS-deficient cells and overcomes methotrexate resistance., Life Sci Alliance, PMID 37591722PXD040141 Dataset with its publication pending (from PRIDE) Dataset title: Dopamine transporter and synaptic vesicle sorting defects underlie auxilin-associated Parkinson’s disease Possible reference: Vidyadhara, DJ. et al. (2023) Dopamine transporter and synaptic vesicle sorting defects underlie auxilin-associated Parkinson's disease., Cell Rep, PMID 36920906PXD040128 no publication (from MassIVE) Dataset title: A contractile injection system is required for developmentally regulated cell death in Streptomyces coelicolor Possible reference: Vladimirov, M. et al. (2023) A contractile injection system is required for developmentally regulated cell death in Streptomyces coelicolor., Nat Commun, PMID 36927736PXD040126 no publication (from MassIVE) Dataset title: FTD-tau S320F mutation stabilizes local structure and allosterically promotes amyloid motif-dependent aggregation Possible reference: Chen, D. et al. (2023) FTD-tau S320F mutation stabilizes local structure and allosterically promotes amyloid motif-dependent aggregation., Nat Commun, PMID 36959205PXD040124 Dataset with its publication pending (from jPOST) Dataset title: Preeclampsia and offspring neurodevelopment Possible reference: Al Wattar, BH. et al. (2017) Development of a core outcome set for epilepsy in pregnancy (E-CORE): a national multi-stakeholder modified Delphi consensus study., BJOG, PMID 27860117PXD040115 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics coupled with AhR-reporter gene bioassay for human and environmental safety assessment of sewage sludge and hydrochar Possible reference: Landi, C. et al. (2023) Proteomics coupled with AhR-reporter gene bioassay for human and environmental safety assessment of sewage sludge and hydrochar., Sci Total Environ, PMID 37277040PXD040114 no publication (from MassIVE) Dataset title: Endothelial FAT1 inhibits angiogenesis by controlling YAP/TAZ protein degradation via E3 ligase MIB2 Possible reference: Li, R. et al. (2023) Endothelial FAT1 inhibits angiogenesis by controlling YAP/TAZ protein degradation via E3 ligase MIB2., Nat Commun, PMID 37031213PXD040079 Dataset with its publication pending (from iProX) Dataset title: sRNA SNC137 regulation in Sphingomonas melonis TY Possible reference: Wang, X. et al. (2024) sRNA molecules participate in hyperosmotic stress response regulation in Sphingomonas melonis TY., Appl Environ Microbiol, PMID 38289134PXD040040 Dataset with its publication pending (from PRIDE) Dataset title: SWATH proteomics analysis of pig liver microsomes Possible reference: Popescu, RG. et al. (2023) Natural Antioxidant By-Product Mixture Counteracts the Effects of Aflatoxin B1 and Ochratoxin A Exposure of Piglets after Weaning: A Proteomic Survey on Liver Microsomal Fraction., Toxins (Basel), PMID 37104237PXD040026 Dataset with its publication pending (from PRIDE) Dataset title: APP/PS1 Mouse Brain Effects of ADAM17 Possible reference: Yao, XQ. et al. (2015) p75NTR ectodomain is a physiological neuroprotective molecule against amyloid-beta toxicity in the brain of Alzheimer's disease., Mol Psychiatry, PMID 25917367PXD040008 no publication (from MassIVE) Dataset title: Overexpression of the citrate transporters SLC13A5 and SLC25A1 in the mouse elicit different metabolic responses and phenotypes Possible reference: Fernandez-Fuente, G. et al. (2023) The citrate transporters SLC13A5 and SLC25A1 elicit different metabolic responses and phenotypes in the mouse., Commun Biol, PMID 37689798PXD039995 Dataset with its publication pending (from PRIDE) Dataset title: A combinatorial approach to uncover an additional Integrator subunit Possible reference: Offley, SR. et al. (2023) A combinatorial approach to uncover an additional Integrator subunit., Cell Rep, PMID 36920904PXD039993 Dataset with its publication pending (from PRIDE) Dataset title: Charge site manipulation to enhance top-down fragmentation efficiency Possible reference: Habeck, T. et al. (2024) Charge site manipulation to enhance top-down fragmentation efficiency., Proteomics, PMID 37043727PXD039991 Dataset with its publication pending (from PRIDE) Dataset title: The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation. Possible reference: Li, Z. et al. (2023) The MOM1 complex recruits the RdDM machinery via MORC6 to establish de novo DNA methylation., bioRxiv, PMID 36711532PXD039969 no publication (from MassIVE) Dataset title: Proteome-Wide Identification of RNA-Dependent Proteins: An Emerging Role of RNAs in Plasmodium falciparum Protein Complexes Possible reference: Hollin, T. et al. (2024) Proteome-Wide Identification of RNA-dependent proteins and an emerging role for RNAs in Plasmodium falciparum protein complexes., Nat Commun, PMID 38355719PXD039950 no publication (from MassIVE) Dataset title: Osteopontin depletion in macrophages perturbs proteostasis via regulation of UCHL1-UPS pathway and activation of mitochondria-mediated apoptosis Possible reference: Rentsendorj, A. et al. (2023) Osteopontin depletion in macrophages perturbs proteostasis via regulating UCHL1-UPS axis and mitochondria-mediated apoptosis., Front Immunol, PMID 37325640PXD039932 no publication (from MassIVE) Dataset title: Vibrio natriegens genome-scale metabolic modelling (GSMM) reveals insights into halophilic adaptations and resource allocation Possible reference: Coppens, L. et al. (2023) Vibrio natriegens genome-scale modeling reveals insights into halophilic adaptations and resource allocation., Mol Syst Biol, PMID 36847213PXD039931 Dataset with its publication pending (from PRIDE) Dataset title: Solid Phase Synthesis of Fluorosulfate Containing Macrocycles for Chemoproteomic Workflows Possible reference: Faucher, FF. et al. (2023) Solid Phase Synthesis of Fluorosulfate Containing Macrocycles for Chemoproteomic Workflows., bioRxiv, PMID 36824748PXD039928 Dataset with its publication pending (from PRIDE) Dataset title: Short-term UVB irradiation leads to persistent DNA damage in limbal epithelial stem cells, partially reversed by DNA repairing enzymes Possible reference: Volatier, T. et al. (2023) Short-Term UVB Irradiation Leads to Persistent DNA Damage in Limbal Epithelial Stem Cells, Partially Reversed by DNA Repairing Enzymes., Biology (Basel), PMID 36829542PXD039927 Dataset with its publication pending (from PRIDE) Dataset title: Composition of the mitoribosome of Diplonema papillatum Possible reference: Valach, M. et al. (2023) Miniature RNAs are embedded in an exceptionally protein-rich mitoribosome via an elaborate assembly pathway., Nucleic Acids Res, PMID 37207340PXD039924 Dataset with its publication pending (from PRIDE) Dataset title: Chemoproteomics-Enabled Discovery of a Covalent Molecular Glue Degrader Possible reference: King, EA. et al. (2023) Chemoproteomics-enabled discovery of a covalent molecular glue degrader targeting NF-κB., Cell Chem Biol, PMID 36898369PXD039915 Dataset with its publication pending (from PRIDE) Dataset title: The direct effect of mycophenolate mofetil on podocytes in nephrotoxic serum nephritis Possible reference: Hackl, A. et al. (2023) The effect of mycophenolate mofetil on podocytes in nephrotoxic serum nephritis., Sci Rep, PMID 37644089PXD039913 Dataset with its publication pending (from jPOST) Dataset title: Serum proteome of dogs with precursor-targeted immune-mediated anemia before and after splenectomy Possible reference: Sugawara-Suda, M. et al. (2023) Transcriptome and proteome analysis of dogs with precursor targeted immune-mediated anemia treated with splenectomy., PLoS One, PMID 37146011PXD039910 Dataset with its publication pending (from iProX) Dataset title: Hepatic Glucuronyl C5-epimerase combats obesity via stabilizing GDF15 Possible reference: He, F. et al. (2023) Hepatic glucuronyl C5-epimerase combats obesity by stabilising GDF15., J Hepatol, PMID 37217020PXD039908 Dataset with its publication pending (from iProX) Dataset title: Nucleophilic covalent ligand discovery for the cysteine redoxome Possible reference: Gupta, V. et al. (2017) Diverse Redoxome Reactivity Profiles of Carbon Nucleophiles., J Am Chem Soc, PMID 28355876PXD039903 no publication (from MassIVE) Dataset title: Distinctive Interactomes of RNA polymerase II phosphorylation during different stages of transcription Possible reference: Nemec, CM. et al. (2017) Different phosphoisoforms of RNA polymerase II engage the Rtt103 termination factor in a structurally analogous manner., Proc Natl Acad Sci U S A, PMID 28465432PXD039882 Dataset with its publication pending (from PRIDE) Dataset title: Composition of the mitoribosome of Diplonema papillatum Possible reference: Valach, M. et al. (2023) Miniature RNAs are embedded in an exceptionally protein-rich mitoribosome via an elaborate assembly pathway., Nucleic Acids Res, PMID 37207340PXD039881 Dataset with its publication pending (from PRIDE) Dataset title: Iron limitation restores autophagy and increases lifespan in the yeast model of Niemann-Pick type C1 Possible reference: Martins, TS. et al. (2023) Iron Limitation Restores Autophagy and Increases Lifespan in the Yeast Model of Niemann-Pick Type C1., Int J Mol Sci, PMID 37047194PXD039865 Dataset with its publication pending (from PRIDE) Dataset title: EPLIN-Beta is a novel substrate of ornithine decarboxylase antizyme 1, mediating cellular migration Possible reference: Li, D. et al. (2023) EPLIN-β is a novel substrate of ornithine decarboxylase antizyme 1 and mediates cellular migration., J Cell Sci, PMID 37325974PXD039864 Dataset with its publication pending (from PRIDE) Dataset title: PABPN1-protein Interactome . Possible reference: Kases, K. et al. (2023) The RNA-binding protein ZC3H11A interacts with the nuclear poly(A)-binding protein PABPN1 and alters polyadenylation of viral transcripts., J Biol Chem, PMID 37356722PXD039859 no publication (from MassIVE) Dataset title: Network-based elucidation of colon cancer drug resistance by phosphoproteomic time-series analysis Possible reference: Rosenberger, G. et al. (2023) Network-based elucidation of colon cancer drug resistance by phosphoproteomic time-series analysis., bioRxiv, PMID 36824919PXD039858 Dataset with its publication pending (from jPOST) Dataset title: Cell type-specific proteomics uncovers a RAF15-SnRK2.6/OST1 kinase cascade in guard cells Possible reference: Wang, H. et al. (2023) Cell type-specific proteomics uncovers a RAF15-SnRK2.6/OST1 kinase cascade in guard cells., J Integr Plant Biol, PMID 37226855PXD039857 Dataset with its publication pending (from jPOST) Dataset title: Cell type-specific proteomics uncovers a RAF15-SnRK2.6/OST1 kinase cascade in guard cells Possible reference: Wang, H. et al. (2023) Cell type-specific proteomics uncovers a RAF15-SnRK2.6/OST1 kinase cascade in guard cells., J Integr Plant Biol, PMID 37226855PXD039856 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of Asian elephant (Elephas maximus) seminal plasma using liquid chromatography tandem-mass spectrometry (LC- MS/MS) Possible reference: Wattananit, P. et al. (2023) Non-targeted proteomic analysis of Asian elephant (Elephas maximus) seminal plasma using an in-solution digestion technique and liquid chromatography tandem-mass spectrometry., Front Vet Sci, PMID 37799407PXD039855 no publication (from MassIVE) Dataset title: Real-time spectral library matching for sample multiplexed quantitative proteomics Possible reference: McGann, CD. et al. (2023) Real-Time Spectral Library Matching for Sample Multiplexed Quantitative Proteomics., J Proteome Res, PMID 37557900PXD039843 no publication (from MassIVE) Dataset title: Quantitative phosphoproteomics to define cAMP compartments in Human Airway Smooth Muscle cells Possible reference: Cattani-Cavalieri, I. et al. (2023) Quantitative phosphoproteomic analysis reveals unique cAMP signaling pools emanating from AC2 and AC6 in human airway smooth muscle cells., Front Physiol, PMID 36926196PXD039840 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic characterization of Foreign Body Response towards silicone breast implants identifies chronological disease-relevant biomarker dynamics Possible reference: Schoberleitner, I. et al. (2023) Quantitative Proteomic Characterization of Foreign Body Response towards Silicone Breast Implants Identifies Chronological Disease-Relevant Biomarker Dynamics., Biomolecules, PMID 36830674PXD039832 Dataset with its publication pending (from PRIDE) Dataset title: Enterococcus faecium mutant proteome analysis Possible reference: Chang, D. et al. (2013) A multi-omic analysis of an Enterococcus faecium mutant reveals specific genetic mutations and dramatic changes in mRNA and protein expression., BMC Microbiol, PMID 24373636PXD039830 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics and RNA-sequencing of mouse liver endothelial cells identify novel regulators of BMP6 by iron Possible reference: Fisher, AL. et al. (2023) Quantitative proteomics and RNA-sequencing of mouse liver endothelial cells identify novel regulators of BMP6 by iron., iScience, PMID 38125029PXD039811 Dataset with its publication pending (from jPOST) Dataset title: Hypoxia resistance is an inherent phenotype of the mouse flexor digitorum brevis skeletal muscle Possible reference: Amorese, AJ. et al. (2023) Hypoxia Resistance Is an Inherent Phenotype of the Mouse Flexor Digitorum Brevis Skeletal Muscle., Function (Oxf), PMID 37168496PXD039810 Dataset with its publication pending (from PRIDE) Dataset title: Translatome analyses by bio-orthogonal non-canonical amino acid labeling reveal that MR1-activated MAIT cells induce an M1 phenotype and antiviral programming in antigen-presenting monocytes_bicellular 3 Possible reference: Jakob, J. et al. (2023) Translatome analyses by bio-orthogonal non-canonical amino acid labeling reveal that MR1-activated MAIT cells induce an M1 phenotype and antiviral programming in antigen-presenting monocytes., Front Immunol, PMID 36875139PXD039809 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of metronidazole resistance in the human facultative pathogen Bacteroides fragilis Possible reference: Paunkov, A. et al. (2023) Proteomic analysis of metronidazole resistance in the human facultative pathogen Bacteroides fragilis., Front Microbiol, PMID 37065137PXD039806 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of the African swine fever virus-induced host shutoff using dynamic stable isotope labeling with amino acids in cell culture (SILAC) Possible reference: Whnke, E. et al. (2023) Mass-Spectrometric Evaluation of the African Swine Fever Virus-Induced Host Shutoff Using Dynamic Stable Isotope Labeling with Amino Acids in Cell Culture (SILAC)., Viruses, PMID 37376583PXD039805 Dataset with its publication pending (from PRIDE) Dataset title: Brain Endothelial Cells Exposure to Malaria Parasites Links Type I Interferon Signalling to Antigen Presentation, Immunoproteasome Activation Endothelium Disruption, and Cellular Metabolism Possible reference: Shafi, AM. et al. (2023) Brain endothelial cells exposure to malaria parasites links type I interferon signalling to antigen presentation, immunoproteasome activation, endothelium disruption, and cellular metabolism., Front Immunol, PMID 36993973PXD039804 Dataset with its publication pending (from PRIDE) Dataset title: Translatome analyses by bio-orthogonal non-canonical amino acid labeling reveal that MR1-activated MAIT cells induce an M1 phenotype and antiviral programming in antigen-presenting monocytes_bicellular2 Possible reference: Jakob, J. et al. (2023) Translatome analyses by bio-orthogonal non-canonical amino acid labeling reveal that MR1-activated MAIT cells induce an M1 phenotype and antiviral programming in antigen-presenting monocytes., Front Immunol, PMID 36875139PXD039787 Dataset with its publication pending (from PRIDE) Dataset title: Antibody N-linked glycosylation profiling with PEAKS GlycanFinder Possible reference: Sun, W. et al. (2023) Glycopeptide database search and de novo sequencing with PEAKS GlycanFinder enable highly sensitive glycoproteomics., Nat Commun, PMID 37422459PXD039785 Dataset with its publication pending (from PRIDE) Dataset title: Translatome analyses by bio-orthogonal non-canonical amino acid labeling reveal that MR1-activated MAIT cells induce an M1 phenotype and antiviral programming in antigen-presenting monocytes_bicellular1 Possible reference: Jakob, J. et al. (2023) Translatome analyses by bio-orthogonal non-canonical amino acid labeling reveal that MR1-activated MAIT cells induce an M1 phenotype and antiviral programming in antigen-presenting monocytes., Front Immunol, PMID 36875139PXD039784 Dataset with its publication pending (from PRIDE) Dataset title: Detection of structure-specific protein–protein interactions of alpha-synuclein Possible reference: Holfeld, A. et al. (2024) Systematic identification of structure-specific protein-protein interactions., Mol Syst Biol, PMID 38702390PXD039777 no publication (from MassIVE) Dataset title: Functional analysis of Salix purpurea genes support roles for ARR17 and GATA15 as master regulators of sex determination Possible reference: Hyden, B. et al. (2023) Functional analysis of Salix purpurea genes support roles for ARR17 and GATA15 as master regulators of sex determination., Plant Direct, PMID 38028649PXD039764 Dataset with its publication pending (from PRIDE) Dataset title: The Extracellular Vesicles Proteome of Endometrial Cells Simulating the Receptive Menstrual Phase Differs from That of Endometrial Cells Simulating the Non-Receptive Menstrual Phase Possible reference: Hart, AR. et al. (2023) The Extracellular Vesicles Proteome of Endometrial Cells Simulating the Receptive Menstrual Phase Differs from That of Endometrial Cells Simulating the Non-Receptive Menstrual Phase., Biomolecules, PMID 36830648PXD039759 Dataset with its publication pending (from PRIDE) Dataset title: Comparative study of the data analysis tools for data-independent acquisition mass spectrometry Possible reference: Ting, YS. et al. (2015) Peptide-Centric Proteome Analysis: An Alternative Strategy for the Analysis of Tandem Mass Spectrometry Data., Mol Cell Proteomics, PMID 26217018PXD039752 Dataset with its publication pending (from jPOST) Dataset title: Development of cytosol-facing organelle outer membrane proximity labeling systems in Arabidopsis Possible reference: Bao, X. et al. (2024) Mapping of cytosol-facing organelle outer membrane proximity proteome by proximity-dependent biotinylation in living Arabidopsis cells., Plant J, PMID 38261530PXD039733 Dataset with its publication pending (from iProX) Dataset title: Proteomics of exosomes of HUVECs supernatant Possible reference: Wernly, B. et al. (2020) Anti-CD3 Antibody Treatment Reduces Scar Formation in a Rat Model of Myocardial Infarction., Cells, PMID 31991811PXD039686 no publication (from MassIVE) Dataset title: Robust and easy-to-use one pot workflow for label free single cell proteomics Possible reference: Matzinger, M. et al. (2023) Robust and Easy-to-Use One-Pot Workflow for Label-Free Single-Cell Proteomics., Anal Chem, PMID 36802514PXD039681 Dataset with its publication pending (from PRIDE) Dataset title: Peptide and MUC5B hydrolysis by the Mucin Degrading Protease (MdpL) from Limosilactobacillus fermentum Possible reference: Leo, F. et al. (2023) Characterization of a highly conserved MUC5B-degrading protease, MdpL, from Limosilactobacillus fermentum., Front Microbiol, PMID 36925480PXD039666 Cucina, A., Schmidt, A.L., Di Gianvincenzo, F. et al. Paleoproteomic identification of the species used in fourteenth century gut-skin garments from the archaeological site of Nuulliit, Greenland. Scientific Reports 2024 14(13431). doi: 10.1038/s41598-024 (from MassIVE) Dataset title: Paleoproteomic identification of the species used in fourteenth century gut-skin garments from the archaeological site of Nuulliit, Greenland Possible reference: Cucina, A. et al. (2024) Paleoproteomic identification of the species used in fourteenth century gut-skin garments from the archaeological site of Nuulliit, Greenland., Sci Rep, PMID 38862633PXD039664 Dataset with its publication pending (from PRIDE) Dataset title: Tetraspanin 4 stabilizes membrane swellings and facilitates their maturation into migrasomes Possible reference: Dharan, R. et al. (2023) Tetraspanin 4 stabilizes membrane swellings and facilitates their maturation into migrasomes., Nat Commun, PMID 36823145PXD039645 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic analysis of human serum using tandem mass tags to predict cardiovascular risks in patients with psoriasis Possible reference: Kim, NY. et al. (2023) Quantitative proteomic analysis of human serum using tandem mass tags to predict cardiovascular risks in patients with psoriasis., Sci Rep, PMID 36804462PXD039642 Dataset with its publication pending (from jPOST) Dataset title: Human Hair Shaft Proteome profiling using label free proteomics Possible reference: Milan, JA. et al. (2019) Comparison of protein expression levels and proteomically-inferred genotypes using human hair from different body sites., Forensic Sci Int Genet, PMID 30939338PXD039608 Dataset with its publication pending (from iProX) Dataset title: Proximity labeling proteomics of ATG8 Possible reference: Le Guerrou, F. et al. (2017) Autophagosomal Content Profiling Reveals an LC3C-Dependent Piecemeal Mitophagy Pathway., Mol Cell, PMID 29149599PXD039600 no publication (from MassIVE) Dataset title: MRTX1133 mechanism of action in KRASG12D mutant cancer cell lines by proteomics and single cell proteomics Possible reference: Orsburn, BC. et al. (2023) Metabolomic, proteomic and single cell proteomic analysis of cancer cells treated with the KRASG12D inhibitor MRTX1133., bioRxiv, PMID 36993160PXD039597 no publication (from MassIVE) Dataset title: Proteomics, metabolomics and single cell metabolomics of cells treated with KRASG12D inhibitor MRTX1133 Possible reference: Orsburn, BC. et al. (2023) Metabolomic, Proteomic, and Single-Cell Proteomic Analysis of Cancer Cells Treated with the KRASG12D Inhibitor MRTX1133., J Proteome Res, PMID 37983312PXD039569 Dataset with its publication pending (from PRIDE) Dataset title: Herpes simplex virus type 1 modifies the protein composition of extracellular vesicles to promote neurite outgrowth and facilitate neuroinfection Possible reference: Sun, G. et al. (2024) Herpes simplex virus type 1 modifies the protein composition of extracellular vesicles to promote neurite outgrowth and neuroinfection., mBio, PMID 38275838PXD039568 Dataset with its publication pending (from PRIDE) Dataset title: The effect of obesity on uterine receptivity is mediated by endometrial extracellular vesicles that control human endometrial stromal cell decidualization and trophoblast invasion Possible reference: Galio, L. et al. (2023) The effect of obesity on uterine receptivity is mediated by endometrial extracellular vesicles that control human endometrial stromal cell decidualization and trophoblast invasion., J Extracell Biol, PMID 38939074PXD039554 Dataset with its publication pending (from PRIDE) Dataset title: Cytokine signaling converging on IL11 signalling in ILD fibroblasts induces aberrant epithelial differentiation signatures Possible reference: Kastlmeier, MT. et al. (2023) Cytokine signaling converging on IL11 in ILD fibroblasts provokes aberrant epithelial differentiation signatures., Front Immunol, PMID 37266432PXD039547 Dataset with its publication pending (from PRIDE) Dataset title: Unchanged PCNA and DNMT1 dynamics during replication in DNA ligase I-deficient cells but abnormal chromatin levels of non-replicative histone H1 Possible reference: Bhandari, SK. et al. (2023) Unchanged PCNA and DNMT1 dynamics during replication in DNA ligase I-deficient cells but abnormal chromatin levels of non-replicative histone H1., Sci Rep, PMID 36928068PXD039530 no publication (from MassIVE) Dataset title: Autophagy controls the protein composition of hair shafts Possible reference: Sukseree, S. et al. (2024) Autophagy Controls the Protein Composition of Hair Shafts., J Invest Dermatol, PMID 37517514PXD039527 Dataset with its publication pending (from iProX) Dataset title: PekUSZ_Development of Lysine Crotonyl-mimic Probe to Covalently Identify H3K27Cr Interacting Proteins Possible reference: Guo, X. et al. (2023) Development of Lysine Crotonyl-Mimic Probe to Covalently Identify H3K27Cr Interacting Proteins., Chemistry, PMID 37587551PXD039523 Dataset with its publication pending (from PRIDE) Dataset title: Deep proteome profiling of white adipose tissue reveals marked conservation and distinct features between different anatomical depots Possible reference: Madsen, S. et al. (2023) Deep Proteome Profiling of White Adipose Tissue Reveals Marked Conservation and Distinct Features Between Different Anatomical Depots., Mol Cell Proteomics, PMID 36787876PXD039520 Dataset with its publication pending (from PRIDE) Dataset title: Limited proteolysis–mass spectrometry detects protein–protein interactions of integral membrane proteins Possible reference: Lan, PD. et al. (2024) Synonymous Mutations Can Alter Protein Dimerization Through Localized Interface Misfolding Involving Self-entanglements., J Mol Biol, PMID 38341172PXD039519 Dataset with its publication pending (from PRIDE) Dataset title: RNA quality control factors nucleate Clr4/SUV39H and trigger constitutive heterochromatin assembly Possible reference: Khanduja, JS. et al. (2024) RNA quality control factors nucleate Clr4/SUV39H and trigger constitutive heterochromatin assembly., Cell, PMID 38815580PXD039508 Dataset with its publication pending (from PRIDE) Dataset title: Single-cell division tracing and transcriptomics reveal cell types and differentiation paths in the regenerating lung Possible reference: Martins, LR. et al. (2024) Single-cell division tracing and transcriptomics reveal cell types and differentiation paths in the regenerating lung., Nat Commun, PMID 38472236PXD039506 Dataset with its publication pending (from iProX) Dataset title: Microbial degradation mechanism of historical silk Possible reference: Turnau, K. et al. (2020) Microbes of XVI century Arrases of Krakow Royal Castle., Microbiol Res, PMID 32474293PXD039504 no publication (from MassIVE) Dataset title: Data-independent acquisition phosphoproteomics of urinary extracellular vesicles enables renal cell carcinoma grade differentiation Possible reference: Hadisurya, M. et al. (2023) Data-Independent Acquisition Phosphoproteomics of Urinary Extracellular Vesicles Enables Renal Cell Carcinoma Grade Differentiation., Mol Cell Proteomics, PMID 36997065PXD039498 Dataset with its publication pending (from PRIDE) Dataset title: Proteome draft of Tremella fuciformis Possible reference: Li, Y. et al. (2023) A chromosome-scale genome and proteome draft of Tremella fuciformis., Int J Biol Macromol, PMID 37429350PXD039474 Dataset with its publication pending (from PRIDE) Dataset title: Dual IKZF2 and CK1α degrader targets acute myeloid leukemia cells Possible reference: Park, SM. et al. (2023) Dual IKZF2 and CK1α degrader targets acute myeloid leukemia cells., Cancer Cell, PMID 36898380PXD039472 Dataset with its publication pending (from PRIDE) Dataset title: Ninety-six–hour starved peripheral blood mononuclear cell supernatant inhibited LA7 breast cancer stem cells induced tumor Possible reference: Mehri, M. et al. (2022) Ninety-six-hour starved peripheral blood mononuclear cell supernatant inhibited LA7 breast cancer stem cells induced tumor via reduction in angiogenesis and alternations in Gch1 and Spr expressions., Front Immunol, PMID 36908807PXD039469 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of advanced melanoma to predict therapeutic response to anti-PD-1 therapy Possible reference: Lim, SY. et al. (2019) Circulating Cytokines Predict Immune-Related Toxicity in Melanoma Patients Receiving Anti-PD-1-Based Immunotherapy., Clin Cancer Res, PMID 30409824PXD039462 Dataset with its publication pending (from jPOST) Dataset title: LC-MS/MS-PRM Quantification of IgG glycoforms using stable isotope labeled IgG1 Fc glycopeptide standard Possible reference: Sanda, M. et al. (2022) LC-MS/MS-PRM Quantification of IgG glycoforms using stable isotope labeled IgG1 Fc glycopeptide standard., bioRxiv, PMID 35982648PXD039441 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of Arginine Methylation in Cancer Cell using LC-MS/MS Possible reference: Park, JH. et al. (2015) Protein arginine methyltransferase 5 is a key regulator of the MYCN oncoprotein in neuroblastoma cells., Mol Oncol, PMID 25475372PXD039429 no publication (from MassIVE) Dataset title: Circadian rhythm disruption is associated with skeletal muscle dysfunction within the blind Mexican Cavefish Possible reference: Olsen, L. et al. (2023) Circadian rhythm disruption is associated with skeletal muscle dysfunction within the blind Mexican Cavefish., bioRxiv, PMID 36747688PXD039419 Dataset with its publication pending (from PRIDE) Dataset title: Development of resistance to type II JAK2 inhibition in MPN depends on AXL kinase and is targetable Possible reference: Codilupi, T. et al. (2024) Development of Resistance to Type II JAK2 Inhibitors in MPN Depends on AXL Kinase and Is Targetable., Clin Cancer Res, PMID 37992313PXD039416 Dataset with its publication pending (from PRIDE) Dataset title: Ex vivo proteomics of Mycobacterium marinum Possible reference: Hammarn, MM. et al. (2023) In vitro and ex vivo proteomics of Mycobacterium marinum biofilms and the development of biofilm-binding synthetic nanobodies., mSystems, PMID 37184670PXD039409 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of spatial heterogeneity in metastasized colorectal cancer by MALDI imaging Possible reference: Turtoi, A. et al. (2014) Organized proteomic heterogeneity in colorectal cancer liver metastases and implications for therapies., Hepatology, PMID 23832580PXD039373 no publication (from MassIVE) Dataset title: Song Jiao_Miguel Holmgren_18LFQ_Membrane Possible reference: Jiao, S. et al. (2022) Comparative description of the mRNA expression profile of Na+ /K+ -ATPase isoforms in adult mouse nervous system., J Comp Neurol, PMID 34415061PXD039369 no publication (from MassIVE) Dataset title: Reduced binding of apoE4 to complement factor H promotes amyloid-beta oligomerization and neuroinflammation Possible reference: Chernyaeva, L. et al. (2023) Reduced binding of apoE4 to complement factor H promotes amyloid-β oligomerization and neuroinflammation., EMBO Rep, PMID 37155564PXD039364 no publication (from MassIVE) Dataset title: Mocetinostat activates Kruppel-like factor 4 and protects against tissue destruction and inflammation in osteoarthritis Possible reference: Kawata, M. et al. (2023) Mocetinostat activates Krppel-like factor 4 and protects against tissue destruction and inflammation in osteoarthritis., JCI Insight, PMID 37681413PXD039363 no publication (from MassIVE) Dataset title: Illuminating phenotypic drug responses of sarcoma cells to kinase inhibitors by phosphoproteomics Possible reference: Lee, CY. et al. (2024) Illuminating phenotypic drug responses of sarcoma cells to kinase inhibitors by phosphoproteomics., Mol Syst Biol, PMID 38177929PXD039358 Dataset with its publication pending (from iProX) Dataset title: Proteome profiling of Houttuynia cordata Thunb Possible reference: Rahman, SS. et al. (2024) Impacts of Plu kaow (Houttuynia cordata Thunb.) Ethanolic Extract on Diabetes and Dyslipidemia in STZ Induced Diabetic Rats: Phytochemical Profiling, Cheminformatics Analyses, and Molecular Docking Studies., Antioxidants (Basel), PMID 39334723PXD039351 no publication (from MassIVE) Dataset title: DOCK8 is a Novel Regulator of Lysosome Mediated Pancreatic Cancer Invasion Possible reference: Gutierrez-Ruiz, OL. et al. (2023) Ectopic expression of DOCK8 regulates lysosome-mediated pancreatic tumor cell invasion., Cell Rep, PMID 37651233PXD039345 Dataset with its publication pending (from jPOST) Dataset title: On-capillary Alkylation Micro-reactor: A facile strategy for proteo-metabolome profiling in the same single mouse oocytes Possible reference: He, Y. et al. (2023) On-capillary alkylation micro-reactor: a facile strategy for proteo-metabolome profiling in the same single cells., Chem Sci, PMID 38033888PXD039339 Dataset with its publication pending (from PRIDE) Dataset title: Tissue expression of N-terminal proteoforms. Possible reference: Bamberger, C. et al. (2021) The Host Interactome of Spike Expands the Tropism of SARS-CoV-2., bioRxiv, PMID 33619478PXD039329 Dataset with its publication pending (from PRIDE) Dataset title: Mouse macrophage derived mirasome iTRAQ Possible reference: Kumar, JD. et al. (2014) Increased expression of chemerin in squamous esophageal cancer myofibroblasts and role in recruitment of mesenchymal stromal cells., PLoS One, PMID 25127029PXD039328 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics of non-invasive and invasive pituitary adenomas Possible reference: Zhan, X. et al. (2014) Identification of the proteomic variations of invasive relative to non-invasive non-functional pituitary adenomas., Electrophoresis, PMID 24729304PXD039319 Dataset with its publication pending (from PRIDE) Dataset title: Multiomic profiling of medulloblastoma reveals subtype-specific targetable alterations at the proteome and N-glycan level Possible reference: Godbole, S. et al. (2024) Multiomic profiling of medulloblastoma reveals subtype-specific targetable alterations at the proteome and N-glycan level., Nat Commun, PMID 39043693PXD039291 no publication (from MassIVE) Dataset title: Persistence of targetable lesions, predicted therapy sensitivity and proteomes through disease evolution in pediatric acute lymphoblastic leukemia Possible reference: Lorentzian, AC. et al. (2023) Targetable lesions and proteomes predict therapy sensitivity through disease evolution in pediatric acute lymphoblastic leukemia., Nat Commun, PMID 37989729PXD039289 Dataset with its publication pending (from PRIDE) Dataset title: Conformational coupling of redox-driven Na+ translocation in Vibrio cholerae NADH:quinone oxidoreductase Possible reference: Steuber, J. et al. (2014) Structure of the V. cholerae Na+-pumping NADH:quinone oxidoreductase., Nature, PMID 25471880PXD039288 Dataset with its publication pending (from PRIDE) Dataset title: Oxygen-sensing through ERFVII action and modulation in Arabidopsis thaliana Possible reference: Zubrycka, A. et al. (2023) ERFVII action and modulation through oxygen-sensing in Arabidopsis thaliana., Nat Commun, PMID 37537157PXD039284 no publication (from MassIVE) Dataset title: Cardiomyocyte external mechanical unloading activates modifications of alpha-actinin differently from sarcomere-originated unloading Possible reference: Solís, C. et al. (2023) Cardiomyocyte external mechanical unloading activates modifications of α-actinin differently from sarcomere-originated unloading., FEBS J, PMID 37551968PXD039270 Dataset with its publication pending (from PRIDE) Dataset title: USING DESIGN OF EXPERIMENTS (DoE) TO OPTIMIZE PERFORMANCE AND STABILITY OF BIOMIMETIC CELL MEMBRANE-COATED NANOSTRUCTURES FOR CANCER THERAPY Possible reference: Ferreira, NN. et al. (2023) Using design of experiments (DoE) to optimize performance and stability of biomimetic cell membrane-coated nanostructures for cancer therapy., Front Bioeng Biotechnol, PMID 36815878PXD039268 Dataset with its publication pending (from PRIDE) Dataset title: Alkaline-SDS cell lysis with acetone protein precipitation for proteomic sample preparation of microbes in 96-well plate format Possible reference: Chen, Y. et al. (2023) Alkaline-SDS cell lysis of microbes with acetone protein precipitation for proteomic sample preparation in 96-well plate format., PLoS One, PMID 37418444PXD039260 Dataset with its publication pending (from iProX) Dataset title: Bispecific antigen therapy plasma proteome Possible reference: Bateman, RM. et al. (2016) 36th International Symposium on Intensive Care and Emergency Medicine : Brussels, Belgium. 15-18 March 2016., Crit Care, PMID 27885969PXD039255 Dataset with its publication pending (from PRIDE) Dataset title: The mode of action of antifouling compound albofungin in inhibiting barnacle settlement Possible reference: She, W. et al. (2023) Mode of action of antifouling compound albofungin in inhibiting barnacle larval settlement., iScience, PMID 37534162PXD039254 Dataset with its publication pending (from PRIDE) Dataset title: Development and characterization of selective FAK inhibitors and PROTACs with in vivo activity Possible reference: Koide, E. et al. (2023) Development and Characterization of Selective FAK Inhibitors and PROTACs with In Vivo Activity., Chembiochem, PMID 37088717PXD039249 Dataset with its publication pending (from PRIDE) Dataset title: Temporal Profiling of Epitranscriptomic Reader, Writer and Eraser Proteins during Osteogenic Differentiation of Human Embryonic Stem Cells Possible reference: Yin, J. et al. (2023) Temporal Profiling of Epitranscriptomic Modulators during Osteogenic Differentiation of Human Embryonic Stem Cells., J Proteome Res, PMID 37348120PXD039241 Dataset with its publication pending (from PRIDE) Dataset title: TRIM16 overexpression in HEK293T cells results in cell line-specific antiviral activity Possible reference: Nigos, LR. et al. (2023) TRIM16 Overexpression in HEK293T Cells Results in Cell Line-Specific Antiviral Activity., Pathogens, PMID 37375542PXD039215 Dataset with its publication pending (from PRIDE) Dataset title: Development and characterization of selective FAK inhibitors and PROTACs with in vivo activity Possible reference: Koide, E. et al. (2023) Development and Characterization of Selective FAK Inhibitors and PROTACs with In Vivo Activity., Chembiochem, PMID 37088717PXD039214 Dataset with its publication pending (from PRIDE) Dataset title: Patient-derived podocyte spheroids reveals new insights into the etiopathogenesis of Alport Syndrome Possible reference: Romero-Guevara, R. et al. (2023) Patient-derived podocyte spheroids reveal new insights into the etiopathogenesis of Alport syndrome., Front Cell Dev Biol, PMID 36936689PXD039209 Dataset with its publication pending (from PRIDE) Dataset title: Breast cancer identity is determined by glucocorticoid receptor activity status Possible reference: Prekovic, S. et al. (2023) Luminal breast cancer identity is determined by loss of glucocorticoid receptor activity., EMBO Mol Med, PMID 37902007PXD039208 Dataset with its publication pending (from PRIDE) Dataset title: Label-Free Single Cell Proteomics Utilizing Ultrafast LC and MS Instrumentation: A Valuable Complementary Technique to Multiplexing. Possible reference: Matzinger, M. et al. (2023) Label-free single cell proteomics utilizing ultrafast LC and MS instrumentation: A valuable complementary technique to multiplexing., Proteomics, PMID 36806919PXD039183 Dataset with its publication pending (from PRIDE) Dataset title: The autophagy receptor NBR1 directs the clearance of photodamaged chloroplasts Possible reference: Lee, HN. et al. (2023) The autophagy receptor NBR1 directs the clearance of photodamaged chloroplasts., Elife, PMID 37070813PXD039176 Dataset with its publication pending (from PRIDE) Dataset title: H3K4me3 regulates RNA polymerase II promoter-proximal pause-release Possible reference: Wang, H. et al. (2023) H3K4me3 regulates RNA polymerase II promoter-proximal pause-release., Nature, PMID 36859550PXD039165 Dataset with its publication pending (from PRIDE) Dataset title: A Dataset for Developing Proteomic Tools in Pathogen Detection via Differential Cell Lysis from WholeBloodSamples Possible reference: de Oliveira Veloso Rezende, J. et al. (2024) A dataset for developing proteomic tools for pathogen detection via differential cell lysis of whole blood samples., Sci Data, PMID 39384817PXD039155 Dataset with its publication pending (from PRIDE) Dataset title: A novel role for Teneurin C-terminal Associated Peptide (TCAP) in the regulation of cardiac activity in the Sydney rock oyster, Saccostrea glomerata Possible reference: Abramov, T. et al. (2023) A novel role for Teneurin C-terminal Associated Peptide (TCAP) in the regulation of cardiac activity in the Sydney rock oyster, Saccostrea glomerata., Front Endocrinol (Lausanne), PMID 36814576PXD039152 Dataset with its publication pending (from PRIDE) Dataset title: Mass spectrometry analysis of Extracellular vesicles derived from naive HUVEc cells or ZIKV-infected HUVEc cells Possible reference: Pan, T. et al. (2018) Nonsteroidal Anti-inflammatory Drugs Potently Inhibit the Replication of Zika Viruses by Inducing the Degradation of AXL., J Virol, PMID 30068645PXD039148 Dataset with its publication pending (from PRIDE) Dataset title: Regulation of Toxoplasma growth and development by AMPK Possible reference: Yang, J. et al. (2022) The beta subunit of AMP-activated protein kinase is critical for cell cycle progression and parasite development in Toxoplasma gondii., Cell Mol Life Sci, PMID 36205781PXD039141 Dataset with its publication pending (from iProX) Dataset title: Glycosylation changes associated with anti-PD-1/PD-L1 Treatment Possible reference: Cao, X. et al. (2024) Glyco-signatures in patients with advanced lung cancer during anti-PD-1/PD-L1 immunotherapy., Acta Biochim Biophys Sin (Shanghai), PMID 38952341PXD039138 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vesicles of probiotic microorganism Streptococcus salivarius Possible reference: Kulig, K. et al. (2024) Isolation and Characteristics of Extracellular Vesicles Produced by Probiotics: Yeast Saccharomyces boulardii CNCM I-745 and Bacterium Streptococcus salivarius K12., Probiotics Antimicrob Proteins, PMID 37209320PXD039137 Dataset with its publication pending (from PRIDE) Dataset title: Characteristic of extracellular vesicles of probiotic yeasts Saccharomyces boulardii Possible reference: Kulig, K. et al. (2024) Isolation and Characteristics of Extracellular Vesicles Produced by Probiotics: Yeast Saccharomyces boulardii CNCM I-745 and Bacterium Streptococcus salivarius K12., Probiotics Antimicrob Proteins, PMID 37209320PXD039123 Dataset with its publication pending (from PRIDE) Dataset title: Verticillium dahliae Vta3 promotes ELV1 virulence factor gene expression in xylem sap, but tames Mtf1-mediated late stages of fungus-plant interactions and microsclerotia formation Possible reference: Maurus, I. et al. (2023) Verticillium dahliae Vta3 promotes ELV1 virulence factor gene expression in xylem sap, but tames Mtf1-mediated late stages of fungus-plant interactions and microsclerotia formation., PLoS Pathog, PMID 36716333PXD039122 Dataset with its publication pending (from jPOST) Dataset title: Proteomic profiling of urinary extracellular vesicles differentiates breast cancer patients from healthy women Possible reference: Jeanmard, N. et al. (2023) Proteomic profiling of urinary extracellular vesicles differentiates breast cancer patients from healthy women., PLoS One, PMID 37922300PXD039121 Dataset with its publication pending (from jPOST) Dataset title: L-lactate induced proteomic changes in rat hippocampus Possible reference: Zhao, L. et al. (2018) Metabolomic Analysis Identifies Lactate as an Important Pathogenic Factor in Diabetes-associated Cognitive Decline Rats., Mol Cell Proteomics, PMID 30171160PXD039097 Dataset with its publication pending (from jPOST) Dataset title: Interactome analysis for Kdm4B Possible reference: Levin, M. et al. (2018) The JmjN domain as a dimerization interface and a targeted inhibitor of KDM4 demethylase activity., Oncotarget, PMID 29682190PXD039096 Dataset with its publication pending (from iProX) Dataset title: Proteomics analysis of murine lung organoids Possible reference: Ombrato, L. et al. (2019) Metastatic-niche labelling reveals parenchymal cells with stem features., Nature, PMID 31462798PXD039095 Dataset with its publication pending (from iProX) Dataset title: Proteomics Characterization of human COVID-19 tissues Possible reference: Estrada, E. et al. (2020) Fractional diffusion on the human proteome as an alternative to the multi-organ damage of SARS-CoV-2., Chaos, PMID 32872802PXD039083 Dataset with its publication pending (from PRIDE) Dataset title: Macrophage DCLK1 promotes atherosclerosis via binding to IKKβ and inducing inflammatory responses Possible reference: Huang, Z. et al. (2023) Macrophage DCLK1 promotes atherosclerosis via binding to IKKβ and inducing inflammatory responses., EMBO Mol Med, PMID 36896602PXD039061 Dataset with its publication pending (from PRIDE) Dataset title: The p97-UBXD8 complex regulates ER-Mitochondria contact sites by altering membrane lipid saturation and composition Possible reference: Ganji, R. et al. (2023) The p97-UBXD8 complex regulates ER-Mitochondria contact sites by altering membrane lipid saturation and composition., Nat Commun, PMID 36746962PXD039054 Dataset with its publication pending (from PRIDE) Dataset title: Time-resolved profiling of mRNA-protein interaction through mRNA life cycle Possible reference: Choi, Y. et al. (2024) Time-resolved profiling of RNA binding proteins throughout the mRNA life cycle., Mol Cell, PMID 38593806PXD039050 Dataset with its publication pending (from PRIDE) Dataset title: Benefit of circadian clocks in adaptive immunity and vaccination responses Possible reference: Wyse, CA. et al. (2024) Circadian Variation in the Response to Vaccination: A Systematic Review and Evidence Appraisal., J Biol Rhythms, PMID 38459699PXD039047 Dataset with its publication pending (from jPOST) Dataset title: Serum Proteomic Profile of Wild Stump-tailed Macaques (Macaca arctoides) Infected with Malaria Parasites in Thailand Possible reference: Ruengket, P. et al. (2023) Serum proteomic profile of wild stump-tailed macaques (Macaca arctoides) infected with malaria parasites in Thailand., PLoS One, PMID 37910477PXD039041 no publication (from MassIVE) Dataset title: Ovol2 sustains postnatal thymic epithelial cell identity Possible reference: Zhong, X. et al. (2023) OVOL2 sustains postnatal thymic epithelial cell identity., Nat Commun, PMID 38012144PXD039032 Dataset with its publication pending (from PRIDE) Dataset title: Proteome changes of fibroblasts and endothelial cells upon incubation with human cytomegalovirus dense bodies Possible reference: Penner, I. et al. (2023) Proteome changes of fibroblasts and endothelial cells upon incubation with human cytomegalovirus subviral Dense Bodies., Sci Data, PMID 37542058PXD039023 Dataset with its publication pending (from PRIDE) Dataset title: Ely study plasma proteomics analysis Possible reference: Sandhu, G. et al. (2012) Discriminating active from latent tuberculosis in patients presenting to community clinics., PLoS One, PMID 22666453PXD039021 Dataset with its publication pending (from PRIDE) Dataset title: Pupylation-independent substrate recruitment to proteasomal degradation in mycobacteria Possible reference: Imkamp, F. et al. (2015) Pupylation-dependent and -independent proteasomal degradation in mycobacteria., Biomol Concepts, PMID 26352358PXD039012 Dataset with its publication pending (from PRIDE) Dataset title: Kinase Impaired BTK Mutations Are Susceptible to Clinical Stage BTK and IKZF1/3 Degrader NX-2127 Possible reference: Montoya, S. et al. (2024) Kinase-impaired BTK mutations are susceptible to clinical-stage BTK and IKZF1/3 degrader NX-2127., Science, PMID 38301010PXD039010 Dataset with its publication pending (from PRIDE) Dataset title: A Spatiotemporal Notch Interaction Map from Membrane to Nucleus Possible reference: Martin, AP. et al. (2023) A spatiotemporal Notch interaction map from plasma membrane to nucleus., Sci Signal, PMID 37527352PXD039008 Dataset with its publication pending (from PRIDE) Dataset title: A Spatiotemporal Notch Interaction Map from Membrane to Nucleus Possible reference: Martin, AP. et al. (2023) A spatiotemporal Notch interaction map from plasma membrane to nucleus., Sci Signal, PMID 37527352PXD038987 Dataset with its publication pending (from PRIDE) Dataset title: Differentiated protein extracts from freshwater and terrestrial mollusks inhibit virulence factor production in Cryptococcus neoformans Possible reference: Gutierrez-Gongora, D. et al. (2023) Differentiated extracts from freshwater and terrestrial mollusks inhibit virulence factor production in Cryptococcus neoformans., Sci Rep, PMID 36967422PXD038966 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis on SETD2 loss induced ccRCC formation Possible reference: Liu, J. et al. (2019) Loss of SETD2 Induces a Metabolic Switch in Renal Cell Carcinoma Cell Lines toward Enhanced Oxidative Phosphorylation., J Proteome Res, PMID 30406665PXD038964 Dataset with its publication pending (from PRIDE) Dataset title: Comparative phyloproteomics identifies conserved plasmodesmal proteins Possible reference: Johnston, MG. et al. (2023) Comparative phyloproteomics identifies conserved plasmodesmal proteins., J Exp Bot, PMID 36639877PXD038956 no publication (from MassIVE) Dataset title: Tracking chromatin state changes using nanoscale photo proximity labeling Possible reference: Seath, CP. et al. (2023) Tracking chromatin state changes using nanoscale photo-proximity labelling., Nature, PMID 37020029PXD038929 Dataset with its publication pending (from PRIDE) Dataset title: Systems-level temporal immune-metabolic profile in Crimean-Congo hemorrhagic fever virus infection Possible reference: Ambikan, AT. et al. (2023) Systems-level temporal immune-metabolic profile in Crimean-Congo hemorrhagic fever virus infection., Proc Natl Acad Sci U S A, PMID 37669378PXD038906 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of the human intestinal microbiome and bile acids under physiologic conditions using an ingestible sampling device Possible reference: Shalon, D. et al. (2023) Profiling the human intestinal environment under physiological conditions., Nature, PMID 37165188PXD038889 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative comparison of manuka and clover honey proteomes with royal jelly Possible reference: Paget, BW. et al. (2023) Quantitative comparison of manuka and clover honey proteomes with royal jelly., PLoS One, PMID 36763642PXD038879 Dataset with its publication pending (from jPOST) Dataset title: Composition of minor ampullate silk makes its properties different from those of major ampullate silk Possible reference: Nakamura, H. et al. (2023) Composition of Minor Ampullate Silk Makes Its Properties Different from Those of Major Ampullate Silk., Biomacromolecules, PMID 37002945PXD038865 no publication (from MassIVE) Dataset title: Organelle proteomic profiling reveals lysosomal heterogeneity in association with longevity Possible reference: Yu, Y. et al. (2024) Organelle proteomic profiling reveals lysosomal heterogeneity in association with longevity., Elife, PMID 38240316PXD038856 Dataset with its publication pending (from PRIDE) Dataset title: Functional nanovesicles from human trophectodermal cells for embryo implantation Possible reference: Poh, QH. et al. (2024) Rapid generation of functional nanovesicles from human trophectodermal cells for embryo attachment and outgrowth., Proteomics, PMID 37698557PXD038848 Dataset with its publication pending (from PRIDE) Dataset title: An apicomplexan bromodomain, TgBDP1 associates with diverse epigenetic factors to regulate essential transcriptional processes in Toxoplasma gondii. Possible reference: Fleck, K. et al. (2023) An apicomplexan bromodomain protein, TgBDP1, associates with diverse epigenetic factors to regulate essential transcriptional processes in Toxoplasma gondii., mBio, PMID 37350586PXD038827 no publication (from MassIVE) Dataset title: Environmental pro-oxidants induce altered envelope protein profiles in human keratinocytes Possible reference: Lin, LW. et al. (2023) Environmental pro-oxidants induce altered envelope protein profiles in human keratinocytes., Toxicol Sci, PMID 37788135PXD038826 Dataset with its publication pending (from PRIDE) Dataset title: Growth of complete ammonia oxidizers on guanidine Possible reference: Palatinszky, M. et al. (2024) Growth of complete ammonia oxidizers on guanidine., Nature, PMID 39143220PXD038824 Dataset with its publication pending (from PRIDE) Dataset title: A simple non-invasive method to collect soft tick saliva reveals differences in Ornithodoros moubata saliva composition between ticks infected and uninfected with Borrelia duttonii spirochetes Possible reference: Filatov, S. et al. (2023) A simple non-invasive method to collect soft tick saliva reveals differences in Ornithodoros moubata saliva composition between ticks infected and uninfected with Borrelia duttonii spirochetes., Front Cell Infect Microbiol, PMID 36743301PXD038822 Dataset with its publication pending (from PRIDE) Dataset title: Combinatorial treatment with PARP and MAPK inhibitors to overcome phenotype switch-driven drug resistance in advanced melanoma Possible reference: Ferretti, LP. et al. (2023) Combinatorial Treatment with PARP and MAPK Inhibitors Overcomes Phenotype Switch-Driven Drug Resistance in Advanced Melanoma., Cancer Res, PMID 37729428PXD038816 Dataset with its publication pending (from PRIDE) Dataset title: HDAC6 interacting proteins under different stresses Possible reference: Ryu, HW. et al. (2017) HDAC6 regulates sensitivity to cell death in response to stress and post-stress recovery., Cell Stress Chaperones, PMID 28116619PXD038804 Dataset with its publication pending (from iProX) Dataset title: The proteome and phosphoproteome of Saccharomyces cerevisiae during glucose starvation Possible reference: Caligaris, M. et al. (2023) Snf1/AMPK fine-tunes TORC1 signaling in response to glucose starvation., Elife, PMID 36749016PXD038800 no publication (from MassIVE) Dataset title: Size-exclusion chromatography combined with DIA-MS enables deep proteome profiling of extracellular vesicles from melanoma plasma and serum Possible reference: Lattmann, E. et al. (2024) Size-exclusion chromatography combined with DIA-MS enables deep proteome profiling of extracellular vesicles from melanoma plasma and serum., Cell Mol Life Sci, PMID 38353833PXD038792 Dataset with its publication pending (from PRIDE) Dataset title: Amino acid availability acts as a metabolic rheostat to determine the magnitude of ILC2 responses - WT ILC2 Possible reference: Hodge, SH. et al. (2023) Amino acid availability acts as a metabolic rheostat to determine the magnitude of ILC2 responses., J Exp Med, PMID 36571761PXD038790 Dataset with its publication pending (from PRIDE) Dataset title: Mislocalization of pathogenic RBM20 variants in dilated cardiomyopathy is caused by loss-of-interaction with Transportin-3 Possible reference: Kornienko, J. et al. (2023) Mislocalization of pathogenic RBM20 variants in dilated cardiomyopathy is caused by loss-of-interaction with Transportin-3., Nat Commun, PMID 37463913PXD038783 Dataset with its publication pending (from PRIDE) Dataset title: A Universal GlycoDesign for Lysosomal Replacement Enzymes to Improve Circulation Time and Biodistribution Possible reference: Chen, YH. et al. (2023) A universal GlycoDesign for lysosomal replacement enzymes to improve circulation time and biodistribution., Front Bioeng Biotechnol, PMID 36911201PXD038782 Dataset with its publication pending (from PRIDE) Dataset title: TOFIMS mass spectrometry-based immunopeptidomics refines tumor antigen identification Possible reference: Hoenisch Gravel, N. et al. (2023) TOFIMS mass spectrometry-based immunopeptidomics refines tumor antigen identification., Nat Commun, PMID 37978195PXD038779 Dataset with its publication pending (from PRIDE) Dataset title: Spastin is an essential regulator of male meiosis, acrosome formation, manchette structure and nuclear integrity Possible reference: Cheers, SR. et al. (2023) Spastin is an essential regulator of male meiosis, acrosome formation, manchette structure and nuclear integrity., Development, PMID 36971361PXD038751 no publication (from MassIVE) Dataset title: Trans-Golgi protein TVP23B regulates host-microbe interactions via Paneth cell homeostasis and Goblet cell glycosylation Possible reference: Song, R. et al. (2023) Trans-Golgi protein TVP23B regulates host-microbe interactions via Paneth cell homeostasis and Goblet cell glycosylation., Nat Commun, PMID 37339972PXD038714 Dataset with its publication pending (from PRIDE) Dataset title: The Thylakoid Protein NTA1 Is An Assembly Factor of Cytochrome b6f Complex Essential for Chloroplast Development in Arabidopsis Possible reference: Li, N. et al. (2023) The thylakoid membrane protein NTA1 is an assembly factor of the cytochrome b6f complex essential for chloroplast development in Arabidopsis., Plant Commun, PMID 36560880PXD038704 Dataset with its publication pending (from PRIDE) Dataset title: A unique photoprotection mechanism in Chlorella species Possible reference: Levin, G. et al. (2023) A desert Chlorella sp. that thrives at extreme high-light intensities using a unique photoinhibition protection mechanism., Plant J, PMID 37036169PXD038701 Dataset with its publication pending (from PRIDE) Dataset title: SUMOylation of Protein Phosphatase 5 Regulates Phosphatase Activity and Substrate Release Possible reference: Sager, RA. et al. (2024) SUMOylation of protein phosphatase 5 regulates phosphatase activity and substrate release., EMBO Rep, PMID 39304777PXD038699 Dataset with its publication pending (from PRIDE) Dataset title: Spatial single-cell mass spectrometry defines zonation of the hepatocyte proteome Possible reference: Ben-Moshe, S. et al. (2019) Spatial sorting enables comprehensive characterization of liver zonation., Nat Metab, PMID 31535084PXD038691 Dataset with its publication pending (from PRIDE) Dataset title: Immune surveillance of acute myeloid leukemia is mediated by HLA-presented antigens on leukemia progenitor cells Possible reference: Nelde, A. et al. (2023) Immune Surveillance of Acute Myeloid Leukemia Is Mediated by HLA-Presented Antigens on Leukemia Progenitor Cells., Blood Cancer Discov, PMID 37847741PXD038680 Dataset with its publication pending (from jPOST) Dataset title: A brain proteomic signature of CKD Possible reference: Szerlip, HM. et al. (2015) Association Between Cognitive Impairment and Chronic Kidney Disease in Mexican Americans., J Am Geriatr Soc, PMID 26456700PXD038679 no publication (from MassIVE) Dataset title: Proteomics of egg yolk nanovesicles Possible reference: Saadeldin, IM. et al. (2023) Isolation, characterization, proteome, miRNAome, and the embryotrophic effects of chicken egg yolk nanovesicles (vitellovesicles)., Sci Rep, PMID 36918605PXD038675 Dataset with its publication pending (from PRIDE) Dataset title: Asparagine uptake: a cellular strategy of Methylocystis to combat severe salt stress Possible reference: Guo, K. et al. (2023) Asparagine Uptake: a Cellular Strategy of Methylocystis to Combat Severe Salt Stress., Appl Environ Microbiol, PMID 37184406PXD038670 Dataset with its publication pending (from PRIDE) Dataset title: A proteome level study in the early stages of clubroot infection in Brassica napus canola. Possible reference: Adhikary, D. et al. (2024) Proteome- and metabolome-level changes during early stages of clubroot infection in Brassica napus canola., Mol Omics, PMID 38334713PXD038667 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vesicles of the Gram-positive gut symbiont Bifidobacterium longum induce immune-modulatory, anti-inflammatory effects Possible reference: Mandelbaum, N. et al. (2023) Extracellular vesicles of the Gram-positive gut symbiont Bifidobacterium longum induce immune-modulatory, anti-inflammatory effects., NPJ Biofilms Microbiomes, PMID 37270554PXD038658 Dataset with its publication pending (from PRIDE) Dataset title: Targeted cross-linker delivery for in situ mapping of protein conformations and interactions in mitochondria Possible reference: Chen, Y. et al. (2023) Targeted cross-linker delivery for the in situ mapping of protein conformations and interactions in mitochondria., Nat Commun, PMID 37391416PXD038655 Dataset with its publication pending (from PRIDE) Dataset title: K6-Linked Ubiquitylation Marks Formaldehyde-Induced RNA–Protein Crosslinks for Resolution Possible reference: Suryo Rahmanto, A. et al. (2023) K6-linked ubiquitylation marks formaldehyde-induced RNA-protein crosslinks for resolution., Mol Cell, PMID 37951215PXD038649 Dataset with its publication pending (from PRIDE) Dataset title: Leucine-973 is a Crucial Residue Differentiating Insulin and IGF-1 Receptor Signaling Possible reference: Nagao, H. et al. (2023) Leucine-973 is a crucial residue differentiating insulin and IGF-1 receptor signaling., J Clin Invest, PMID 36548088PXD038646 Dataset with its publication pending (from PRIDE) Dataset title: Oil body proteome reveals dynamic changes of oil body protein during embryonic development of Carya cathayensis nuts Possible reference: Chen, A. et al. (2023) Lipid droplets proteome reveals dynamic changes of lipid droplets protein during embryonic development of Carya cathayensis nuts., Plant Sci, PMID 37268111PXD038639 Dataset with its publication pending (from PRIDE) Dataset title: Conservation of the PBL-RBOH immune module in land plants Possible reference: Chu, J. et al. (2023) Conservation of the PBL-RBOH immune module in land plants., Curr Biol, PMID 36796360PXD038631 Dataset with its publication pending (from PRIDE) Dataset title: Structure of Anabaena flos-aquae gas vesicles revealed by cryo-ET Possible reference: Dutka, P. et al. (2023) Structure of Anabaena flos-aquae gas vesicles revealed by cryo-ET., Structure, PMID 37040766PXD038601 Dataset with its publication pending (from PRIDE) Dataset title: Diagnosis of T-cell-mediated kidney rejection by biopsy-based proteomic biomarkers and machine learning Possible reference: Fang, F. et al. (2023) Diagnosis of T-cell-mediated kidney rejection by biopsy-based proteomic biomarkers and machine learning., Front Immunol, PMID 36814924PXD038582 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Fasciola gigantica excretory and secretory products (FgESPs) co-immunoprecipitated using a time course of infected buffalo sera Possible reference: Zheng, M. et al. (2022) Proteomic analysis of Fasciola gigantica excretory and secretory products (FgESPs) co-immunoprecipitated using a time course of infected buffalo sera., Front Microbiol, PMID 36620027PXD038557 Dataset with its publication pending (from PRIDE) Dataset title: Brain heterotopia formation by ciliopathic breakdown of neuroepithelial and blood-cerebrospinal fluid barriers Possible reference: Jung, HJ. et al. (2023) Brain heterotopia formation by ciliopathic breakdown of neuroepithelial and blood-cerebrospinal fluid barriers., Brain Pathol, PMID 36623505PXD038474 Dataset with its publication pending (from PRIDE) Dataset title: Pol II preferentially regulates ribosomal protein expression by trapping disassociated subunits Possible reference: Li, Y. et al. (2023) RNA Pol II preferentially regulates ribosomal protein expression by trapping disassociated subunits., Mol Cell, PMID 36924766PXD038456 no publication (from MassIVE) Dataset title: Structure of an endogenous mycobacterial MCE lipid transporter Possible reference: Chen, J. et al. (2023) Structure of an endogenous mycobacterial MCE lipid transporter., Res Sq, PMID 36711512PXD038450 Dataset with its publication pending (from PRIDE) Dataset title: Redifferentiated cardiomyocytes retain residual dedifferentiation signatures and are protected against ischaemic injury Possible reference: Shakked, A. et al. (2023) Redifferentiated cardiomyocytes retain residual dedifferentiation signatures and are protected against ischemic injury., Nat Cardiovasc Res, PMID 37974970PXD038436 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics profiling reveals regulation of immune response to Salmonella enterica serovar Typhimurium infection in mice Possible reference: Huang, H. et al. (2023) Proteomics Profiling Reveals Regulation of Immune Response to Salmonella enterica Serovar Typhimurium Infection in Mice., Infect Immun, PMID 36511704PXD038423 Dataset with its publication pending (from PRIDE) Dataset title: The submandibular and sublingual glands maintain oral microbial homeostasis through multiple antimicrobial proteins Possible reference: Li, Y. et al. (2022) The submandibular and sublingual glands maintain oral microbial homeostasis through multiple antimicrobial proteins., Front Cell Infect Microbiol, PMID 36704102PXD038422 Dataset with its publication pending (from PRIDE) Dataset title: Epigenetic inactivation of the 5-methylcytosine RNA methyltransferase NSUN7 is associated with clinical outcome and therapeutic vulnerability in liver cancer Possible reference: Ortiz-Barahona, V. et al. (2023) Epigenetic inactivation of the 5-methylcytosine RNA methyltransferase NSUN7 is associated with clinical outcome and therapeutic vulnerability in liver cancer., Mol Cancer, PMID 37173708PXD038421 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of immunity in potato - 2 Possible reference: Arasimowicz-Jelonek, M. et al. (2013) The proteome response of potato leaves to priming agents and S-nitrosoglutathione., Plant Sci, PMID 23199689PXD038416 Dataset with its publication pending (from PRIDE) Dataset title: Ventral hippocampal CA1 modulates pain behaviors in mice with peripheral inflammation Possible reference: Shao, S. et al. (2023) Ventral hippocampal CA1 modulates pain behaviors in mice with peripheral inflammation., Cell Rep, PMID 36662622PXD038407 Dataset with its publication pending (from PRIDE) Dataset title: Improving SWATH-MS analysis by Deep-learning Possible reference: Cadow, J. et al. (2021) On the feasibility of deep learning applications using raw mass spectrometry data., Bioinformatics, PMID 34252933PXD038391 Dataset with its publication pending (from PRIDE) Dataset title: Ribonucleotide synthesis by NME6 fuels mitochondrial gene expression Possible reference: Grotehans, N. et al. (2023) Ribonucleotide synthesis by NME6 fuels mitochondrial gene expression., EMBO J, PMID 37439264PXD038365 Dataset with its publication pending (from PRIDE) Dataset title: Intact Transition Epitope Mapping - Force differences between Original and Unusual Residues (ITEM-FOUR) Possible reference: Rwer, C. et al. (2023) Intact Transition Epitope Mapping-Force Differences between Original and Unusual Residues (ITEM-FOUR)., Biomolecules, PMID 36671572PXD038364 Dataset with its publication pending (from PRIDE) Dataset title: Monitoring α-synuclein ubiquitination dynamics reveals key endosomal effectors mediating its trafficking and degradation Possible reference: Zenko, D. et al. (2023) Monitoring α-synuclein ubiquitination dynamics reveals key endosomal effectors mediating its trafficking and degradation., Sci Adv, PMID 37315142PXD038345 Dataset with its publication pending (from iProX) Dataset title: MS data of the ERV in human stem cell Possible reference: Ward, MC. et al. (2018) Silencing of transposable elements may not be a major driver of regulatory evolution in primate iPSCs., Elife, PMID 29648536PXD038340 no publication (from MassIVE) Dataset title: An E3 ligase network engages GCN1 to promote degradation of translation factors on stalled ribosomes Possible reference: Oltion, K. et al. (2023) An E3 ligase network engages GCN1 to promote the degradation of translation factors on stalled ribosomes., Cell, PMID 36638793PXD038314 Dataset with its publication pending (from PRIDE) Dataset title: IQGAP1 mediates the communication between the nucleus and the mitochondria via NDUFS4 alternative splicing Possible reference: Papadaki, V. et al. (2023) IQGAP1 mediates the communication between the nucleus and the mitochondria via NDUFS4 alternative splicing., NAR Cancer, PMID 37636315PXD038290 Dataset with its publication pending (from iProX) Dataset title: Shell proteins from proteomics to identify shell arts Possible reference: Mann, K. et al. (2012) In-depth proteomic analysis of a mollusc shell: acid-soluble and acid-insoluble matrix of the limpet Lottia gigantea., Proteome Sci, PMID 22540284PXD038264 Dataset with its publication pending (from PRIDE) Dataset title: The role of endosomal protein DENND10/FAM45A in extracellular vesicle release and cancer cell migration Possible reference: Sun, S. et al. (2024) Endosomal protein DENND10/FAM45A integrates extracellular vesicle release with cancer cell migration., BMC Biol, PMID 38987765PXD038258 Dataset with its publication pending (from iProX) Dataset title: LC-MS-based urine metabolomics analysis of chronic subdural hematoma for biomarker discovery Possible reference: Sun, J. et al. (2024) LC-MS-based urine metabolomics analysis of chronic subdural hematoma for biomarker discovery., Proteomics Clin Appl, PMID 37697649PXD038239 Dataset with its publication pending (from PRIDE) Dataset title: Assigning functionality to cysteines by base editing of cancer dependency genes Possible reference: Li, H. et al. (2023) Assigning functionality to cysteines by base editing of cancer dependency genes., Nat Chem Biol, PMID 37783940PXD038238 Dataset with its publication pending (from PRIDE) Dataset title: Bacteria Commonly Associated with Central Nervous System Catheter Infections Elicit Distinct CSF Proteome Signatures Possible reference: Beaver, M. et al. (2023) Bacteria commonly associated with central nervous system catheter infections elicit distinct CSF proteome signatures., Front Neurol, PMID 36864917PXD038235 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis defines the interactome of telomerase in the protozoan parasite, Trypanosoma brucei Possible reference: Davis, JA. et al. (2023) Proteomic analysis defines the interactome of telomerase in the protozoan parasite, Trypanosoma brucei., Front Cell Dev Biol, PMID 37009488PXD038232 Dataset with its publication pending (from PRIDE) Dataset title: Assigning functionality to cysteines by base editing of cancer dependency genes Possible reference: Li, H. et al. (2023) Assigning functionality to cysteines by base editing of cancer dependency genes., Nat Chem Biol, PMID 37783940PXD038225 no publication (from MassIVE) Dataset title: Integrated multi-omics reveals anaplerotic rewiring in methylmalonyl-CoA mutase deficiency Possible reference: Forny, P. et al. (2023) Integrated multi-omics reveals anaplerotic rewiring in methylmalonyl-CoA mutase deficiency., Nat Metab, PMID 36717752PXD038217 no publication (from MassIVE) Dataset title: The NFIB/CARM1 Partnership is a Therapeutic Target for Small Cell Lung Cancer Possible reference: Gao, G. et al. (2023) The NFIB/CARM1 partnership is a driver in preclinical models of small cell lung cancer., Nat Commun, PMID 36690626PXD038208 Dataset with its publication pending (from iProX) Dataset title: Screening of SPOP interacting proteins in hepatocellular carcinoma Possible reference: Deng, Y. et al. (2024) SPOP point mutations regulate substrate preference and affect its function., Cell Death Dis, PMID 38409107PXD038201 Dataset with its publication pending (from PRIDE) Dataset title: A CRISPR/Cas9-mediated screen identifies regulators of early plasma cell differentiation Possible reference: Xiong, E. et al. (2022) A CRISPR/Cas9-mediated screen identifies determinants of early plasma cell differentiation., Front Immunol, PMID 36685499PXD038191 Dataset with its publication pending (from PRIDE) Dataset title: Modelling organ-specific metastatic colonization of cholangiocarcinoma organoids in decellularized lung and lymph nodes Possible reference: van Tienderen, GS. et al. (2022) Modelling metastatic colonization of cholangiocarcinoma organoids in decellularized lung and lymph nodes., Front Oncol, PMID 36741736PXD038174 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of various stages of fermentation of pea isolate in presence of Aspergillus oryzae Possible reference: Das, PP. et al. (2023) Snapshot of proteomic changes in Aspergillus oryzae during various stages of fermentative processing of pea protein isolate., Food Chem (Oxf), PMID 36925614PXD038157 Dataset with its publication pending (from PRIDE) Dataset title: Shuffled ATG8 interacting motifs form an ancestral bridge between UFMylation and C53-mediated autophagy Possible reference: Picchianti, L. et al. (2023) Shuffled ATG8 interacting motifs form an ancestral bridge between UFMylation and autophagy., EMBO J, PMID 36762703PXD038141 no publication (from MassIVE) Dataset title: A ubiquitin-based effector-to-inhibitor switch coordinates brain, craniofacial, and skin development Possible reference: Asmar, AJ. et al. (2023) A ubiquitin-based effector-to-inhibitor switch coordinates early brain, craniofacial, and skin development., Nat Commun, PMID 37495603PXD038132 Dataset with its publication pending (from PRIDE) Dataset title: Chemoproteomic discovery of a human RNA ligase Possible reference: Armenta, DA. et al. (2020) Investigating Nonapoptotic Cell Death Using Chemical Biology Approaches., Cell Chem Biol, PMID 32220334PXD038131 Dataset with its publication pending (from PRIDE) Dataset title: LC-MS/MS of Pseudoregma bambucicola salivary gland and saliva Possible reference: Zhang, H. et al. (2022) Transcriptomic and proteomic analyses provide insights into host adaptation of a bamboo-feeding aphid., Front Plant Sci, PMID 36714746PXD038120 Dataset with its publication pending (from jPOST) Dataset title: Cryo-EM structure of the cytosol AhR complex Possible reference: Gruszczyk, J. et al. (2022) Cryo-EM structure of the agonist-bound Hsp90-XAP2-AHR cytosolic complex., Nat Commun, PMID 36385050PXD038119 Dataset with its publication pending (from PRIDE) Dataset title: Characteristics of Mycobacterium tuberculosis PtpA interaction and activity on the alpha subunit of human mitochondrial trifunctional protein, a key enzyme of lipid metabolism Possible reference: Margenat, M. et al. (2023) Characteristics of Mycobacterium tuberculosis PtpA interaction and activity on the alpha subunit of human mitochondrial trifunctional protein, a key enzyme of lipid metabolism., Front Cell Infect Microbiol, PMID 37424790PXD038104 Dataset with its publication pending (from PRIDE) Dataset title: Bacterial host adaptation through sequence and structural variations of a single type III effector gene Possible reference: Lauber, E. et al. (2024) Bacterial host adaptation through sequence and structural variations of a single type III effector gene., iScience, PMID 38439954PXD038097 Dataset with its publication pending (from jPOST) Dataset title: Secreted dengue virus NS1 is predominantly dimeric and in complex with high-density lipoprotein Possible reference: Chew, BLA. et al. (2024) Secreted dengue virus NS1 from infection is predominantly dimeric and in complex with high-density lipoprotein., Elife, PMID 38787378PXD038092 Dataset with its publication pending (from iProX) Dataset title: Proteomics analysis of saliva in mice with Sjogren's syndrome Possible reference: Misuno, K. et al. (2014) Quantitative analysis of protein and gene expression in salivary glands of Sjogren's-like disease NOD mice treated by bone marrow soup., PLoS One, PMID 24489858PXD038087 no publication (from MassIVE) Dataset title: Comparative proteomic analysis revealing ActJ-regulated proteins in Sinorhizobium meliloti Possible reference: Albicoro, FJ. et al. (2023) Comparative Proteomic Analysis Revealing ActJ-Regulated Proteins in Sinorhizobium meliloti., J Proteome Res, PMID 37017314PXD038075 Dataset with its publication pending (from PRIDE) Dataset title: A viral ADP-ribosyltransferase attaches RNA chains to host proteins Possible reference: Wolfram-Schauerte, M. et al. (2023) A viral ADP-ribosyltransferase attaches RNA chains to host proteins., Nature, PMID 37587340PXD038063 Dataset with its publication pending (from PRIDE) Dataset title: Mass spectrometry analysis of proteins interacting with STING mutants Possible reference: Sun, Y. et al. (2020) Mycobacterium tuberculosis MmsA (Rv0753c) Interacts with STING and Blunts the Type I Interferon Response., mBio, PMID 33262262PXD038045 Dataset with its publication pending (from PRIDE) Dataset title: Systematic analysis of lysine malonylation in Streptococcus mutans Possible reference: Li, Z. et al. (2022) Systematic analysis of lysine malonylation in Streptococcus mutans., Front Cell Infect Microbiol, PMID 36519128PXD038038 Dataset with its publication pending (from PRIDE) Dataset title: Revealing Corynebacterium glutamicum proteoforms through top-down proteomics Possible reference: Melo, RM. et al. (2023) Revealing Corynebacterium glutamicum proteoforms through top-down proteomics., Sci Rep, PMID 36788287PXD038027 Dataset with its publication pending (from PRIDE) Dataset title: Protocol for cell surface biotinylation of magnetic labeled and captured human peripheral blood mononuclear cells Possible reference: Ayaz-Guner, S. et al. (2022) Protocol for cell surface biotinylation of magnetic labeled and captured human peripheral blood mononuclear cells., STAR Protoc, PMID 36595912PXD038007 Dataset with its publication pending (from PRIDE) Dataset title: Toxicoproteomics reveals an effect of Clozapine on autophagy in human liver spheroids Possible reference: Nury, C. et al. (2023) Toxicoproteomics reveals an effect of clozapine on autophagy in human liver spheroids., Toxicol Mech Methods, PMID 36482696PXD038001 Dataset with its publication pending (from PRIDE) Dataset title: An integrated multi-omics analysis of identifies distinct molecular characteristics in pulmonary infections of Pseudomonas aeruginosa Possible reference: Yang, Y. et al. (2023) An integrated multi-omics analysis of identifies distinct molecular characteristics in pulmonary infections of Pseudomonas aeruginosa., PLoS Pathog, PMID 37643174PXD037995 Dataset with its publication pending (from PRIDE) Dataset title: Folding stabilities of ribosome-bound nascent polypeptides probed by mass spectrometry Possible reference: Tan, R. et al. (2023) Folding stabilities of ribosome-bound nascent polypeptides probed by mass spectrometry., Proc Natl Acad Sci U S A, PMID 37552756PXD037992 Dataset with its publication pending (from PRIDE) Dataset title: The Small GTPase Rab7 Regulates Release of Mitochondria in Extracellular Vesicles in Response to Lysosomal Dysfunction Possible reference: Liang, W. et al. (2023) The Small GTPase Rab7 Regulates Release of Mitochondria in Extracellular Vesicles in Response to Lysosomal Dysfunction., bioRxiv, PMID 36824711PXD037975 Dataset with its publication pending (from jPOST) Dataset title: Chronic Strongyloides stercoralis infection increases Ruminococcus torques group and alter microbiome proteome in ivermectin treatment Possible reference: Tran, NTD. et al. (2023) Chronic Strongyloides stercoralis infection increases presence of the Ruminococcus torques group in the gut and alters the microbial proteome., Sci Rep, PMID 36918707PXD037971 Dataset with its publication pending (from iProX) Dataset title: Subcellular Localization Shapes the Fate of RNA Polymerase III Possible reference: Tian, K. et al. (2023) Subcellular localization shapes the fate of RNA polymerase III., Cell Rep, PMID 37556328PXD037957 Dataset with its publication pending (from PRIDE) Dataset title: Mining Nudibranch Symbionts for Biosynthesis of novel Secondary Metabolites Possible reference: Elsaeed, E. et al. (2023) Mining Chromodoris quadricolor symbionts for biosynthesis of novel secondary metabolites., Mar Genomics, PMID 36738602PXD037944 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteome analysis of different Saccharomyces cerevisiae strains during growth on sucrose and glucose Possible reference: Soares Rodrigues, CI. et al. (2023) Comparative proteome analysis of different Saccharomyces cerevisiae strains during growth on sucrose and glucose., Sci Rep, PMID 36746999PXD037942 Dataset with its publication pending (from PRIDE) Dataset title: Thermal proteome profiling in Cryptosporidium parvum Possible reference: Hanna, JC. et al. (2023) Mode of action studies confirm on-target engagement of lysyl-tRNA synthetase inhibitor and lead to new selection marker for Cryptosporidium., Front Cell Infect Microbiol, PMID 37600947PXD037922 Dataset with its publication pending (from PRIDE) Dataset title: DRAK2 alters IL-2 sensitivity and Treg development Possible reference: Mandarano, AH. et al. (2023) DRAK2 contributes to type 1 diabetes by negatively regulating IL-2 sensitivity to alter regulatory Tcell development., Cell Rep, PMID 36773294PXD037918 Dataset with its publication pending (from PRIDE) Dataset title: Citrullinated glucose-regulated protein 78 is a candidate target for cancer immunotherapy Possible reference: Brentville, VA. et al. (2022) Citrullinated glucose-regulated protein 78 is a candidate target for melanoma immunotherapy., Front Immunol, PMID 36544781PXD037906 Dataset with its publication pending (from PRIDE) Dataset title: Human Tim8a, Tim8b and Tim13 are auxiliary assembly factors of mature Complex IV Possible reference: Anderson, AJ. et al. (2023) Human Tim8a, Tim8b and Tim13 are auxiliary assembly factors of mature Complex IV., EMBO Rep, PMID 37272231PXD037901 Dataset with its publication pending (from PRIDE) Dataset title: GABA regulates IL-1β production in macrophages Possible reference: Girard, C. et al. (2012) Axonal regeneration and neuroinflammation: roles for the translocator protein 18 kDa., J Neuroendocrinol, PMID 21951109PXD037895 Dataset with its publication pending (from PRIDE) Dataset title: A Selective Small-Molecule STAT5 PROTAC Degrader Capable of Achieving Tumor Regression In Vivo Possible reference: Kaneshige, A. et al. (2023) A selective small-molecule STAT5 PROTAC degrader capable of achieving tumor regression in vivo., Nat Chem Biol, PMID 36732620PXD037892 Dataset with its publication pending (from PRIDE) Dataset title: The Fgf/Erf/NCoR1/2 repressive axis controls trophoblast cell fate Possible reference: Lackner, A. et al. (2023) The Fgf/Erf/NCoR1/2 repressive axis controls trophoblast cell fate., Nat Commun, PMID 37137875PXD037889 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of extracellular proteins of Clostridium cellulovorans Possible reference: Matsui, K. et al. (2013) Exoproteome profiles of Clostridium cellulovorans grown on various carbon sources., Appl Environ Microbiol, PMID 23956399PXD037883 Dataset with its publication pending (from iProX) Dataset title: DIA mass spectrometry analysis of carotid body tumors revealed the potential mechanism and molecular differences among Shamblin classifications Possible reference: Lv, Y. et al. (2023) Proteomics analysis of carotid body tumor revealed potential mechanisms and molecular differences among Shamblin classifications., Exp Biol Med (Maywood), PMID 37845830PXD037875 Dataset with its publication pending (from PRIDE) Dataset title: Coordinate control of endoplasmic reticulum chaperone biosynthesis and peptide hormone secretion revealed by a β-cell model of Prader-Willi syndrome Possible reference: Koppes, EA. et al. (2023) Insulin secretion deficits in a Prader-Willi syndrome β-cell model are associated with a concerted downregulation of multiple endoplasmic reticulum chaperones., PLoS Genet, PMID 37068109PXD037874 Dataset with its publication pending (from PRIDE) Dataset title: Coordinate control of endoplasmic reticulum chaperone biosynthesis and peptide hormone secretion revealed by a β-cell model of Prader-Willi syndrome Possible reference: Koppes, EA. et al. (2023) Insulin secretion deficits in a Prader-Willi syndrome β-cell model are associated with a concerted downregulation of multiple endoplasmic reticulum chaperones., PLoS Genet, PMID 37068109PXD037859 Dataset with its publication pending (from PRIDE) Dataset title: Synapse integrity and function: dependence on protein synthesis and identification of potential failure points Possible reference: Cohen, LD. et al. (2022) Synapse integrity and function: Dependence on protein synthesis and identification of potential failure points., Front Mol Neurosci, PMID 36583084PXD037847 Dataset with its publication pending (from PRIDE) Dataset title: Environmental gradients reveal stress hubs predating plant terrestrialization Possible reference: Dadras, A. et al. (2023) Environmental gradients reveal stress hubs pre-dating plant terrestrialization., Nat Plants, PMID 37640935PXD037846 Dataset with its publication pending (from PRIDE) Dataset title: Acclimation strategies of the green alga Chlorella vulgaris to different light regimes revealed by physiologic and comparative proteomic analysis Possible reference: Cecchin, M. et al. (2023) Acclimation strategies of the green alga Chlorella vulgaris to different light regimes revealed by physiological and comparative proteomic analyses., J Exp Bot, PMID 37155956PXD037844 Dataset with its publication pending (from PRIDE) Dataset title: Human Beta Defensin-2-mediated protection of human skin barrier in vitro; a mechanistic evaluation Possible reference: Shelley, JR. et al. (2023) A mechanistic evaluation of human beta defensin 2 mediated protection of human skin barrier in vitro., Sci Rep, PMID 36755116PXD037831 Dataset with its publication pending (from jPOST) Dataset title: LPA MPA SPA lung adenocarcinomas Possible reference: Hu, HD. et al. (2013) Histological subtypes of solitary pulmonary nodules of adenocarcinoma and their clinical relevance., J Thorac Dis, PMID 24409363PXD037804 Dataset with its publication pending (from PRIDE) Dataset title: Physiology of trans-translation deficiency in Bacillus subtilis – a comparative proteomics study Possible reference: Vzquez-Hernndez, M. et al. (2023) Physiology of trans-translation deficiency in Bacillus subtilis - a comparative proteomics study., Proteomics, PMID 37496314PXD037803 Dataset with its publication pending (from PRIDE) Dataset title: Multienzyme deep learning models improve peptide de novo sequencing by mass spectrometry proteomics Possible reference: Gueto-Tettay, C. et al. (2023) Multienzyme deep learning models improve peptide de novo sequencing by mass spectrometry proteomics., PLoS Comput Biol, PMID 36668672PXD037800 Dataset with its publication pending (from PRIDE) Dataset title: Whole cell proteome of U2OS cells or Saos-2 cells depleted for SENP3 Possible reference: Larance, M. et al. (2013) Global subcellular characterization of protein degradation using quantitative proteomics., Mol Cell Proteomics, PMID 23242552PXD037795 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vesicles from Trypanosoma cruzi-dendritic cell interaction show modulatory properties and confer resistance to lethal infection as a cell-free based therapy strategy Possible reference: Gutierrez, BC. et al. (2022) Extracellular vesicles from Trypanosoma cruzi-dendritic cell interaction show modulatory properties and confer resistance to lethal infection as a cell-free based therapy strategy., Front Cell Infect Microbiol, PMID 36467728PXD037790 Dataset with its publication pending (from jPOST) Dataset title: The Liquid Chromatography/Tandem Mass Spectrometry-Based Quantification of Angiotensin Ⅱ Possible reference: He, C. et al. (2020) Development of a novel nanoflow liquid chromatography-parallel reaction monitoring mass spectrometry-based method for quantification of angiotensin peptides in HUVEC cultures., PeerJ, PMID 32983648PXD037779 no publication (from MassIVE) Dataset title: MHC Immunopeptidome profiling of human coronavirus OC43-infected cells identifies CD4 T cell epitopes specific to seasonal coronaviruses and epitopes cross-reactive with SARS-CoV-2 Possible reference: Becerra-Artiles, A. et al. (2022) Immunopeptidome profiling of human coronavirus OC43-infected cells identifies CD4 T cell epitopes specific to seasonal coronaviruses or cross-reactive with SARS-CoV-2., bioRxiv, PMID 36482973PXD037759 Dataset with its publication pending (from PRIDE) Dataset title: IRF1 mass-spectrometry primary fibroblasts non-stimulated or stimulated with IFNg for 24h Possible reference: Falcai, A. et al. (2015) Peripheral blood mononuclear cells from severe asthmatic children release lower amounts of IL-12 and IL-4 after LPS stimulation., Allergol Immunopathol (Madr), PMID 25985710PXD037755 Dataset with its publication pending (from PRIDE) Dataset title: Key changes in bovine milk immunoglobulin G during lactation: NeuAc sialylation is a hallmark of colostrum immunoglobulin G N-glycosylation Key changes in bovine milk immunoglobulin G during lactation: NeuAc sialylation is a hallmark of colostrum immunogl Possible reference: Gazi, I. et al. (2023) Key changes in bovine milk immunoglobulin G during lactation: NeuAc sialylation is a hallmark of colostrum immunoglobulin G N-glycosylation., Glycobiology, PMID 36611013PXD037754 Dataset with its publication pending (from PRIDE) Dataset title: P2X7 signaling drives Th1 cell differentiation through metabolic reprogramming for aerobic glycolysis Possible reference: de Salles, M. et al. (2023) P2RX7 signaling drives the differentiation of Th1 cells through metabolic reprogramming for aerobic glycolysis., Front Immunol, PMID 36993971PXD037741 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial dysfunction rapidly modulates the abundance and thermal stability of cellular proteins Possible reference: Groh, C. et al. (2023) Mitochondrial dysfunction rapidly modulates the abundance and thermal stability of cellular proteins., Life Sci Alliance, PMID 36941057PXD037736 Dataset with its publication pending (from PRIDE) Dataset title: Coupled induction of prophage and virulence factors during tick transmission of the Lyme disease spirochete Possible reference: Wachter, J. et al. (2023) Coupled induction of prophage and virulence factors during tick transmission of the Lyme disease spirochete., Nat Commun, PMID 36639656PXD037667 Dataset with its publication pending (from PRIDE) Dataset title: Curcuminoid Supplementation in Canine Diabetic Mellitus and its Complications using Proteomic Analysis Possible reference: Suemanotham, N. et al. (2022) Curcuminoid supplementation in canine diabetic mellitus and its complications using proteomic analysis., Front Vet Sci, PMID 36619946PXD037644 Dataset with its publication pending (from jPOST) Dataset title: Motif-targeting phosphoproteome analysis of cancer cells for profiling kinase inhibitors. Possible reference: Ogata, K. et al. (2022) Motif-Targeting Phosphoproteome Analysis of Cancer Cells for Profiling Kinase Inhibitors., Cancers (Basel), PMID 36612075PXD037611 no publication (from MassIVE) Dataset title: Ammonium Sulfate-based Prefractionation Improved Carbonylated Proteome Coverage in Arabidopsis thaliana Leaf Extract Possible reference: Tola, AJ. et al. (2023) Ammonium sulfate-based prefractionation improved proteome coverage and detection of carbonylated proteins in Arabidopsis thaliana leaf extract., Planta, PMID 36808312PXD037609 Dataset with its publication pending (from PRIDE) Dataset title: Novel protocol for spatial proteome analysis of formalin fixed paraffin embedded tissues Possible reference: Briggs, MT. et al. (2016) MALDI mass spectrometry imaging of N-glycans on tibial cartilage and subchondral bone proteins in knee osteoarthritis., Proteomics, PMID 26992165PXD037601 Dataset with its publication pending (from PRIDE) Dataset title: Functional annotation of proteins for signaling network inference in non-model species Possible reference: Van den Broeck, L. et al. (2023) Functional annotation of proteins for signaling network inference in non-model species., Nat Commun, PMID 37537196PXD037590 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis of zebrafish spinal cord regeneration Possible reference: Salisbury, JP. et al. (2015) The central nervous system transcriptome of the weakly electric brown ghost knifefish (Apteronotus leptorhynchus): de novo assembly, annotation, and proteomics validation., BMC Genomics, PMID 25879418PXD037570 Dataset with its publication pending (from PRIDE) Dataset title: Identification of the proteolytic signature in CVB3-infected cell Possible reference: Vlok, M. et al. (2024) Identification of the proteolytic signature in CVB3-infected cells., J Virol, PMID 38953667PXD037533 no publication (from MassIVE) Dataset title: Scribe: next-generation library searching for DDA experiments Possible reference: Searle, BC. et al. (2023) Scribe: Next Generation Library Searching for DDA Experiments., J Proteome Res, PMID 36695531PXD037524 Dataset with its publication pending (from PRIDE) Dataset title: Myeloperoxidase is a Critical Mediator of Anthracycline-induced Cardiomyopathy Possible reference: Nettersheim, FS. et al. (2023) Myeloperoxidase is a critical mediator of anthracycline-induced cardiomyopathy., Basic Res Cardiol, PMID 37656254PXD037515 no publication (from MassIVE) Dataset title: Proteome wide analysis of hydrogen peroxide-induced protein carbonylation in Arabidopsis thaliana Possible reference: Fangue-Yapseu, GY. et al. (2022) Proteome-wide analysis of hydrogen peroxide-induced protein carbonylation in Arabidopsis thaliana., Front Plant Sci, PMID 36544875PXD037514 no publication (from MassIVE) Dataset title: Comprehensive and quantitative analysis of the changes in proteomic and phosphoproteomic profiles during stimulation and repression of steroidogenesis in MA-10 Leydig cells. Possible reference: Demmouche, ZB. et al. (2022) Comprehensive and Quantitative Analysis of the Changes in Proteomic and Phosphoproteomic Profiles during Stimulation and Repression of Steroidogenesis in MA-10 Leydig Cells., Int J Mol Sci, PMID 36361638PXD037509 Dataset with its publication pending (from PRIDE) Dataset title: Complete integration of carbene-transfer chemistry into biosynthesis Possible reference: Huang, J. et al. (2023) Complete integration of carbene-transfer chemistry into biosynthesis., Nature, PMID 37138074PXD037507 Dataset with its publication pending (from PRIDE) Dataset title: A Subtractive Proteomics Approach for the Identification of Immunodominant Acinetobacter baumannii Vaccine Candidate Proteins Possible reference: Acar, MB. et al. (2022) A subtractive proteomics approach for the identification of immunodominant Acinetobacter baumannii vaccine candidate proteins., Front Immunol, PMID 36439128PXD037490 Dataset with its publication pending (from PRIDE) Dataset title: Synaptic vesicle proteins and ATG9A self-organize in distinct vesicle phases within synapsin condensates Possible reference: Park, D. et al. (2023) Synaptic vesicle proteins and ATG9A self-organize in distinct vesicle phases within synapsin condensates., Nat Commun, PMID 36709207PXD037488 Dataset with its publication pending (from PRIDE) Dataset title: Multigenerational effect of heat stress on the Drosophila melanogaster sperm proteome Possible reference: Khan, S. et al. (2024) Multigenerational Effect of Heat Stress on the Drosophila melanogaster Sperm Proteome., J Proteome Res, PMID 38743012PXD037464 Dataset with its publication pending (from PRIDE) Dataset title: Dynamic partitioning of branched-chain amino acids- derived nitrogen supports renal cancer progression Possible reference: Sciacovelli, M. et al. (2022) Dynamic partitioning of branched-chain amino acids-derived nitrogen supports renal cancer progression., Nat Commun, PMID 36539415PXD037423 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of Plasma Membrane Proteins in Stylosanthes Leaves and Roots Using Simplified Enrichment Method Possible reference: Yang, L. et al. (2022) Characterization of plasma membrane proteins in stylosanthes leaves and roots using simplified enrichment method with a nonionic detergent., Front Plant Sci, PMID 36589080PXD037421 Dataset with its publication pending (from PRIDE) Dataset title: Protein SUMOylation in the Drosophila ovary Possible reference: Talamillo, A. et al. (2013) Scavenger receptors mediate the role of SUMO and Ftz-f1 in Drosophila steroidogenesis., PLoS Genet, PMID 23637637PXD037402 Dataset with its publication pending (from PRIDE) Dataset title: Chemical proteomics reveals protein tyrosination extends beyond the alpha-tubulins in human cells. Possible reference: Makarov, D. et al. (2022) Chemical Proteomics Reveals Protein Tyrosination Extends Beyond the Alpha-Tubulins in Human Cells., Chembiochem, PMID 36218090PXD037391 Dataset with its publication pending (from PRIDE) Dataset title: Oxidized thioredoxin-1 restrains the NLRP1 inflammasome Possible reference: Ball, DP. et al. (2022) Oxidized thioredoxin-1 restrains the NLRP1 inflammasome., Sci Immunol, PMID 36332009PXD037376 Dataset with its publication pending (from PRIDE) Dataset title: Targeting CHAF1B enhances interferon activity in myeloproliferative neoplasms Possible reference: Saleiro, D. et al. (2023) Targeting CHAF1B Enhances IFN Activity against Myeloproliferative Neoplasm Cells., Cancer Res Commun, PMID 37377894PXD037351 Dataset with its publication pending (from iProX) Dataset title: AggLink probe for aggregated proteome Possible reference: Shen, D. et al. (2023) Developing an Affinity-Based Chemical Proteomics Method to In Situ Capture Amorphous Aggregated Proteome and Profile Its Heterogeneity in Stressed Cells., Anal Chem, PMID 37017602PXD037350 Dataset with its publication pending (from iProX) Dataset title: Multi-Comparative Thermal Proteome Profiling Uncovers New O-GlcNAc Proteins in System-Wide Possible reference: Wang, G. et al. (2023) Multi-comparative Thermal Proteome Profiling Uncovers New O-GlcNAc Proteins in a System-wide Method., Anal Chem, PMID 36580660PXD037346 Dataset with its publication pending (from PRIDE) Dataset title: A proteomic analysis shows stimulation of light reactions and inhibition of Calvin cycle in skin chloroplasts of ripe red grape berries Possible reference: Teixeira, A. et al. (2022) A proteomic analysis shows the stimulation of light reactions and inhibition of the Calvin cycle in the skin chloroplasts of ripe red grape berries., Front Plant Sci, PMID 36388544PXD037340 Dataset with its publication pending (from PRIDE) Dataset title: Deep plasma proteome profiling by enrichment of extracellular vesicles Possible reference: Lattmann, E. et al. (2024) Size-exclusion chromatography combined with DIA-MS enables deep proteome profiling of extracellular vesicles from melanoma plasma and serum., Cell Mol Life Sci, PMID 38353833PXD037337 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics explored the feasibility of curcumin as anticancer copper ionophore Possible reference: Yang, Y. et al. (2022) Proteomics revealed the crosstalk between copper stress and cuproptosis, and explored the feasibility of curcumin as anticancer copper ionophore., Free Radic Biol Med, PMID 36395954PXD037335 Dataset with its publication pending (from PRIDE) Dataset title: Target of L-menthol in keratinocytes Possible reference: Wang, Z. et al. (2022) Targeting the transcription factor HES1 by L-menthol restores protein phosphatase 6 in keratinocytes in models of psoriasis., Nat Commun, PMID 36535970PXD037321 Dataset with its publication pending (from PRIDE) Dataset title: β-OHB Reduces Reinstatement of Cocaine Conditioned Place Preference Through Hippocampal CaMKII-α β-Hydroxybutyrylation Possible reference: Li, H. et al. (2022) β-hydroxybutyrate reduces reinstatement of cocaine conditioned place preference through hippocampal CaMKII-α β-hydroxybutyrylation., Cell Rep, PMID 36450263PXD037305 no publication (from MassIVE) Dataset title: Urinary Proteome of Chronic Kidney Disease of Unknown Etiology (CKDu) Possible reference: Kolli, RT. et al. (2023) The urinary proteome infers dysregulation of mitochondrial, lysosomal, and protein reabsorption processes in chronic kidney disease of unknown etiology (CKDu)., Am J Physiol Renal Physiol, PMID 36794752PXD037303 Dataset with its publication pending (from iProX) Dataset title: Integrative analysis of proteomics and transcriptomics of longissimus dorsi of the Different Feeding Systems the Yaks Possible reference: Ma, X. et al. (2023) Integrative Analysis of Proteomics and Transcriptomics of Longissimus dorsi with Different Feeding Systems in Yaks., Foods, PMID 36673349PXD037302 Dataset with its publication pending (from iProX) Dataset title: Excessive sulfur oxidation in endoplasmic reticulum drives an inflammatory reaction of chondrocytes in aging mice Possible reference: Chen, K. et al. (2022) Excessive sulfur oxidation in endoplasmic reticulum drives an inflammatory reaction of chondrocytes in aging mice., Front Pharmacol, PMID 36353501PXD037299 no publication (from MassIVE) Dataset title: KIBRA repairs synaptic plasticity and promotes resilience to tauopathy-related memory loss Possible reference: Kauwe, G. et al. (2023) KIBRA repairs synaptic plasticity and promotes resilience to tauopathy-related memory loss., bioRxiv, PMID 37398236PXD037298 Dataset with its publication pending (from jPOST) Dataset title: Impact of internal fragments on top-down analysis of intact proteins by 193 nm UVPD Possible reference: Dunham, SD. et al. (2023) Impact of Internal Fragments on Top-Down Analysis of Intact Proteins by 193 nm UVPD., J Proteome Res, PMID 36503236PXD037291 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteome and phosphoproteome datasets of DNA replication and mitosis in Saccharomyces cerevisiae Possible reference: Rossio, V. et al. (2022) Quantitative proteome and phosphoproteome datasets of DNA replication and mitosis in Saccharomyces cerevisiae., Data Brief, PMID 36425962PXD037281 Dataset with its publication pending (from PRIDE) Dataset title: Genome-scale metabolic modeling reveals metabolic trade-offs associated with lipid production in Rhodotorula toruloides Possible reference: Reķēna, A. et al. (2023) Genome-scale metabolic modeling reveals metabolic trade-offs associated with lipid production in Rhodotorula toruloides., PLoS Comput Biol, PMID 37099621PXD037278 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics revealed the crosstalk between copper stress and cuproptosis Possible reference: Yang, Y. et al. (2022) Proteomics revealed the crosstalk between copper stress and cuproptosis, and explored the feasibility of curcumin as anticancer copper ionophore., Free Radic Biol Med, PMID 36395954PXD037263 Dataset with its publication pending (from PRIDE) Dataset title: The dimeric deubiquitinase Usp28 integrates 53bp1 and Myc functions to limit DNA damage Possible reference: Jin, C. et al. (2024) The dimeric deubiquitinase USP28 integrates 53BP1 and MYC functions to limit DNA damage., Nucleic Acids Res, PMID 38227944PXD037253 Dataset with its publication pending (from PRIDE) Dataset title: Growth Signaling Autonomy in Circulating Tumor Cells Aids Metastatic Seeding Possible reference: Sinha, S. et al. (2024) Growth signaling autonomy in circulating tumor cells aids metastatic seeding., PNAS Nexus, PMID 38312224PXD037250 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic and in silico analyses of the influence of dextran synthesis on the adaptation of Leuconostoc lactis AV1n to temperature change Possible reference: Besrour-Aouam, N. et al. (2022) Proteomic and in silico analyses of dextran synthesis influence on Leuconostoc lactis AV1n adaptation to temperature change., Front Microbiol, PMID 36713162PXD037230 Dataset with its publication pending (from PRIDE) Dataset title: Scleraxis-lineage cells are required for tendon homeostasis and their depletion induces an accelerated extracellular matrix aging phenotype Possible reference: Korcari, A. et al. (2023) Scleraxis-lineage cells are required for tendon homeostasis and their depletion induces an accelerated extracellular matrix aging phenotype., Elife, PMID 36656751PXD037227 Dataset with its publication pending (from PRIDE) Dataset title: Phospho heavy-labeled-spiketide FAIMS stepped-CV DDA (pHASED) provides real-time phosphoproteomics data to aid in cancer drug selection Possible reference: Staudt, DE. et al. (2022) Phospho-heavy-labeled-spiketide FAIMS stepped-CV DDA (pHASED) provides real-time phosphoproteomics data to aid in cancer drug selection., Clin Proteomics, PMID 36536316PXD037226 Dataset with its publication pending (from jPOST) Dataset title: Enabling the Photo-crosslinking and Photo-sensitizing Chemistry for Synthetic Fluorescent Protein Chromophore Possible reference: Feng, H. et al. (2023) Enabling Photo-Crosslinking and Photo-Sensitizing Properties for Synthetic Fluorescent Protein Chromophores., Angew Chem Int Ed Engl, PMID 36370037PXD037225 no publication (from MassIVE) Dataset title: Surfaceome analysis of extracellular vesicles from senescent cells uncovers uptake repressor DPP4 Possible reference: Meng, Q. et al. (2023) Surfaceome analysis of extracellular vesicles from senescent cells uncovers uptake repressor DPP4., Proc Natl Acad Sci U S A, PMID 37862381PXD037218 Dataset with its publication pending (from jPOST) Dataset title: Metaproteomic analysis of gut resistome in the cecal microbiota of fattening pigs raised without antibiotics Possible reference: Buthasane, P. et al. (2023) Metaproteomic Analysis of Gut Resistome in the Cecal Microbiota of Fattening Pigs Raised without Antibiotics., Microbiol Spectr, PMID 37439677PXD037214 Dataset with its publication pending (from iProX) Dataset title: Potential significance of peptidome in placentae with fetal growth restriction Possible reference: Xu, L. et al. (2016) Differential proteomic expression of human placenta and fetal development following e-waste lead and cadmium exposure in utero., Sci Total Environ, PMID 26895036PXD037209 Dataset with its publication pending (from iProX) Dataset title: Design, Construction and Functional Characterization of a tRNA Neochromosome in Yeast Possible reference: Schindler, D. et al. (2023) Design, construction, and functional characterization of a tRNA neochromosome in yeast., Cell, PMID 37944512PXD037203 no publication (from MassIVE) Dataset title: Newly synthesized glycoproteins during ex vivo lung perfusion Possible reference: Ling, Z. et al. (2023) Newly synthesized glycoprotein profiling to identify molecular signatures of warm ischemic injury in donor lungs., Am J Physiol Lung Cell Mol Physiol, PMID 37130807PXD037201 no publication (from MassIVE) Dataset title: IKACH IS CONSTITUTIVELY ACTIVE VIA PKC EPSILON IN AGING MEDIATED ATRIAL FIBRILLATION Possible reference: Chang, M. et al. (2022) IKACh is constitutively active via PKC epsilon in aging mediated atrial fibrillation., iScience, PMID 36388956PXD037182 Dataset with its publication pending (from PRIDE) Dataset title: The E3 ligase TRIM25 impairs apoptotic cell death in colon carcinoma cells through hnRNPH1-triggered destabilization of caspase-7 mRNA Possible reference: Nasrullah, U. et al. (2023) The E3 Ligase TRIM25 Impairs Apoptotic Cell Death in Colon Carcinoma Cells via Destabilization of Caspase-7 mRNA: A Possible Role of hnRNPH1., Cells, PMID 36611995PXD037181 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of acrosin and acrosin binding protein as novel CRISP2 interacting proteins in boar spermatozoa Possible reference: Zhang, M. et al. (2023) Characterization of acrosin and acrosin binding protein as novel CRISP2 interacting proteins in boar spermatozoa., Andrology, PMID 36815564PXD037176 Dataset with its publication pending (from PRIDE) Dataset title: Inactivation of Influenza A virus under expiratory aerosol conditions is mediated by structural protein changes, as determined by whole virus mass-spectrometry. Possible reference: David, SC. et al. (2023) Inactivation mechanisms of influenza A virus under pH conditions encountered in aerosol particles as revealed by whole-virus HDX-MS., mSphere, PMID 37594288PXD037154 Dataset with its publication pending (from PRIDE) Dataset title: PARP1 proximity proteomics reveals interaction partners at stressed replication forks Possible reference: Mosler, T. et al. (2022) PARP1 proximity proteomics reveals interaction partners at stressed replication forks., Nucleic Acids Res, PMID 36350633PXD037153 Dataset with its publication pending (from PRIDE) Dataset title: Nonionic surfactants can modify the thermal stability of globular and membrane proteins interfering with the thermal proteome profiling principles to identify protein targets Possible reference: Berlin, E. et al. (2023) Nonionic Surfactants can Modify the Thermal Stability of Globular and Membrane Proteins Interfering with the Thermal Proteome Profiling Principles to Identify Protein Targets., Anal Chem, PMID 36779864PXD037143 Dataset with its publication pending (from PRIDE) Dataset title: Triap1 upregulation promotes escape from mitotic slippage-induced G1 arrest Possible reference: Pavani, M. et al. (2023) Triap1 upregulation promotes escape from mitotic-slippage-induced G1 arrest., Cell Rep, PMID 36917609PXD037140 Dataset with its publication pending (from PRIDE) Dataset title: H11-induced immune protection is predominantly linked to N-glycan moieties Possible reference: Wang, C. et al. (2022) H11-induced immunoprotection is predominantly linked to N-glycan moieties during Haemonchus contortus infection., Front Immunol, PMID 36405717PXD037134 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive glycoprofiling of oral tumours associates N-glycosylation with lymph node metastasis and patient survival Possible reference: Carnielli, CM. et al. (2023) Comprehensive Glycoprofiling of Oral Tumors Associates N-Glycosylation With Lymph Node Metastasis and Patient Survival., Mol Cell Proteomics, PMID 37268159PXD037126 no publication (from MassIVE) Dataset title: Integrative analysis of green ash phloem transcripts and proteins during an emerald ash borer infestation Possible reference: Chiu, CC. et al. (2023) Integrative analysis of green ash phloem transcripts and proteins during an emerald ash borer infestation., BMC Plant Biol, PMID 36869316PXD037111 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic dataset of the moss Physcomitrium patens PpRALF knockout lines Possible reference: Mamaeva, A. et al. (2022) Quantitative proteomic dataset of the moss Physcomitrium patens SMG1 KO mutant line., Data Brief, PMID 34977295PXD037108 Dataset with its publication pending (from PRIDE) Dataset title: Termination of STING responses is mediated via ESCRT-dependent degradation Possible reference: Gentili, M. et al. (2023) ESCRT-dependent STING degradation inhibits steady-state and cGAMP-induced signalling., Nat Commun, PMID 36739287PXD037106 Dataset with its publication pending (from PRIDE) Dataset title: Transcriptome and proteome analysis of human brain organoids Possible reference: Gonneaud, A. et al. (2017) Phenotypic Analysis of Organoids by Proteomics., Proteomics, PMID 28643936PXD037101 Dataset with its publication pending (from PRIDE) Dataset title: Amino Acids Downregulate SIRT4 to Detoxify Ammonia through the Urea Cycle Possible reference: Hu, SH. et al. (2023) Amino acids downregulate SIRT4 to detoxify ammonia through the urea cycle., Nat Metab, PMID 37081161PXD037098 Dataset with its publication pending (from PRIDE) Dataset title: Multi-omics Analyses Reveal Sex Differences in Mouse Renal Proximal Tubules Possible reference: Chen, L. et al. (2023) Multiomics Analyses Reveal Sex Differences in Mouse Renal Proximal Subsegments., J Am Soc Nephrol, PMID 36758122PXD037085 no publication (from MassIVE) Dataset title: The natural diversity of the yeast proteome reveals chromosome-wide dosage compensation in aneuploids Possible reference: Muenzner, J. et al. (2024) Natural proteome diversity links aneuploidy tolerance to protein turnover., Nature, PMID 38778096PXD037079 Dataset with its publication pending (from iProX) Dataset title: TMT-Based Quantitative Proteomics Reveals the Targets of Andrographolide on LPS-induced Liver Injury Possible reference: Ge, S. et al. (2023) TMT-based quantitative proteomics reveals the targets of andrographolide on LPS-induced liver injury., BMC Vet Res, PMID 37817228PXD037071 Dataset with its publication pending (from jPOST) Dataset title: Enabling the Photo-crosslinking and Photo-sensitizing Chemistry for Synthetic Fluorescent Protein Chromophore Possible reference: Feng, H. et al. (2023) Enabling Photo-Crosslinking and Photo-Sensitizing Properties for Synthetic Fluorescent Protein Chromophores., Angew Chem Int Ed Engl, PMID 36370037PXD037063 Dataset with its publication pending (from PRIDE) Dataset title: Calliactis polypus acontia venom Possible reference: Smith, HL. et al. (2023) Acontia, a Specialised Defensive Structure, Has Low Venom Complexity in Calliactis polypus., Toxins (Basel), PMID 36977109PXD037037 Dataset with its publication pending (from PRIDE) Dataset title: Mechanisms of stop codon readthrough mitigation reveal principles of GCN1 mediated translational quality control Possible reference: Mller, MBD. et al. (2023) Mechanisms of readthrough mitigation reveal principles of GCN1-mediated translational quality control., Cell, PMID 37339632PXD037030 Dataset with its publication pending (from PRIDE) Dataset title: Structural Assessment of the Full-Length Tumor Suppressor Protein p53 by Mass Spectrometry-Guided Computational Modeling Possible reference: Di Ianni, A. et al. (2023) Structural assessment of the full-length wild-type tumor suppressor protein p53 by mass spectrometry-guided computational modeling., Sci Rep, PMID 37231156PXD037017 Dataset with its publication pending (from iProX) Dataset title: O-GlcNAcylation determines the biological function of YTHDF proteins Possible reference: Chen, Y. et al. (2023) O-GlcNAcylation determines the translational regulation and phase separation of YTHDF proteins., Nat Cell Biol, PMID 37945829PXD037011 Dataset with its publication pending (from iProX) Dataset title: The proteome and phosphoproteome of Intrahepatic Cholangiocarcinoma patients Possible reference: Khorsandi, SE. et al. (2021) Computational Analysis of Cholangiocarcinoma Phosphoproteomes Identifies Patient-Specific Drug Targets., Cancer Res, PMID 34551960PXD037002 Dataset with its publication pending (from PRIDE) Dataset title: Integrated Proteomic and Metabolomic Profiling of Urine of Renal Anemia Patients Uncovers Molecular Mechanisms of Roxadustat Possible reference: You, X. et al. (2023) Integrated proteomic and metabolomic profiling of urine of renal anemia patients uncovers the molecular mechanisms of roxadustat., Mol Omics, PMID 37039271PXD036995 Dataset with its publication pending (from PRIDE) Dataset title: Tyrosine phosphorylation regulates RIPK1 activity to limit cell death and inflammation Possible reference: Tu, H. et al. (2022) Tyrosine phosphorylation regulates RIPK1 activity to limit cell death and inflammation., Nat Commun, PMID 36329033PXD036993 Dataset with its publication pending (from PRIDE) Dataset title: Muscle stem cell maintenance and regeneration of skeletal muscle require functional motor innervation Possible reference: Coletti, C. et al. (2022) Exercise-mediated reinnervation of skeletal muscle in elderly people: An update., Eur J Transl Myol, PMID 35234025PXD036982 Dataset with its publication pending (from PRIDE) Dataset title: All-in-One Digital Microfluidics Pipeline for Proteomic Sample Preparation and Analysis Possible reference: Peng, J. et al. (2023) All-in-One digital microfluidics pipeline for proteomic sample preparation and analysis., Chem Sci, PMID 36937585PXD036976 Dataset with its publication pending (from PRIDE) Dataset title: Liver RBFOX2 regulates cholesterol homeostasis via Scarb1 alternative splicing in mice Possible reference: Paterson, HAB. et al. (2022) Liver RBFOX2 regulates cholesterol homeostasis via Scarb1 alternative splicing in mice., Nat Metab, PMID 36536133PXD036953 Dataset with its publication pending (from PRIDE) Dataset title: The interactome of flavin adenine dinucleotide (FAD) with RNA-binding proteins Possible reference: Prokofeva, P. et al. (2022) Merits of Diazirine Photo-Immobilization for Target Profiling of Natural Products and Cofactors., ACS Chem Biol, PMID 36302507PXD036946 Dataset with its publication pending (from PRIDE) Dataset title: BioID of 41 ASD-risk genes to identify protein-protein interaction networks and shared pathways Possible reference: Murtaza, N. et al. (2022) Neuron-specific protein network mapping of autism risk genes identifies shared biological mechanisms and disease-relevant pathologies., Cell Rep, PMID 36417873PXD036940 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular matrix educates a tumor macrophage phenotype found in ovarian cancer metastasis Possible reference: Puttock, EH. et al. (2023) Extracellular matrix educates an immunoregulatory tumor macrophage phenotype found in ovarian cancer metastasis., Nat Commun, PMID 37188691PXD036934 Dataset with its publication pending (from PRIDE) Dataset title: Structural and functional analysis of peptides derived from KEX2-processed repeat proteins in agaricomycetes using reverse genetics and peptidomics Possible reference: Vogt, E. et al. (2022) Structural and Functional Analysis of Peptides Derived from KEX2-Processed Repeat Proteins in Agaricomycetes Using Reverse Genetics and Peptidomics., Microbiol Spectr, PMID 36314921PXD036900 Dataset with its publication pending (from PRIDE) Dataset title: Biomarkers found in the tumor interstitial fluid may help explain the differential behavior among keratinocyte carcinomas Possible reference: Matas-Nadal, C. et al. (2023) Biomarkers Found in the Tumor Interstitial Fluid may Help Explain the Differential Behavior Among Keratinocyte Carcinomas., Mol Cell Proteomics, PMID 37059366PXD036880 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analyses of brassinosteroids mutants in response to salt stress in Arabidopsis Possible reference: Feng, L. et al. (2023) Integrative transcriptomic and proteomic analyses reveal a positive role of BES1 in salt tolerance in Arabidopsis., Front Plant Sci, PMID 36938058PXD036870 Dataset with its publication pending (from iProX) Dataset title: Chlamydomonas reinhardtii cc125 Cd stress Possible reference: Yu, Z. et al. (2019) Sensitivity of Chlamydomonas reinhardtii to cadmium stress is associated with phototaxis., Environ Sci Process Impacts, PMID 31120077PXD036865 Dataset with its publication pending (from PRIDE) Dataset title: Selective PROTAC-mediated degradation of SMARCA2 is efficacious in SMARCA4 mutant cancers Possible reference: Cantley, J. et al. (2022) Selective PROTAC-mediated degradation of SMARCA2 is efficacious in SMARCA4 mutant cancers., Nat Commun, PMID 36357397PXD036859 Dataset with its publication pending (from PRIDE) Dataset title: Production and properties of adhesin-free gingipain proteinase RgpA Possible reference: Mahmud, ASM. et al. (2023) Production and properties of adhesin-free gingipain proteinase RgpA., Sci Rep, PMID 37402780PXD036849 no publication (from MassIVE) Dataset title: Comprehensive characterization of the Hsp70 interactome reveals novel client proteins and interactions mediated by post-translational modifications Possible reference: Nitika, . et al. (2022) Comprehensive characterization of the Hsp70 interactome reveals novel client proteins and interactions mediated by posttranslational modifications., PLoS Biol, PMID 36269765PXD036846 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of the mouse cerebral cortex in ketamine-induced schizophrenia Possible reference: Xiao, L. et al. (2024) Proteomic Characteristics of the Prefrontal Cortex and Hippocampus in Mice with Chronic Ketamine-Induced Anxiety and Cognitive Impairment., Neuroscience, PMID 38266908PXD036811 Dataset with its publication pending (from PRIDE) Dataset title: Microbial Peptides Activate Tumor-Infiltrating Lymphocytes in Glioblastoma Possible reference: Naghavian, R. et al. (2023) Microbial peptides activate tumour-infiltrating lymphocytes in glioblastoma., Nature, PMID 37198490PXD036809 Dataset with its publication pending (from PRIDE) Dataset title: The histone chaperone NASP maintains H3-H4 reservoirs in the early Drosophila embryo Possible reference: Tirgar, R. et al. (2023) The histone chaperone NASP maintains H3-H4 reservoirs in the early Drosophila embryo., PLoS Genet, PMID 36930688PXD036792 Dataset with its publication pending (from PRIDE) Dataset title: Interactome dynamics of RAF1-BRAF kinase monomers and dimers Possible reference: Iglesias-Martinez, LF. et al. (2023) Interactome dynamics of RAF1-BRAF kinase monomers and dimers., Sci Data, PMID 37045861PXD036789 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of skeletal muscles from wild type and transgenic mice carrying recessive Ryr1 mutations Possible reference: Eckhardt, J. et al. (2023) Quantitative proteomic analysis of skeletal muscles from wild-type and transgenic mice carrying recessive Ryr1 mutations linked to congenital myopathies., Elife, PMID 36862731PXD036785 Dataset with its publication pending (from PRIDE) Dataset title: Multi-Omics analysis revealed a significant alteration of critical metabolic pathways due to sorafenib-resistance in Hep3B cell lines Possible reference: Abushawish, KYI. et al. (2022) Multi-Omics Analysis Revealed a Significant Alteration of Critical Metabolic Pathways Due to Sorafenib-Resistance in Hep3B Cell Lines., Int J Mol Sci, PMID 36233276PXD036781 Dataset with its publication pending (from PRIDE) Dataset title: A Natural Biological Adhesive from Snail Mucus for Wound Repair Possible reference: McDermott, M. et al. (2021) Advancing Discovery of Snail Mucins Function and Application., Front Bioeng Biotechnol, PMID 34708024PXD036760 Dataset with its publication pending (from iProX) Dataset title: Characteristics of Proteome Changes in Brain Regions of Chronic Ketamine-Induced Schizophrenia Mice Possible reference: Xiao, L. et al. (2024) Proteomic Characteristics of the Prefrontal Cortex and Hippocampus in Mice with Chronic Ketamine-Induced Anxiety and Cognitive Impairment., Neuroscience, PMID 38266908PXD036755 Dataset with its publication pending (from iProX) Dataset title: Canopy light distribution effects on light use efficiency in wheat and its mechanism Possible reference: Reynolds, M. et al. (2012) Achieving yield gains in wheat., Plant Cell Environ, PMID 22860982PXD036744 Dataset with its publication pending (from PRIDE) Dataset title: Cellular proteomic profiling using proximity labelling by TurboID-NES in microglial and neuronal cell lines. Possible reference: Sunna, S. et al. (2023) Cellular Proteomic Profiling Using Proximity Labeling by TurboID-NES in Microglial and Neuronal Cell Lines., Mol Cell Proteomics, PMID 37061046PXD036737 Dataset with its publication pending (from PRIDE) Dataset title: Arginine limitation causes a directed DNA sequence evolution response in colorectal cancer cells Possible reference: Hsu, DJ. et al. (2023) Arginine limitation drives a directed codon-dependent DNA sequence evolution response in colorectal cancer cells., Sci Adv, PMID 36608131PXD036733 Dataset with its publication pending (from jPOST) Dataset title: A robust glycoproteomics platform reveals a tetra-antennary site-specific glycan capping with sialyl-Lewis antigen for early detection of gastric cancer Possible reference: Liu, L. et al. (2024) Robust Glycoproteomics Platform Reveals a Tetra-Antennary Site-Specific Glycan Capping with Sialyl-Lewis Antigen for Early Detection of Gastric Cancer., Adv Sci (Weinh), PMID 38084450PXD036684 no publication (from MassIVE) Dataset title: Tumor-produced and aging-associated oncometabolite methylmalonic acid promotes cancer-associated fibroblast activation to drive metastatic progression Possible reference: Li, Z. et al. (2022) Tumor-produced and aging-associated oncometabolite methylmalonic acid promotes cancer-associated fibroblast activation to drive metastatic progression., Nat Commun, PMID 36266345PXD036679 Dataset with its publication pending (from PRIDE) Dataset title: Macrophage infectivity potentiator protein, a peptidyl prolyl cis/trans isomerase, essential for Coxiella burnetii growth and pathogenesis Possible reference: Debowski, AW. et al. (2023) Macrophage infectivity potentiator protein, a peptidyl prolyl cis-trans isomerase, essential for Coxiella burnetii growth and pathogenesis., PLoS Pathog, PMID 37399210PXD036676 Dataset with its publication pending (from PRIDE) Dataset title: Staphylococcus aureus prophage-encoded protein causes abortive infection and provides population immunity against kayviruses Possible reference: Kuntov, L. et al. (2023) Staphylococcus aureus Prophage-Encoded Protein Causes Abortive Infection and Provides Population Immunity against Kayviruses., mBio, PMID 36779718PXD036674 Dataset with its publication pending (from PRIDE) Dataset title: MYC multimers shield stalled replication forks from RNA polymerase Possible reference: Solvie, D. et al. (2022) MYC multimers shield stalled replication forks from RNA polymerase., Nature, PMID 36424410PXD036659 Dataset with its publication pending (from PRIDE) Dataset title: On the relationship between metabolic capacities and in vivo viscoelastic properties of the liver Possible reference: Shahryari, M. et al. (2022) On the relationship between metabolic capacities and in vivo viscoelastic properties of the liver., Front Bioeng Biotechnol, PMID 36698634PXD036616 Dataset with its publication pending (from PRIDE) Dataset title: Loss of Drosophila Clueless differentially affects the mitochondrial proteome compared to loss of Sod2 and Pink1 Possible reference: Sen, A. et al. (2022) Loss of Drosophila Clueless differentially affects the mitochondrial proteome compared to loss of Sod2 and Pink1., Front Physiol, PMID 36388112PXD036614 Dataset with its publication pending (from PRIDE) Dataset title: Multi-omic profiling of breast cancer cells uncovers stress MAPK-associated sensitivity to AKT degradation Possible reference: Erickson, EC. et al. (2024) Multiomic profiling of breast cancer cells uncovers stress MAPK-associated sensitivity to AKT degradation., Sci Signal, PMID 38412255PXD036601 Dataset with its publication pending (from jPOST) Dataset title: EVTOP: extracellular vesicle to phosphoproteomics with microliters of biofluids Possible reference: Sun, J. et al. (2023) Profiling Phosphoproteome Landscape in Circulating Extracellular Vesicles from Microliters of Biofluids through Functionally Tunable Paramagnetic Separation., Angew Chem Int Ed Engl, PMID 37216424PXD036589 Dataset with its publication pending (from PRIDE) Dataset title: PPARγ lipodystrophy mutants reveal intermolecular interactions required for enhancer activation Possible reference: Madsen, MS. et al. (2022) PPARγ lipodystrophy mutants reveal intermolecular interactions required for enhancer activation., Nat Commun, PMID 36402763PXD036586 Dataset with its publication pending (from PRIDE) Dataset title: Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation Possible reference: Li, B. et al. (2023) Differential regulation of mRNA stability modulates transcriptional memory and facilitates environmental adaptation., Nat Commun, PMID 36801853PXD036578 Dataset with its publication pending (from PRIDE) Dataset title: Investigating the effects of glyphosate on the bumblebee proteome and microbiota Possible reference: Cullen, MG. et al. (2023) Investigating the effects of glyphosate on the bumblebee proteome and microbiota., Sci Total Environ, PMID 36566850PXD036577 Dataset with its publication pending (from PRIDE) Dataset title: Mitotic spindle disassembly in human cells relies on CRIPT having hierarchical redox signals Possible reference: Xu, K. et al. (2022) Mitotic spindle disassembly in human cells relies on CRIPT having hierarchical redox signals., J Cell Sci, PMID 36148798PXD036569 Dataset with its publication pending (from PRIDE) Dataset title: SITE-SPECIFIC ACTIVITY-BASED PROTEIN PROFILING USING PHOSPHONATE HANDLES Possible reference: van Bergen, W. et al. (2023) Site-Specific Activity-Based Protein Profiling Using Phosphonate Handles., Mol Cell Proteomics, PMID 36435334PXD036563 Dataset with its publication pending (from PRIDE) Dataset title: Host biomarker discovery for ectoparasite resistance in cattle Possible reference: Raza, A. et al. (2021) Serum proteomes of Santa Gertrudis cattle before and after infestation with Rhipicephalus australis ticks., Parasite Immunol, PMID 33843060PXD036557 Dataset with its publication pending (from PRIDE) Dataset title: Modelling Premature Cardiac Aging with Induced Pluripotent Stem Cells From a Hutchinson-Gilford Progeria Syndrome Patient Possible reference: Lee, YK. et al. (2016) Recent advances in animal and human pluripotent stem cell modeling of cardiac laminopathy., Stem Cell Res Ther, PMID 27649756PXD036550 Dataset with its publication pending (from iProX) Dataset title: Metabolomics-based study of metabolic defects in neonates Possible reference: Troisi, J. et al. (2018) A metabolomics-based approach for non-invasive screening of fetal central nervous system anomalies., Metabolomics, PMID 30830338PXD036534 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic analysis of near isogenic lines for qDSI.4B.1 QTL on short arm of chromosome 4B conferring drought tolerance in wheat Possible reference: Nouraei, S. et al. (2024) Proteomic analysis of near-isogenic lines reveals key biomarkers on wheat chromosome 4B conferring drought tolerance., Plant Genome, PMID 37199103PXD036528 Dataset with its publication pending (from PRIDE) Dataset title: The transcriptional coactivator RUVBL2 regulates Pol II clustering with diverse transcription factors Possible reference: Wang, H. et al. (2022) The transcriptional coactivator RUVBL2 regulates Pol II clustering with diverse transcription factors., Nat Commun, PMID 36171202PXD036520 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of tissue-engineered, small-diameter vascular grafts implanted into the ovine carotid artery Possible reference: Antonova, L. et al. (2022) Controlled and Synchronised Vascular Regeneration upon the Implantation of Iloprost- and Cationic Amphiphilic Drugs-Conjugated Tissue-Engineered Vascular Grafts into the Ovine Carotid Artery: A Proteomics-Empowered Study., Polymers (Basel), PMID 36501545PXD036511 Dataset with its publication pending (from PRIDE) Dataset title: ER-Golgi membrane contact sites control the formation of plasma membrane lipid nanodomains required for anthrax intoxication Possible reference: Anwar, MU. et al. (2022) ER-Golgi-localized proteins TMED2 and TMED10 control the formation of plasma membrane lipid nanodomains., Dev Cell, PMID 36174556PXD036505 Dataset with its publication pending (from PRIDE) Dataset title: Global analysis of lysine 2-hydroxyisobutyrylation in Glycine max Possible reference: Zhao, W. et al. (2023) Proteomic analysis of protein lysine 2-hydroxyisobutyrylation(Khib) in soybean leaves., BMC Plant Biol, PMID 36631736PXD036497 Dataset with its publication pending (from iProX) Dataset title: Multi-Omics Integration Highlights the Role of Ubiquitination in Endometriosis Fibrosis Possible reference: Yang, M. et al. (2024) Multi-omics integration highlights the role of ubiquitination in endometriosis fibrosis., J Transl Med, PMID 38735939PXD036475 Dataset with its publication pending (from PRIDE) Dataset title: Global profiling of the RNA and protein complexes of Escherichia coli by size exclusion chromatography followed by RNA sequencing and mass spectrometry (SEC-seq) Possible reference: Chihara, K. et al. (2022) Global profiling of the RNA and protein complexes of Escherichia coli by size exclusion chromatography followed by RNA sequencing and mass spectrometry (SEC-seq)., RNA, PMID 36328526PXD036459 Dataset with its publication pending (from iProX) Dataset title: The proteomics of Coreius guichenoti Possible reference: Duan, Y. et al. (2022) Studies on the molecular level changes and potential resistance mechanism of Coreius guichenoti under temperature stimulation., Front Genet, PMID 36263436PXD036450 Dataset with its publication pending (from PRIDE) Dataset title: Diadenosine tetraphosphate as a cosubstrate for AMPylation mediated by FICD Possible reference: Frese, M. et al. (2023) The Alarmone Diadenosine Tetraphosphate as a Cosubstrate for Protein AMPylation., Angew Chem Int Ed Engl, PMID 36524454PXD036431 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of cuticle protein in Nilaparvata lugens Possible reference: Pan, PL. et al. (2018) A comprehensive omics analysis and functional survey of cuticular proteins in the brown planthopper., Proc Natl Acad Sci U S A, PMID 29712872PXD036418 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of HeLa cells after stable transfection with the Chlamydia trachomatis CT143 gene Possible reference: Gong, D. et al. (2024) Proteomic analysis of HeLa cells after stable transfection with the Chlamydia trachomatis CT143 gene., Gene, PMID 39374816PXD036373 no publication (from MassIVE) Dataset title: Temporal phosphoproteomics reveals WEE1-dependent control of 53BP1 pathway I Possible reference: Petrosius, V. et al. (2023) Temporal phosphoproteomics reveals WEE1-dependent control of 53BP1 pathway., iScience, PMID 36632060PXD036366 Dataset with its publication pending (from PRIDE) Dataset title: CMTM4 is a subunit of the IL-17 receptor and mediates autoimmune pathology Possible reference: Knizkova, D. et al. (2022) CMTM4 is a subunit of the IL-17 receptor and mediates autoimmune pathology., Nat Immunol, PMID 36271145PXD036364 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analyses reveal the novel targets of spermine alleviating diabetic cardiomyopathy Possible reference: Sun, J. et al. (2022) Proteomic and metabolomic analyses reveal the novel targets of spermine for alleviating diabetic cardiomyopathy in type II diabetic mice., Front Cardiovasc Med, PMID 36312255PXD036318 Dataset with its publication pending (from jPOST) Dataset title: Quantification of mature lamin A and progerin in HGPS patient cells Possible reference: Camafeita, E. et al. (2022) Quantification of Farnesylated Progerin in Hutchinson-Gilford Progeria Patient Cells by Mass Spectrometry., Int J Mol Sci, PMID 36233036PXD036306 Dataset with its publication pending (from PRIDE) Dataset title: Global microRNA and protein expression in human term placenta Possible reference: Farrokhnia, F. et al. (2014) MicroRNA regulation of mitogenic signaling networks in the human placenta., J Biol Chem, PMID 25077964PXD036301 Dataset with its publication pending (from PRIDE) Dataset title: Endogenous alpha-synuclein is essential for the transfer of pathology by exosomes, following PFF inoculation in vivo. Possible reference: Melachroinou, K. et al. (2024) Endogenous Alpha-Synuclein is Essential for the Transfer of Pathology by Exosome-Enriched Extracellular Vesicles, Following Inoculation with Preformed Fibrils in vivo., Aging Dis, PMID 37548944PXD036268 Dataset with its publication pending (from PRIDE) Dataset title: One-pot comparative analysis and characterization of MCF-7 and MCF-10A cell lines Possible reference: Sarkate, AP. et al. (2021) One pot synthesis, in silico study and evaluation of some novel flavonoids as potent topoisomerase II inhibitors., Bioorg Med Chem Lett, PMID 33689875PXD036212 Dataset with its publication pending (from jPOST) Dataset title: Physiological and Proteomic Responses of Cassava to Short-term Extreme Cool and Hot Temperature Possible reference: Santanoo, S. et al. (2022) Physiological and Proteomic Responses of Cassava to Short-Term Extreme Cool and Hot Temperature., Plants (Basel), PMID 36079689PXD036208 Dataset with its publication pending (from iProX) Dataset title: Proteomic and metabonomic analysis uncovering Enterovirus A71 reprogramming host cell metabolic pathway Possible reference: Shi, H. et al. (2023) Proteomic and metabonomic analysis uncovering Enterovirus A71 reprogramming host cell metabolic pathway., Proteomics, PMID 36254857PXD036191 Dataset with its publication pending (from PRIDE) Dataset title: Discovery of a small molecule inhibitor of the UBE2F-CRL5 axis that induces apoptosis and G2/M arrest and confers radiosensitization Possible reference: Xu, T. et al. (2022) A small molecule inhibitor of the UBE2F-CRL5 axis induces apoptosis and radiosensitization in lung cancer., Signal Transduct Target Ther, PMID 36253371PXD036170 Dataset with its publication pending (from PRIDE) Dataset title: Redirecting the neo-substrate specificity of Cereblon-targeting PROTACs to Helios Possible reference: Verano, AL. et al. (2022) Redirecting the Neo-Substrate Specificity of Cereblon-Targeting PROTACs to Helios., ACS Chem Biol, PMID 36007246PXD036163 Dataset with its publication pending (from PRIDE) Dataset title: Metabolic and Morphotypic Trade-offs within the Eco-Evolutionary Dynamics of Escherichia coli Possible reference: Zlatkov, N. et al. (2022) Metabolic and Morphotypic Trade-Offs within the Eco-Evolutionary Dynamics of Escherichia coli., Microbiol Spectr, PMID 36169422PXD036161 Dataset with its publication pending (from PRIDE) Dataset title: High-throughput proteomics of the 26 medically most important elapids and vipers from sub-Saharan Africa Possible reference: Nguyen, GTT. et al. (2022) High-throughput proteomics and in vitro functional characterization of the 26 medically most important elapids and vipers from sub-Saharan Africa., Gigascience, PMID 36509548PXD036160 Dataset with its publication pending (from PRIDE) Dataset title: Differential virulence of Aggregatibacter actinomycetemcomitans serotypes explained by exoproteome heterogeneity Possible reference: Fu, Y. et al. (2023) Differential Virulence of Aggregatibacter actinomycetemcomitans Serotypes Explained by Exoproteome Heterogeneity., Microbiol Spectr, PMID 36541765PXD036148 Dataset with its publication pending (from PRIDE) Dataset title: Comparative Proteomic Analysis of the Mitochondria of Menstrual Stem Cells and Ovarian Cancer Cells Possible reference: Chen, X. et al. (2023) Comparative proteomic analysis of the mitochondria of menstrual stem cells and ovarian cancer cells., Exp Ther Med, PMID 36761005PXD036145 Xiaowei Gao, Bhagyashree N. Swarge, Winfried Roseboom, Yan Wang, Henk L. Dekker, Peter Setlow, Stanley Brul and Gertjan Kramer. settings Open AccessArticle Changes in the Spore Proteome of Bacillus cereus in Response to Introduction of Plasmids. Microorga (from MassIVE) Dataset title: Changes in the spore proteome of Bacillus cereus in response to introduction of plasmids. Possible reference: Gao, X. et al. (2022) Changes in the Spore Proteome of Bacillus cereus in Response to Introduction of Plasmids., Microorganisms, PMID 36144297PXD036121 Dataset with its publication pending (from iProX) Dataset title: Dual-species proteomics and targeted intervention of animal-pathogen interactions Possible reference: Liu, YS. et al. (2024) Dual-species proteomics and targeted intervention of animal-pathogen interactions., J Adv Res, PMID 39233003PXD036106 Dataset with its publication pending (from PRIDE) Dataset title: Extended DNA threading through a dual-engine motor module in the activating signal co-integrator complex Possible reference: Jia, J. et al. (2023) Extended DNA threading through a dual-engine motor module of the activating signal co-integrator 1 complex., Nat Commun, PMID 37019967PXD036095 Dataset with its publication pending (from PRIDE) Dataset title: Putative N-glycoprotein markers of MCF-7/ADR cancer stem cells from N-glycoproteomics characterization of the whole cell lysate Possible reference: Yang, H. et al. (2021) Putative N-glycoprotein markers of MCF-7/ADR cancer stem cells from N-glycoproteomics characterization of the whole cell lysate., Talanta, PMID 34074422PXD036093 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics Reveals the Potential Mechanism of Tanshinone IIA Promoting the Ex Vivo Expansion of Human Bone Marrow Mesenchymal Stem Cells. Possible reference: Yuan, P. et al. (2022) Proteomics reveals the potential mechanism of Tanshinone IIA in promoting the ExVivo expansion of human bone marrow mesenchymal stem cells., Regen Ther, PMID 36475023PXD036088 no publication (from PanoramaPublic) Dataset title: Dynamic acylome reveals metabolite driven modifications in Syntrophomonas wolfei Possible reference: Fu, JY. et al. (2022) Dynamic acylome reveals metabolite driven modifications in Syntrophomonas wolfei., Front Microbiol, PMID 36419437PXD036076 Dataset with its publication pending (from PRIDE) Dataset title: Ligand-induced shifts in conformational ensembles that predict transcriptional activation Possible reference: Khan, SH. et al. (2022) Ligand-induced shifts in conformational ensembles that describe transcriptional activation., Elife, PMID 36222302PXD036057 Dataset with its publication pending (from iProX) Dataset title: VAL1 acts as an assembly platform co-ordinating co-transcriptional repression and chromatin regulation at Arabidopsis FLC Possible reference: Mikulski, P. et al. (2022) VAL1 acts as an assembly platform co-ordinating co-transcriptional repression and chromatin regulation at Arabidopsis FLC., Nat Commun, PMID 36130923PXD036034 Dataset with its publication pending (from PRIDE) Dataset title: Cancer responses to targeted radionuclide therapy (TRT) and external beam radiotherapy (EBRT) Possible reference: Jagodinsky, JC. et al. (2021) Temporal analysis of type 1 interferon activation in tumor cells following external beam radiotherapy or targeted radionuclide therapy., Theranostics, PMID 33995649PXD036025 Dataset with its publication pending (from PRIDE) Dataset title: Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants and therapeutically-relevant pathways Possible reference: Soltis, AR. et al. (2022) Proteogenomic analysis of lung adenocarcinoma reveals tumor heterogeneity, survival determinants, and therapeutically relevant pathways., Cell Rep Med, PMID 36384096PXD036023 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Landscape of Human Spermatozoa: Optimized Extraction Method and Application Possible reference: Luo, M. et al. (2022) Proteomic Landscape of Human Spermatozoa: Optimized Extraction Method and Application., Cells, PMID 36552826PXD036011 Dataset with its publication pending (from PRIDE) Dataset title: Dual-omics reveals the different roles of α1 and β-adrenergic receptors in acute sympathetic stress-induced cardiac inflammation Possible reference: Zhang, D. et al. (2023) Dual-omics reveals temporal differences in acute sympathetic stress-induced cardiac inflammation following α1 and β-adrenergic receptors activation., Acta Pharmacol Sin, PMID 36737635PXD035996 Dataset with its publication pending (from PRIDE) Dataset title: KCNQ1OT1 promotes genome-wide transposon repression by guiding RNA-DNA triplexes and HP1 binding Possible reference: Zhang, X. et al. (2022) KCNQ1OT1 promotes genome-wide transposon repression by guiding RNA-DNA triplexes and HP1 binding., Nat Cell Biol, PMID 36266489PXD035978 Dataset with its publication pending (from PRIDE) Dataset title: Campylobacter jejuni MOMP carbene footprinting Possible reference: Okoye, JC. et al. (2022) Ferric quinate (QPLEX) interacts with the major outer membrane protein (MOMP) of Campylobacter jejuni and enters through the porin channel into the periplasmic space., Comput Struct Biotechnol J, PMID 36212543PXD035973 Dataset with its publication pending (from PRIDE) Dataset title: ELTD1 is present in extracellular vesicles derived from endothelial cells as a cleaved extracellular domain which induces in vivo angiogenesis Possible reference: Sheldon, H. et al. (2022) ELTD1 is present in extracellular vesicles derived from endothelial cells as a cleaved extracellular domain which induces in vivo angiogenesis., J Extracell Biol, PMID 38939053PXD035965 Dataset with its publication pending (from PRIDE) Dataset title: Systemic response in hybrid poplar tolerance to aggressive Phytophthora species Possible reference: Cerny, M. et al. (2022) Defense mechanisms promoting tolerance to aggressive Phytophthora species in hybrid poplar., Front Plant Sci, PMID 36325556PXD035956 Dataset with its publication pending (from PRIDE) Dataset title: Defense mechanisms promoting tolerance to aggressive Phytophthora species in hybrid poplar Possible reference: Cerny, M. et al. (2022) Defense mechanisms promoting tolerance to aggressive Phytophthora species in hybrid poplar., Front Plant Sci, PMID 36325556PXD035924 Dataset with its publication pending (from PRIDE) Dataset title: Selective Macrocyclic Peptide Modulators of Lys63-linked Ubiquitin Chains Disrupt DNA Damage Repair Possible reference: Vamisetti, GB. et al. (2022) Selective macrocyclic peptide modulators of Lys63-linked ubiquitin chains disrupt DNA damage repair., Nat Commun, PMID 36257952PXD035897 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteome dataset profiling UBC4 and UBC5 deletion strains in Saccharomyces cerevisiae Possible reference: Rossio, V. et al. (2022) Quantitative proteome dataset profiling of UBC4 and UBC5 deletion strains in Saccharomyces cerevisiae., Data Brief, PMID 36426069PXD035896 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteome and phosphoproteome datasets of DNA replication and mitosis in Saccharomyces cerevisiae Possible reference: Rossio, V. et al. (2022) Quantitative proteome and phosphoproteome datasets of DNA replication and mitosis in Saccharomyces cerevisiae., Data Brief, PMID 36425962PXD035892 Dataset with its publication pending (from PRIDE) Dataset title: The TRIPLE PHD FINGERS proteins are required for SWI/SNF complex-mediated +1 nucleosome positioning and transcription start site usage in Arabidopsis Possible reference: Diego-Martin, B. et al. (2022) The TRIPLE PHD FINGERS proteins are required for SWI/SNF complex-mediated+1 nucleosome positioning and transcription start site determination in Arabidopsis., Nucleic Acids Res, PMID 36189880PXD035873 Dataset with its publication pending (from PRIDE) Dataset title: Integrated omics reveal time-resolved insights into T4 phage infection of E. coli on proteome and transcriptome level Possible reference: Wolfram-Schauerte, M. et al. (2022) Integrated Omics Reveal Time-Resolved Insights into T4 Phage Infection of E. coli on Proteome and Transcriptome Levels., Viruses, PMID 36423111PXD035852 Dataset with its publication pending (from PRIDE) Dataset title: Fine-tuning of mTOR signaling by the UBE4B-KLHL22 E3 ubiquitin ligase cascade in brain development Possible reference: Kong, X. et al. (2022) Fine-tuning of mTOR signaling by the UBE4B-KLHL22 E3 ubiquitin ligase cascade in brain development., Development, PMID 36440598PXD035835 Dataset with its publication pending (from PRIDE) Dataset title: Integrated proteomics and metabolomics analysis of rice leaves in response to rice straw return Possible reference: Yan, S. et al. (2022) Integrated proteomics and metabolomics analysis of rice leaves in response to rice straw return., Front Plant Sci, PMID 36176680PXD035828 Dataset with its publication pending (from jPOST) Dataset title: Spatially resolved profiling of protein conformation and interactions by biocompatible chemical cross-linking in living cells Possible reference: Zhao, L. et al. (2024) Spatially resolved profiling of protein conformation and interactions by biocompatible chemical cross-linking in living cells., Nat Commun, PMID 39333085PXD035827 no publication (from MassIVE) Dataset title: Proteome phenotypes discriminate growing location and malting traits in field-grown barley Possible reference: Bahmani, M. et al. (2022) Proteome Phenotypes Discriminate the Growing Location and Malting Traits in Field-Grown Barley., J Agric Food Chem, PMID 35981222PXD035825 Dataset with its publication pending (from PRIDE) Dataset title: Complexome Profiling of the thylakoid proteome from Viscum album Possible reference: Schrder, L. et al. (2022) The photosynthesis apparatus of European mistletoe (Viscum album)., Plant Physiol, PMID 35976139PXD035818 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of Phosphorylation-dependent Antibody Binding to Cancer-mutated Linkers of C2H2 Zinc Finger Proteins by Intact Transition Epitope Mapping - Thermodynamic Weak-force Order Analysis. Possible reference: Scherf, M. et al. (2023) Characterization of Phosphorylation-Dependent Antibody Binding to Cancer-Mutated Linkers of C2H2 Zinc Finger Proteins by Intact Transition Epitope Mapping-Thermodynamic Weak-Force Order Analysis., J Am Soc Mass Spectrom, PMID 36656134PXD035802 Dataset with its publication pending (from PRIDE) Dataset title: Mycobacterium tuberculosis modified proteome under oxidative stress Possible reference: Choudhary, E. et al. (2022) Deciphering the Proteomic Landscape of Mycobacterium tuberculosis in Response to Acid and Oxidative Stresses., ACS Omega, PMID 35936415PXD035792 Dataset with its publication pending (from jPOST) Dataset title: Proteome changes in cassava cv. Kasetsart 50 in response to Sri Lankan cassava mosaic virus Possible reference: Siriwan, W. et al. (2022) Analysis of proteomic changes in cassava cv. Kasetsart 50 caused by Sri Lankan cassava mosaic virus infection., BMC Plant Biol, PMID 36494781PXD035780 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of human and microbial salivary proteomes in children offers insights on the molecular pathogenesis of molar-incisor hypomineralization Possible reference: Pappa, E. et al. (2022) Analysis of Human and Microbial Salivary Proteomes in Children Offers Insights on the Molecular Pathogenesis of Molar-Incisor Hypomineralization., Biomedicines, PMID 36140166PXD035775 Dataset with its publication pending (from PRIDE) Dataset title: Deciphering O-glycoprotease substrate preferences with O-Pair Search Possible reference: Riley, NM. et al. (2022) Deciphering O-glycoprotease substrate preferences with O-Pair Search., Mol Omics, PMID 36373229PXD035774 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of binding preference of different microtubes for nanoproteomics sample preparation Possible reference: Zhang, Z. et al. (2023) Evaluation of the Binding Preference of Microtubes for Nanoproteomics Sample Preparation., J Proteome Res, PMID 36455010PXD035761 Dataset with its publication pending (from PRIDE) Dataset title: Identification of putative reader proteins of RNA 5-methylcytosine and its derivatives in Caenorhabditis elegans Possible reference: Navarro, IC. et al. (2022) Identification of putative reader proteins of 5-methylcytosine and its derivatives in Caenorhabditis elegans RNA., Wellcome Open Res, PMID 37475875PXD035748 Dataset with its publication pending (from PRIDE) Dataset title: DNMT and HDAC inhibition induces immunogenic neoantigens from human endogenous retroviral element-derived transcripts Possible reference: Goyal, A. et al. (2023) DNMT and HDAC inhibition induces immunogenic neoantigens from human endogenous retroviral element-derived transcripts., Nat Commun, PMID 37872136PXD035719 Dataset with its publication pending (from PRIDE) Dataset title: Mass spectrometry identification of biomarkers in extracellular vesicles from Plasmodium vivax liver hypnozoite infections Possible reference: Gualdrn-Lpez, M. et al. (2022) Mass Spectrometry Identification of Biomarkers in Extracellular Vesicles From Plasmodium vivax Liver Hypnozoite Infections., Mol Cell Proteomics, PMID 36030044PXD035712 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial interactome quantitation reveals structural changes in metabolic machinery in the failing murine heart Possible reference: Caudal, A. et al. (2022) Mitochondrial interactome quantitation reveals structural changes in metabolic machinery in the failing murine heart., Nat Cardiovasc Res, PMID 36405497PXD035696 Dataset with its publication pending (from PRIDE) Dataset title: Distinct transcriptome, translatome, and proteome reprogramming during the oocyte-to-embryo transition Possible reference: Zhang, H. et al. (2023) Stable maternal proteins underlie distinct transcriptome, translatome, and proteome reprogramming during mouse oocyte-to-embryo transition., Genome Biol, PMID 37443062PXD035694 Dataset with its publication pending (from PRIDE) Dataset title: Identification of regenerating island-derived protein 3E in dogs Possible reference: Peters, LM. et al. (2022) Identification of regenerating island-derived protein 3E in dogs., Front Vet Sci, PMID 36387376PXD035668 Dataset with its publication pending (from PRIDE) Dataset title: Disordered region encodes α-crystallin chaperone activity toward lens client γD-crystallin Possible reference: Woods, CN. et al. (2023) Disordered region encodes α-crystallin chaperone activity toward lens client γD-crystallin., Proc Natl Acad Sci U S A, PMID 36719917PXD035662 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of MRSA252 secretome and membrane vesicles Possible reference: Uppu, DS. et al. (2023) Contribution of Extracellular Membrane Vesicles To the Secretome of Staphylococcus aureus., mBio, PMID 36744901PXD035653 Dataset with its publication pending (from PRIDE) Dataset title: Non-enzymatic acetylation inhibits glycolytic enzymes in Escherichia coli Possible reference: Schastnaya, E. et al. (2023) Non-enzymatic acetylation inhibits glycolytic enzymes in Escherichia coli., Cell Rep, PMID 36640332PXD035636 no publication (from MassIVE) Dataset title: Evaluation of quantification and normalization strategies for phosphoprotein phosphatase affinity proteomics: application to breast cancer signaling Possible reference: Brauer, BL. et al. (2023) Evaluation of Quantification and Normalization Strategies for Phosphoprotein Phosphatase Affinity Proteomics: Application to Breast Cancer Signaling., J Proteome Res, PMID 36448918PXD035632 Dataset with its publication pending (from PRIDE) Dataset title: Absolute quantification of cellular levels of photosynthesis-related proteins in Synechocystis sp. PCC 6803 Possible reference: Jackson, PJ. et al. (2023) Absolute quantification of cellular levels of photosynthesis-related proteins in Synechocystis sp. PCC 6803., Photosynth Res, PMID 36542271PXD035628 Dataset with its publication pending (from PRIDE) Dataset title: Structural perturbation at the N-terminal domain of human phosphoglycerate kinase 1 reduces the kinetic stability and unfolding cooperativity of a two-domain enzyme Possible reference: Pacheco-Garca, JL. et al. (2022) Loss of stability and unfolding cooperativity in hPGK1 upon gradual structural perturbation of its N-terminal domain hydrophobic core., Sci Rep, PMID 36229482PXD035622 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial interactome quantitation reveals structural changes in metabolic machinery in the failing murine heart Possible reference: Caudal, A. et al. (2022) Mitochondrial interactome quantitation reveals structural changes in metabolic machinery in the failing murine heart., Nat Cardiovasc Res, PMID 36405497PXD035618 Dataset with its publication pending (from PRIDE) Dataset title: Insights into the digestive gland of Mytilus coruscus under heat stress using TMT-based proteomics Possible reference: Xu, L. et al. (2023) Insights into the Response in Digestive Gland of Mytilus coruscus under Heat Stress Using TMT-Based Proteomics., Animals (Basel), PMID 37508026PXD035597 Dataset with its publication pending (from jPOST) Dataset title: The Liquid Chromatography/Tandem Mass Spectrometry-Based Quantification of Angiotensin Peptides Possible reference: He, C. et al. (2020) Development of a novel nanoflow liquid chromatography-parallel reaction monitoring mass spectrometry-based method for quantification of angiotensin peptides in HUVEC cultures., PeerJ, PMID 32983648PXD035587 Dataset with its publication pending (from PRIDE) Dataset title: Unique Ligand and Kinase-Independent Roles of the Insulin Receptor in Regulation of Cell Cycle, Senescence and Apoptosis Possible reference: Nagao, H. et al. (2023) Unique ligand and kinase-independent roles of the insulin receptor in regulation of cell cycle, senescence and apoptosis., Nat Commun, PMID 36599833PXD035579 no publication (from MassIVE) Dataset title: The ribosome inhibitor chloramphenicol induces motility deficits in human spermatozoa: a proteomic approach identifies potentially involved proteins Possible reference: Bisconti, M. et al. (2022) The ribosome inhibitor chloramphenicol induces motility deficits in human spermatozoa: A proteomic approach identifies potentially involved proteins., Front Cell Dev Biol, PMID 36120567PXD035578 Dataset with its publication pending (from PRIDE) Dataset title: Histone chaperone ASF1 mediates H3.3-H4 deposition in Arabidopsis Possible reference: Zhong, Z. et al. (2022) Histone chaperone ASF1 mediates H3.3-H4 deposition in Arabidopsis., Nat Commun, PMID 36379930PXD035577 Dataset with its publication pending (from PRIDE) Dataset title: Age-related decline in the resistance of mice to bacterial infection and in LPS/TLR4 pathway-dependent neutrophil responses Possible reference: Hornigold, K. et al. (2022) Age-related decline in the resistance of mice to bacterial infection and in LPS/TLR4 pathway-dependent neutrophil responses., Front Immunol, PMID 36090969PXD035524 no publication (from MassIVE) Dataset title: Temporal Proteomic and Phosphoproteomic Analysis of EV-A71-infected Human Cells Possible reference: Zhao, Y. et al. (2022) Temporal Proteomic and Phosphoproteomic Analysis of EV-A71-Infected Human Cells., J Proteome Res, PMID 36106392PXD035523 no publication (from MassIVE) Dataset title: Temporal Proteomic and Phosphoproteomic Analysis of EV-A71-infected Human Cells Possible reference: Zhao, Y. et al. (2022) Temporal Proteomic and Phosphoproteomic Analysis of EV-A71-Infected Human Cells., J Proteome Res, PMID 36106392PXD035516 no publication (from MassIVE) Dataset title: Regulation of PaRBOH1-mediated ROS production Possible reference: Nickolov, K. et al. (2022) Regulation of PaRBOH1-mediated ROS production in Norway spruce by Ca2+ binding and phosphorylation., Front Plant Sci, PMID 36311083PXD035514 Dataset with its publication pending (from iProX) Dataset title: Clinical characterization and proteomic profiling of lean nonalcoholic fatty liver disease Possible reference: Jiang, Y. et al. (2023) Clinical characterization and proteomic profiling of lean nonalcoholic fatty liver disease., Front Endocrinol (Lausanne), PMID 38034020PXD035506 no publication (from MassIVE) Dataset title: Regulation of PaRBOH1-mediated ROS production Possible reference: Nickolov, K. et al. (2022) Regulation of PaRBOH1-mediated ROS production in Norway spruce by Ca2+ binding and phosphorylation., Front Plant Sci, PMID 36311083PXD035494 Dataset with its publication pending (from PRIDE) Dataset title: PROTEOMIC ANALYSIS OF URINARY EXTRACELLULAR VESICLES OF KIDNEY TRANSPLANT RECIPIENTS WITH BKV VIRURIA AND VIREMIA. Possible reference: Bruschi, M. et al. (2022) Proteomic analysis of urinary extracellular vesicles of kidney transplant recipients with BKV viruria and viremia: A pilot study., Front Med (Lausanne), PMID 36465937PXD035482 Dataset with its publication pending (from PRIDE) Dataset title: The Legionella pneumophila effector DenR hijacks host NRas signaling during infection Possible reference: Lehman, SS. et al. (2024) The Legionella pneumophila effector DenR hijacks the host NRas proto-oncoprotein to downregulate MAPK signaling., Cell Rep, PMID 38568811PXD035478 Dataset with its publication pending (from PRIDE) Dataset title: Immunization of mice with virus-like vesicles of Kaposi sarcoma-associated herpesvirus reveals a role of ORF4 in complement-mediated neutralization Possible reference: Lam, AK. et al. (2023) Immunization of Mice with Virus-Like Vesicles of Kaposi Sarcoma-Associated Herpesvirus Reveals a Role for Antibodies Targeting ORF4 in Activating Complement-Mediated Neutralization., J Virol, PMID 36757205PXD035477 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of the interactome profiling of Mycoplasma DnaK in cancer cell reveals interference with key cellular pathways Possible reference: Curreli, S. et al. (2022) Characterization of the interactome profiling of Mycoplasma fermentans DnaK in cancer cells reveals interference with key cellular pathways., Front Microbiol, PMID 36386669PXD035462 Dataset with its publication pending (from jPOST) Dataset title: Identification of novel kinases of Tau using fluorescence complementation mass spectrometry (FCMS) Possible reference: Kao, DS. et al. (2022) Identification of Novel Kinases of Tau Using Fluorescence Complementation Mass Spectrometry (FCMS)., Mol Cell Proteomics, PMID 36379402PXD035451 Dataset with its publication pending (from PRIDE) Dataset title: SARS-CoV-2 hijacks p38β/MAPK11 to promote virus replication Possible reference: Higgins, CA. et al. (2023) SARS-CoV-2 hijacks p38β/MAPK11 to promote virus replication., mBio, PMID 37345956PXD035450 Dataset with its publication pending (from PRIDE) Dataset title: TFEB AND TFE3 DRIVE KIDNEY CYSTOGENESIS AND TUMORIGENESIS Possible reference: Di Malta, C. et al. (2023) TFEB and TFE3 drive kidney cystogenesis andtumorigenesis., EMBO Mol Med, PMID 36987696PXD035448 Dataset with its publication pending (from PRIDE) Dataset title: Tropodithietic acid, a multifunctional antimicrobial, facilitates adaption and colonization of the producer, Phaeobacter piscinae S26 Possible reference: Lindqvist, LL. et al. (2023) Tropodithietic Acid, a Multifunctional Antimicrobial, Facilitates Adaption and Colonization of the Producer, Phaeobacter piscinae., mSphere, PMID 36622251PXD035433 Dataset with its publication pending (from PRIDE) Dataset title: Targeted cross-linker delivery for in situ mapping of protein conformations and interactions in mitochondria Possible reference: Chen, Y. et al. (2023) Targeted cross-linker delivery for the in situ mapping of protein conformations and interactions in mitochondria., Nat Commun, PMID 37391416PXD035418 Dataset with its publication pending (from PRIDE) Dataset title: Regulation and physiological function of proteins for heat tolerance in cowpea (Vigna unguiculata) genotypes under controlled and field conditions Possible reference: Selinga, TI. et al. (2022) Regulation and physiological function of proteins for heat tolerance in cowpea (Vigna unguiculata) genotypes under controlled and field conditions., Front Plant Sci, PMID 36072323PXD035413 Dataset with its publication pending (from PRIDE) Dataset title: Mechanistic insights into RNA surveillance by the canonical poly(A) polymerase Pla1 of the MTREC complex Possible reference: Soni, K. et al. (2023) Mechanistic insights into RNA surveillance by the canonical poly(A) polymerase Pla1 of the MTREC complex., Nat Commun, PMID 36774373PXD035400 Dataset with its publication pending (from PRIDE) Dataset title: Selective inhibitors of SARM1 targeting an allosteric cysteine in the autoregulatory ARM domain Possible reference: Feldman, HC. et al. (2022) Selective inhibitors of SARM1 targeting an allosteric cysteine in the autoregulatory ARM domain., Proc Natl Acad Sci U S A, PMID 35994671PXD035399 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of context-specific KRAS-effectors (sub)complexes in Caco-2 cells Possible reference: Ternet, C. et al. (2023) Analysis of context-specific KRAS-effector (sub)complexes in Caco-2 cells., Life Sci Alliance, PMID 36894174PXD035398 Dataset with its publication pending (from PRIDE) Dataset title: Diptoindonesin G is a middle domain HSP90 modulator for cancer treatment Possible reference: Donahue, K. et al. (2022) Diptoindonesin G is a middle domain HSP90 modulator for cancer treatment., J Biol Chem, PMID 36395883PXD035394 Dataset with its publication pending (from PRIDE) Dataset title: Nuclear myosin VI maintains replication fork stability Possible reference: Shi, J. et al. (2023) Nuclear myosin VI maintains replication fork stability., Nat Commun, PMID 37355687PXD035392 Dataset with its publication pending (from PRIDE) Dataset title: STUB1 is an intracellular checkpoint for interferon gamma sensing Possible reference: Ng, S. et al. (2022) STUB1 is an intracellular checkpoint for interferon gamma sensing., Sci Rep, PMID 35982220PXD035390 Dataset with its publication pending (from iProX) Dataset title: Proteomics and Phosphoproteomics of Cymbidium sinense Leaf Variegation Mutant Possible reference: Gao, J. et al. (2024) Phosphorylation of 399S at CsHsp70 of Cymbidium sinense is essential to maintain chlorophyll stability., Plant Physiol Biochem, PMID 38744085PXD035376 Dataset with its publication pending (from jPOST) Dataset title: Brain proteomics in GLUT1-deltaGFAP mice Possible reference: Ardanaz, CG. et al. (2024) Astrocytic GLUT1 reduction paradoxically improves central and peripheral glucose homeostasis., Sci Adv, PMID 39423276PXD035359 no publication (from MassIVE) Dataset title: Identifying natural bioactive peptides from the ink by-product of common octopus (Octopus vulgaris) using proteomics Possible reference: Imran, MAS. et al. (2023) Insights into Common Octopus (Octopus vulgaris) Ink Proteome and Bioactive Peptides Using Proteomic Approaches., Mar Drugs, PMID 37103345PXD035355 Dataset with its publication pending (from jPOST) Dataset title: Enhanced protein-protein interaction network construction promoted by in vivo cross-linking Possible reference: Zhao, L. et al. (2022) Enhanced protein-protein interaction network construction promoted by in vivo cross-linking with acid-cleavable click-chemistry enrichment., Front Chem, PMID 36479438PXD035346 Dataset with its publication pending (from PRIDE) Dataset title: Branch point evolution controls species-specific alternative splicing and regulates long term potentiation Possible reference: Franz, A. et al. (2023) Branch point strength controls species-specific CAMK2B alternative splicing and regulates LTP., Life Sci Alliance, PMID 36543542PXD035338 Dataset with its publication pending (from jPOST) Dataset title: Quantitative Proteome Analysis of Melissa officinalis Extract in Colon Cancer Cells Possible reference: Kuo, TT. et al. (2022) Quantitative Proteome Analysis Reveals Melissa officinalis Extract Targets Mitochondrial Respiration in Colon Cancer Cells., Molecules, PMID 35889404PXD035317 Dataset with its publication pending (from jPOST) Dataset title: Enhanced protein-protein interaction network construction promoted by in vivo cross-linking with acid-cleavable click chemistry enrichment Possible reference: Zhao, L. et al. (2022) Enhanced protein-protein interaction network construction promoted by in vivo cross-linking with acid-cleavable click-chemistry enrichment., Front Chem, PMID 36479438PXD035313 Dataset with its publication pending (from iProX) Dataset title: Quantitative proteomic analysis of ClpX in Synechocystis Possible reference: Zhang, Y. et al. (2022) Proteomic analysis of the regulatory networks of ClpX in a model cyanobacterium Synechocystis sp. PCC 6803., Front Plant Sci, PMID 36247581PXD035309 Dataset with its publication pending (from PRIDE) Dataset title: Lysine Acetylome Profiling Reveals Diverse Functions of Acetylation in Deinococcus Radiodurans Possible reference: Zhang, Y. et al. (2022) Lysine Acetylome Profiling Reveals Diverse Functions of Acetylation in Deinococcus radiodurans., Microbiol Spectr, PMID 35972276PXD035301 Dataset with its publication pending (from PRIDE) Dataset title: Comparative analyses of the N-glycoproteomes in HCT116 cancer cells and their non-tumorigenic DNMT1/3b double knockout (DKO1) cells and insight into the Mannose-6-phosphate pathway Possible reference: Chen, M. et al. (2023) Comparative site-specific N-glycoproteome analysis reveals aberrant N-glycosylation and gives insights into mannose-6-phosphate pathway in cancer., Commun Biol, PMID 36639722PXD035300 no publication (from MassIVE) Dataset title: An apical protein, Pcr2, is required for persistent movement by the human parasite Toxoplasma gondii Possible reference: Munera Lopez, J. et al. (2022) An apical protein, Pcr2, is required for persistent movement by the human parasite Toxoplasma gondii., PLoS Pathog, PMID 35994509PXD035199 Dataset with its publication pending (from PRIDE) Dataset title: Benchmarking blood collection tubes and processing intervals for extracellular vesicle performance metrics Possible reference: Dhondt, B. et al. (2023) Benchmarking blood collection tubes and processing intervals for extracellular vesicle performance metrics., J Extracell Vesicles, PMID 37202906PXD035192 Dataset with its publication pending (from PRIDE) Dataset title: Yeast Mitochondrial Derived Vesicles (MDVs) have membrane potential and contain a functional ATP synthase Possible reference: Hazan Ben-Menachem, R. et al. (2023) Mitochondrial-derived vesicles retain membrane potential and contain a functional ATP synthase., EMBO Rep, PMID 36929726PXD035166 Dataset with its publication pending (from iProX) Dataset title: Genetic code expansion reveals aminoacylated lysine ubiquitination mediated by UBE2W Possible reference: Zang, J. et al. (2023) Genetic code expansion reveals aminoacylated lysine ubiquitination mediated by UBE2W., Nat Struct Mol Biol, PMID 36593310PXD035156 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic analysis for a putative 2, 3-bisphosphoglycerate-dependent phosphoglycerate mutase in Acidovorax citrulli Possible reference: Lee, J. et al. (2022) A putative 2,3-bisphosphoglycerate-dependent phosphoglycerate mutase is involved in the virulence, carbohydrate metabolism, biofilm formation, twitching halo, and osmotic tolerance in Acidovorax citrulli., Front Plant Sci, PMID 36438092PXD035140 Dataset with its publication pending (from PRIDE) Dataset title: Different SWI/SNF complexes coordinately promote R-loop- and RAD52- dependent transcription-coupled homologous recombination Possible reference: Dav-Martnez, C. et al. (2023) Different SWI/SNF complexes coordinately promote R-loop- and RAD52-dependent transcription-coupled homologous recombination., Nucleic Acids Res, PMID 37470997PXD035138 Dataset with its publication pending (from PRIDE) Dataset title: Evidence for a widespread third system for bacterial polysaccharide export across the outer membrane comprising a composite OPX/β-barrel translocon Possible reference: Schwabe, J. et al. (2022) Evidence for a Widespread Third System for Bacterial Polysaccharide Export across the Outer Membrane Comprising a Composite OPX/β-Barrel Translocon., mBio, PMID 35972145PXD035133 Dataset with its publication pending (from iProX) Dataset title: Characterization the phosphate response 2-dependent and independent Pi-starvation response secretome in rice Possible reference: Du, Z. et al. (2022) Characterization of the PHOSPHATE RESPONSE 2-dependent and -independent Pi-starvation response secretome in rice., J Exp Bot, PMID 35994773PXD035125 Dataset with its publication pending (from PRIDE) Dataset title: The EGFR/ErbB inhibitor neratinib promotes apoptosis and clearance by airway macrophages Possible reference: Herman, KD. et al. (2022) The EGFR/ErbB inhibitor neratinib modifies the neutrophil phosphoproteome and promotes apoptosis and clearance by airway macrophages., Front Immunol, PMID 35967296PXD035121 Dataset with its publication pending (from PRIDE) Dataset title: Cardiac perilipin 5 promotes physiological cardioprotective hypertrophy through increased calcium handling and cardiomyocyte contractility Possible reference: Cinato, M. et al. (2023) Cardiac Plin5 interacts with SERCA2 and promotes calcium handling and cardiomyocyte contractility., Life Sci Alliance, PMID 36717246PXD035107 Dataset with its publication pending (from PRIDE) Dataset title: Global phosphoproteomic profiling of skeletal muscle in ovarian-hormone deficient mice Possible reference: Peyton, MP. et al. (2022) Global phosphoproteomic profiling of skeletal muscle in ovarian hormone-deficient mice., Physiol Genomics, PMID 36062884PXD035100 Dataset with its publication pending (from PRIDE) Dataset title: ALK fusion NSCLC oncogenes promote survival and inhibit NK cell responses via SERPINB4 expression Possible reference: Chuang, TP. et al. (2023) ALK fusion NSCLC oncogenes promote survival and inhibit NK cell responses via SERPINB4 expression., Proc Natl Acad Sci U S A, PMID 36791109PXD035095 no publication (from MassIVE) Dataset title: Witch Nails Krt90whnl A spontaneous mouse mutation affecting nail growth and development Possible reference: Sundberg, JP. et al. (2022) Witch Nails (Krt90whnl): A spontaneous mouse mutation affecting nail growth and development., PLoS One, PMID 36374931PXD035082 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of the secretome of a esxaA mutant Mycobacterium tuberculosis strain Possible reference: Tschumi, A. et al. (2012) Functional analyses of mycobacterial lipoprotein diacylglyceryl transferase and comparative secretome analysis of a mycobacterial lgt mutant., J Bacteriol, PMID 22609911PXD035078 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of absorbent cotton for glycopeptide enrichment Possible reference: Xin, M. et al. (2022) Evaluation of absorbent cotton for glycopeptide enrichment., Anal Bioanal Chem, PMID 36181511PXD035076 Dataset with its publication pending (from PRIDE) Dataset title: Phenylalanine Impairs Insulin Signaling and Inhibits Glucose Uptake Through Modification of IRβ Possible reference: Zhou, Q. et al. (2022) Phenylalanine impairs insulin signaling and inhibits glucose uptake through modification of IRβ., Nat Commun, PMID 35879296PXD035065 Dataset with its publication pending (from PRIDE) Dataset title: Salt and metal tolerance involves formation of guttation droplets in species of the Aspergillus versicolor complex Possible reference: Harpke, M. et al. (2022) Salt and Metal Tolerance Involves Formation of Guttation Droplets in Species of the Aspergillus versicolor Complex., Genes (Basel), PMID 36140799PXD035059 Dataset with its publication pending (from iProX) Dataset title: Sunflower seed proteome analysis by iTRAQ Possible reference: Yang, C. et al. (2017) iTRAQ-based proteomics of sunflower cultivars differing in resistance to parasitic weed Orobanche cumana., Proteomics, PMID 28618117PXD035045 Dataset with its publication pending (from PRIDE) Dataset title: Ubiquitinome profiling reveals in vivo UBE2D3 targets and implicates UBE2D3 in protein quality control. Possible reference: Yalin, Z. et al. (2023) Ubiquitinome Profiling Reveals inVivo UBE2D3 Targets and Implicates UBE2D3 in Protein Quality Control., Mol Cell Proteomics, PMID 37059365PXD035030 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive analysis of platelet glycoprotein Ibα glycosylation. Possible reference: Hollenhorst, MA. et al. (2023) Comprehensive analysis of platelet glycoprotein Ibα ectodomain glycosylation., J Thromb Haemost, PMID 36740532PXD035001 Dataset with its publication pending (from PRIDE) Dataset title: Heat shock chaperone HSPB1 regulates cytoplasmic TDP-43 phase separation and liquid-to-gel transition Possible reference: Lu, S. et al. (2022) Heat-shock chaperone HSPB1 regulates cytoplasmic TDP-43 phase separation and liquid-to-gel transition., Nat Cell Biol, PMID 36075972PXD035000 Dataset with its publication pending (from PRIDE) Dataset title: ACP Acylation Is an Acetyl-CoADependent Modification Required for Electron Transport Chain Assembly Possible reference: Van Vranken, JG. et al. (2018) ACP Acylation Is an Acetyl-CoA-Dependent Modification Required for Electron Transport Chain Assembly., Mol Cell, PMID 30118679PXD034999 Dataset with its publication pending (from PRIDE) Dataset title: The UAS domain of UBXN7 interacts with RNF111 RING domain Possible reference: Amhaz, S. et al. (2023) The UAS thioredoxin-like domain of UBXN7 regulates E3 ubiquitin ligase activity of RNF111/Arkadia., BMC Biol, PMID 37024974PXD034987 Dataset with its publication pending (from PRIDE) Dataset title: The proteomic responses of carbapenemase-producing and non-producing carbapenem-resistant Pseudomonas aeruginosa strains to subminimal-inhibitory concentrations of meropenem revealed by quantitative tandem mass spectrometry Possible reference: Salv-Serra, F. et al. (2022) Responses of carbapenemase-producing and non-producing carbapenem-resistant Pseudomonas aeruginosa strains to meropenem revealed by quantitative tandem mass spectrometry proteomics., Front Microbiol, PMID 36845973PXD034964 Dataset with its publication pending (from PRIDE) Dataset title: Identification of proteins that interact with TRAF6 in ADP-heptose- or IL-1β-stimulated HEK293 cells Possible reference: Olajide, OA. et al. (2014) Picralima nitida seeds suppress PGE2 production by interfering with multiple signalling pathways in IL-1β-stimulated SK-N-SH neuronal cells., J Ethnopharmacol, PMID 24491645PXD034937 Dataset with its publication pending (from PRIDE) Dataset title: Thermal proteome profiling of MMV897615 Possible reference: Bopp, S. et al. (2023) Potent acyl-CoA synthetase 10 inhibitors kill Plasmodium falciparum by disrupting triglyceride formation., Nat Commun, PMID 36927839PXD034911 Dataset with its publication pending (from PRIDE) Dataset title: TNAP - a potential cytokine in the cerebral inflammation in Spastic Cerebral Palsy Possible reference: Wang, XK. et al. (2022) TNAP-a potential cytokine in the cerebral inflammation in spastic cerebral palsy., Front Mol Neurosci, PMID 36187348PXD034908 Dataset with its publication pending (from PRIDE) Dataset title: The muscle proteome reflects changes in mitochondrial function, cellular stress and proteolysis after 14 days of unilateral lower limb immobilization in active young men Possible reference: Doering, TM. et al. (2022) The muscle proteome reflects changes in mitochondrial function, cellular stress and proteolysis after 14 days of unilateral lower limb immobilization in active young men., PLoS One, PMID 36048851PXD034901 Dataset with its publication pending (from PRIDE) Dataset title: Acetylation of p62 regulates base excision repair through interaction with APE1 Possible reference: Li, M. et al. (2022) Acetylation of p62 regulates base excision repair through interaction with APE1., Cell Rep, PMID 35858573PXD034899 Dataset with its publication pending (from PRIDE) Dataset title: Acetylation of p62 regulates base excision repair through interaction with APE1 Possible reference: Li, M. et al. (2022) Acetylation of p62 regulates base excision repair through interaction with APE1., Cell Rep, PMID 35858573PXD034891 Dataset with its publication pending (from PRIDE) Dataset title: Label-free quantitative SWATH-MS proteomic analysis of adult myocardial slices in vitro after biomimetic electromechanical stimulation Possible reference: Zabielska-Kaczorowska, MA. et al. (2022) Label-free quantitative SWATH-MS proteomic analysis of adult myocardial slices in vitro after biomimetic electromechanical stimulation., Sci Rep, PMID 36192624PXD034886 Dataset with its publication pending (from PRIDE) Dataset title: Sortilin-driven cancer secretome in HCC Possible reference: Chan, KK. et al. (2023) Sortilin-Driven Cancer Secretome Enhances Tumorigenic Properties of Hepatocellular Carcinoma via de Novo Lipogenesis., Am J Pathol, PMID 37673328PXD034881 no publication (from MassIVE) Dataset title: Dynamic acylome reveals metabolite driven modifications in Syntrophomonas wolfei Possible reference: Fu, JY. et al. (2022) Dynamic acylome reveals metabolite driven modifications in Syntrophomonas wolfei., Front Microbiol, PMID 36419437PXD034880 no publication (from MassIVE) Dataset title: Regulation of urea cycle by reversible high stoichiometry lysine succinylation Possible reference: Zhang, R. et al. (2024) Regulation of urea cycle by reversible high-stoichiometry lysine succinylation., Nat Metab, PMID 38448615PXD034879 no publication (from MassIVE) Dataset title: Variation in milk proteins across lactation in Pongo pygmaeus and Gorilla gorilla Possible reference: Cleland, TP. et al. (2022) Variation in Milk Proteins Across Lactation in Pongo pygmaeus and Gorilla gorilla., J Proteome Res, PMID 36278968PXD034875 Dataset with its publication pending (from PRIDE) Dataset title: Structure of the human FERRY Rab5 effector complex Possible reference: Quentin, D. et al. (2023) Structural basis of mRNA binding by the human FERRY Rab5 effector complex., Mol Cell, PMID 37267906PXD034862 no publication (from MassIVE) Dataset title: High sensitivity limited material proteomics empowered by data-independent acquisition on linear ion traps Possible reference: Phlairaharn, T. et al. (2022) High Sensitivity Limited Material Proteomics Empowered by Data-Independent Acquisition on Linear Ion Traps., J Proteome Res, PMID 36287219PXD034845 Dataset with its publication pending (from PRIDE) Dataset title: Oxonium Ion-Guided Ion Mobility-Assisted Glycoproteomics on the timsTOF Pro Possible reference: Mukherjee, S. et al. (2023) Oxonium Ion-Guided Optimization of Ion Mobility-Assisted Glycoproteomics on the timsTOF Pro., Mol Cell Proteomics, PMID 36549589PXD034838 no publication (from MassIVE) Dataset title: Proteomic analysis of prostate cancer FFPE samples reveals markers of disease progression and aggressiveness Possible reference: Lygirou, V. et al. (2022) Proteomic Analysis of Prostate Cancer FFPE Samples Reveals Markers of Disease Progression and Aggressiveness., Cancers (Basel), PMID 35954429PXD034829 Dataset with its publication pending (from PRIDE) Dataset title: Intestinal epithelial c-Maf expression determines enterocyte differentiation and nutrient uptake Possible reference: Cosovanu, C. et al. (2022) Intestinal epithelial c-Maf expression determines enterocyte differentiation and nutrient uptake in mice., J Exp Med, PMID 36121416PXD034808 Dataset with its publication pending (from PRIDE) Dataset title: Succinlylome profiling of bermudagrass stolons Possible reference: Zhang, B. et al. (2017) Comparative transcriptome analysis provides new insights into erect and prostrate growth in bermudagrass (Cynodon dactylon L.)., Plant Physiol Biochem, PMID 29080425PXD034805 Dataset with its publication pending (from PRIDE) Dataset title: A mass spectrometry-based approach for the identification of Kpnβ1 binding partners in cancer cells Possible reference: Okpara, MO. et al. (2022) A mass spectrometry-based approach for the identification of Kpnβ1 binding partners in cancer cells., Sci Rep, PMID 36418423PXD034801 no publication (from MassIVE) Dataset title: Lack of TRPV1 Channel Modulates Mouse Gene Expression and Liver Proteome with Glucose Metabolism Changes Possible reference: Lacerda, JT. et al. (2022) Lack of TRPV1 Channel Modulates Mouse Gene Expression and Liver Proteome with Glucose Metabolism Changes., Int J Mol Sci, PMID 35806020PXD034773 Dataset with its publication pending (from PRIDE) Dataset title: Machine learning predictions of MHC-II specificities reveal alternative binding mode of class II epitopes Possible reference: Racle, J. et al. (2023) Machine learning predictions of MHC-II specificities reveal alternative binding mode of class II epitopes., Immunity, PMID 37023751PXD034771 Dataset with its publication pending (from PRIDE) Dataset title: Inhibition of mammalian mtDNA transcription in liver reprograms metabolism to reverse diet-induced obesity and hepatosteatosis Possible reference: Jiang, S. et al. (2024) Inhibition of mammalian mtDNA transcription acts paradoxically to reverse diet-induced hepatosteatosis and obesity., Nat Metab, PMID 38689023PXD034770 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of canine (dog) serum and urine Possible reference: Rouillon, J. et al. (2014) Proteomics profiling of urine reveals specific titin fragments as biomarkers of Duchenne muscular dystrophy., Neuromuscul Disord, PMID 24813925PXD034768 Dataset with its publication pending (from jPOST) Dataset title: Suborganelle-specific protein complexes analysis enabled by in-vivo crosslinking coupled with proximal labeling Possible reference: An, Y. et al. (2022) Suborganelle-Specific Protein Complex Analysis Enabled by in Vivo Cross-Linking Coupled with Proximal Labeling., Anal Chem, PMID 36004751PXD034712 Dataset with its publication pending (from PRIDE) Dataset title: Compounds activating VCP D1 ATPase enhance both autophagic and proteasomal neurotoxic protein clearance Possible reference: Wrobel, L. et al. (2022) Compounds activating VCP D1 ATPase enhance both autophagic and proteasomal neurotoxic protein clearance., Nat Commun, PMID 35842429PXD034644 Dataset with its publication pending (from PRIDE) Dataset title: N-acetylcysteine overcomes NF1-loss driven resistance to PI3K alpha inhibition in breast cancer. Possible reference: Auf der Maur, P. et al. (2023) N-acetylcysteine overcomes NF1 loss-driven resistance to PI3Kα inhibition in breast cancer., Cell Rep Med, PMID 37044095PXD034635 no publication (from MassIVE) Dataset title: Protein nonadditivity and stability contribute to heterosis in Arabidopsis hybrids and allotetraploids Possible reference: June, V. et al. (2023) Protein nonadditive expression and solubility contribute to heterosis in Arabidopsis hybrids and allotetraploids., Front Plant Sci, PMID 37780492PXD034604 Dataset with its publication pending (from PRIDE) Dataset title: Cardioviruses’ leader proteins retarget RSK kinases toward alternative substrates to perturb nucleocytoplasmic traffic Possible reference: Lizcano-Perret, B. et al. (2022) Cardiovirus leader proteins retarget RSK kinases toward alternative substrates to perturb nucleocytoplasmic traffic., PLoS Pathog, PMID 36508477PXD034596 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of fibroblasts differentiates patients with severe, intermediate and mild spinal muscular atrophy Possible reference: Brown, SJ. et al. (2022) The Proteome Signatures of Fibroblasts from Patients with Severe, Intermediate and Mild Spinal Muscular Atrophy Show Limited Overlap., Cells, PMID 36078032PXD034565 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteome dynamics of Streptomyces rimosus during submerged growth and antibiotic production Possible reference: Šarić, E. et al. (2022) Phosphoproteome Dynamics of Streptomyces rimosus during Submerged Growth and Antibiotic Production., mSystems, PMID 36094082PXD034562 Dataset with its publication pending (from PRIDE) Dataset title: Deciphering the involvement of the Hippo pathway co - regulators, YAP/TAZ in invadopodia formation and matrix degradation Possible reference: Venghateri, JB. et al. (2023) Deciphering the involvement of the Hippo pathway co-regulators, YAP/TAZ in invadopodia formation and matrix degradation., Cell Death Dis, PMID 37185904PXD034517 Dataset with its publication pending (from PRIDE) Dataset title: MYC sensitises cells to apoptosis by driving energetic demand Possible reference: Edwards-Hicks, J. et al. (2022) MYC sensitises cells to apoptosis by driving energetic demand., Nat Commun, PMID 35945217PXD034505 no publication (from MassIVE) Dataset title: TXNRD1 drives innate immune response in senescent cells and promotes age-associated inflammation Possible reference: Hao, X. et al. (2024) TXNRD1 drives the innate immune response in senescent cells with implications for age-associated inflammation., Nat Aging, PMID 38267705PXD034498 no publication (from MassIVE) Dataset title: Quantitative Proteomics and Network Analysis of Differentially Expressed Proteins in proteomes of icefish muscle mitochondria compared with closely related red-blooded species Possible reference: Katyal, G. et al. (2022) Quantitative Proteomics and Network Analysis of Differentially Expressed Proteins in Proteomes of Icefish Muscle Mitochondria Compared with Closely Related Red-Blooded Species., Biology (Basel), PMID 35892974PXD034495 Sortase A-cleavable CD1d identifies sphingomyelins as major class of CD1d-associated lipids (from PanoramaPublic) Dataset title: Sortase A-cleavable CD1d identifies sphingomyelins as major class of CD1d-associated lipids Possible reference: Rudolph, M. et al. (2022) Sortase A-Cleavable CD1d Identifies Sphingomyelins as Major Class of CD1d-Associated Lipids., Front Immunol, PMID 35874748PXD034486 Dataset with its publication pending (from iProX) Dataset title: Proteomics of human placenta-derived exosome Possible reference: Familari, M. et al. (2017) Placenta-derived extracellular vesicles: their cargo and possible functions., Reprod Fertil Dev, PMID 26411402PXD034482 no publication (from MassIVE) Dataset title: A naturally occurring variant of SHLP2 is a protective factor in Parkinson disease Possible reference: Kim, SJ. et al. (2024) A naturally occurring variant of SHLP2 is a protective factor in Parkinson's disease., Mol Psychiatry, PMID 38167865PXD034476 Dataset with its publication pending (from PRIDE) Dataset title: Deep Proteome profiling reveals signatures of age and sex differences in paw skin and sciatic nerve of nave mice Possible reference: Xian, F. et al. (2022) Deep proteome profiling reveals signatures of age and sex differences in paw skin and sciatic nerve of nave mice., Elife, PMID 36448997PXD034471 Dataset with its publication pending (from PRIDE) Dataset title: Coordinate control of endoplasmic reticulum chaperone biosynthesis and peptide hormone secretion revealed by a β-cell model of Prader-Willi syndrome Possible reference: Koppes, EA. et al. (2023) Insulin secretion deficits in a Prader-Willi syndrome β-cell model are associated with a concerted downregulation of multiple endoplasmic reticulum chaperones., PLoS Genet, PMID 37068109PXD034464 Dataset with its publication pending (from PRIDE) Dataset title: Novel splicing and open reading frames revealed by long-read direct RNA sequencing of adenovirus transcripts Possible reference: Price, AM. et al. (2022) Novel viral splicing events and open reading frames revealed by long-read direct RNA sequencing of adenovirus transcripts., PLoS Pathog, PMID 36095031PXD034448 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive chromatin proteomics resolves functional phases of pluripotency and identifies changes in regulatory components Possible reference: Ugur, E. et al. (2023) Comprehensive chromatin proteomics resolves functional phases of pluripotency and identifies changes in regulatory components., Nucleic Acids Res, PMID 36806742PXD034444 Dataset with its publication pending (from PRIDE) Dataset title: Collateral lethality between HDAC1 and HDAC2 exploits cancer-specific NuRD complex vulnerabilities Possible reference: Zhang, Y. et al. (2023) Collateral lethality between HDAC1 and HDAC2 exploits cancer-specific NuRD complex vulnerabilities., Nat Struct Mol Biol, PMID 37488358PXD034440 Dataset with its publication pending (from PRIDE) Dataset title: Chemical degradation of BTK/TEC as a novel approach to inhibit platelet function. Possible reference: Trory, JS. et al. (2023) Chemical degradation of BTK/TEC as a novel approach to inhibit platelet function., Blood Adv, PMID 36342848PXD034409 Dataset with its publication pending (from jPOST) Dataset title: Proteomic Profiling of Cutaneous Melanoma Identifies Novel Molecular Signatures of Tumour Metastasis Possible reference: Duffy, DJ. et al. (2016) Wnt signalling is a bi-directional vulnerability of cancer cells., Oncotarget, PMID 27531891PXD034383 Dataset with its publication pending (from PRIDE) Dataset title: Venom dynamics across populations of Nematostella Possible reference: Smith, EG. et al. (2023) Micro and macroevolution of sea anemone venom phenotype., Nat Commun, PMID 36646703PXD034370 Dataset with its publication pending (from PRIDE) Dataset title: Microscopy-based functional single cell proteomic profiling of cells with abnormal DNA damage response dynamics Possible reference: Su, PR. et al. (2022) Microscopy-based single-cell proteomic profiling reveals heterogeneity in DNA damage response dynamics., Cell Rep Methods, PMID 35784653PXD034355 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomic analysis of neoadjuvant breast cancer reveals a subset of patients with increased sensitivity to paclitaxel driven by CDK4 and Filamin A. Possible reference: Mouron, S. et al. (2022) Phosphoproteomic analysis of neoadjuvant breast cancer suggests that increased sensitivity to paclitaxel is driven by CDK4 and filamin A., Nat Commun, PMID 36477027PXD034351 Dataset with its publication pending (from PRIDE) Dataset title: System-wide profiling of drug residence time by proteome integral solubility alteration assay Possible reference: Sabatier, P. et al. (2022) System-Wide Profiling by Proteome Integral Solubility Alteration Assay of Drug Residence Times for Target Characterization., Anal Chem, PMID 36377428PXD034342 Dataset with its publication pending (from PRIDE) Dataset title: Human mitochondria require mtRF1 for translation termination at non-canonical stop codons Possible reference: Nadler, F. et al. (2022) Human mtRF1 terminates COX1 translation and its ablation induces mitochondrial ribosome-associated quality control., Nat Commun, PMID 36302763PXD034341 Dataset with its publication pending (from PRIDE) Dataset title: m6a methylation orchestrates IMP1 regulation of microtubules during human neuronal differentiation Possible reference: Klein, P. et al. (2024) m6a methylation orchestrates IMP1 regulation of microtubules during human neuronal differentiation., Nat Commun, PMID 38844464PXD034275 no publication (from MassIVE) Dataset title: In-depth Analysis of the Sirtuin 5-regulated Mouse Brain Acylome using Library-free Data-Independent Acquisitions Possible reference: Bons, J. et al. (2023) In-depth analysis of the Sirtuin 5-regulated mouse brain malonylome and succinylome using library-free data-independent acquisitions., Proteomics, PMID 36479818PXD034273 no publication (from MassIVE) Dataset title: Isolation of intact and active FoF1 ATP synthase using a FLAG-tagged subunit from the cyanobacterium Synechocystis sp. PCC 6803 Possible reference: Song, K. et al. (2022) Isolation of intact and active FoF1 ATP synthase using a FLAG-tagged subunit from the cyanobacterium Synechocystis sp. PCC 6803., STAR Protoc, PMID 36039073PXD034268 Dataset with its publication pending (from iProX) Dataset title: Aeromonas hydrophila NJ-35 proteome Possible reference: Liu, J. et al. (2018) Tetrahymena thermophila Predation Enhances Environmental Adaptation of the Carp Pathogenic Strain Aeromonas hydrophila NJ-35., Front Cell Infect Microbiol, PMID 29594069PXD034248 Dataset with its publication pending (from PRIDE) Dataset title: The E3 ubiquitin ligase adaptor cereblon targets the C-terminal cyclic imide degron Possible reference: Ichikawa, S. et al. (2024) The cyclimids: Degron-inspired cereblon binders for targeted protein degradation., Cell Chem Biol, PMID 38320555PXD034244 Dataset with its publication pending (from PRIDE) Dataset title: Transcriptome and proteome profiling of activated cardiac fibroblasts supports target prioritization in cardiac fibrosis Possible reference: Moita, MR. et al. (2022) Transcriptome and proteome profiling of activated cardiac fibroblasts supports target prioritization in cardiac fibrosis., Front Cardiovasc Med, PMID 36531712PXD034242 Dataset with its publication pending (from PRIDE) Dataset title: The non-classical major-histocompatibility-complex II protein SLA-DM is crucial for African swine fever virus replication Possible reference: Pannhorst, K. et al. (2023) The non-classical major histocompatibility complex II protein SLA-DM is crucial for African swine fever virus replication., Sci Rep, PMID 37604847PXD034233 Dataset with its publication pending (from iProX) Dataset title: Significant alterations of sphingolipid metabolism in GC discovered by lipidome pseudotargeted metabolomics Possible reference: Zeng, J. et al. (2022) Lipid metabolism characterization in gastric cancer identifies signatures to predict prognostic and therapeutic responses., Front Genet, PMID 36406121PXD034231 Dataset with its publication pending (from jPOST) Dataset title: Mitochondrial protein import stress regulates the LC3 lipidation step of mitophagy through NLRX1 and RRBP1 Possible reference: Killackey, SA. et al. (2022) Mitochondrial protein import stress regulates the LC3 lipidation step of mitophagy through NLRX1 and RRBP1., Mol Cell, PMID 35752171PXD034226 Dataset with its publication pending (from iProX) Dataset title: Proteome analysis of two Eucalyptus species during the somatic embryogenesis Possible reference: Chen, S. et al. (2024) Integration analysis of transcriptome and proteome profiles brings new insights of somatic embryogenesis of two eucalyptus species., BMC Plant Biol, PMID 38877454PXD034214 Dataset with its publication pending (from PRIDE) Dataset title: Plasma glycoproteomics delivers high-specificity disease biomarkers by detecting site-specific glycosylation abnormalities Possible reference: Wessels, HJCT. et al. (2024) Plasma glycoproteomics delivers high-specificity disease biomarkers by detecting site-specific glycosylation abnormalities., J Adv Res, PMID 37683725PXD034187 Dataset with its publication pending (from PRIDE) Dataset title: HBO1 Catalyzes Lysine Benzoylation in Mammalian Cells Possible reference: Tan, D. et al. (2022) HBO1 catalyzes lysine benzoylation in mammalian cells., iScience, PMID 36388951PXD034174 Dataset with its publication pending (from PRIDE) Dataset title: Physiological constraints dictate toxin spatial heterogeneity in snake venom glands Possible reference: Kazandjian, TD. et al. (2022) Physiological constraints dictate toxin spatial heterogeneity in snake venom glands., BMC Biol, PMID 35761243PXD034173 Dataset with its publication pending (from PRIDE) Dataset title: The type-A response regulators negatively mediate heat stress response by altering redox homeostasis in Arabidopsis Possible reference: Jindal, S. et al. (2022) Type-A response regulators negatively mediate heat stress response by altering redox homeostasis in Arabidopsis., Front Plant Sci, PMID 36212299PXD034172 no publication (from MassIVE) Dataset title: Oxonium ion scanning mass spectrometry for large-scale plasma glycoproteomics Possible reference: White, MEH. et al. (2024) Oxonium ion scanning mass spectrometry for large-scale plasma glycoproteomics., Nat Biomed Eng, PMID 37474612PXD034170 no publication (from MassIVE) Dataset title: Bioprospecting the American Alligator Peptidome for Antiviral Peptides Against Venezuelan Equine Encephalitis Virus Possible reference: Carfagno, A. et al. (2023) Bioprospecting the American Alligator Peptidome for antiviral peptides against Venezuelan equine encephalitis virus., Proteomics, PMID 36480152PXD034167 Dataset with its publication pending (from PRIDE) Dataset title: The Plasmodium falciparum Nuclear Protein Phosphatase NIF4 is Required for Efficient Merozoite Invasion and Regulates Artemisinin Sensitivity Possible reference: Zhu, X. et al. (2022) The Plasmodium falciparum Nuclear Protein Phosphatase NIF4 Is Required for Efficient Merozoite Invasion and Regulates Artemisinin Sensitivity., mBio, PMID 35938722PXD034156 Dataset with its publication pending (from PRIDE) Dataset title: DYRK1A regulates B cell class switch recombination through phosphorylation of MSH6 Possible reference: Stoler-Barak, L. et al. (2023) B cell class switch recombination is regulated by DYRK1A through MSH6 phosphorylation., Nat Commun, PMID 36927854PXD034140 Dataset with its publication pending (from PRIDE) Dataset title: Non-histone protein methylation in Trypanosoma cruzi epimastigotes Possible reference: de Almeida, RF. et al. (2023) Non-histone protein methylation in Trypanosoma cruzi epimastigotes., Proteomics, PMID 37183273PXD034121 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic response of A549 lung cancer cell line to Venetin-1 Possible reference: Czaplewska, P. et al. (2023) Proteomic response of A549 lung cancer cell line to protein-polysaccharide complex Venetin-1 isolated from earthworm coelomic fluid., Front Mol Biosci, PMID 37377864PXD034107 Dataset with its publication pending (from PRIDE) Dataset title: Nematode gene annotation by machine learning assisted proteotranscriptomics enables proteome-wide evolutionary analysis Possible reference: Ceron-Noriega, A. et al. (2023) Nematode gene annotation by machine-learning-assisted proteotranscriptomics enables proteome-wide evolutionary analysis., Genome Res, PMID 36653121PXD034100 Dataset with its publication pending (from PRIDE) Dataset title: CIP2A-TOPBP1 Interaction in Human Mitotic Cells Possible reference: De Marco Zompit, M. et al. (2022) The CIP2A-TOPBP1 complex safeguards chromosomal stability during mitosis., Nat Commun, PMID 35842428PXD034076 Dataset with its publication pending (from PRIDE) Dataset title: Bioactive insulin-loaded electrospun wound dressings for localized drug delivery and stimulation of protein expression associated with wound healing Possible reference: Walther, M. et al. (2023) Bioactive Insulin-Loaded Electrospun Wound Dressings for Localized Drug Delivery and Stimulation of Protein Expression Associated with Wound Healing., Mol Pharm, PMID 36538353PXD034065 Dataset with its publication pending (from PRIDE) Dataset title: Chitotriosidase 1 in the cerebrospinal fluid as a putative biomarker for HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP) progression Possible reference: Gomes, YCP. et al. (2022) Chitotriosidase 1 in the cerebrospinal fluid as a putative biomarker for HTLV-1-associated myelopathy/tropical spastic paraparesis (HAM/TSP) progression., Front Immunol, PMID 36052089PXD034056 Dataset with its publication pending (from PRIDE) Dataset title: inSPIRE Spectral Rescoring Tool Possible reference: Cormican, JA. et al. (2022) inSPIRE: An Open-Source Tool for Increased Mass Spectrometry Identification Rates Using Prosit Spectral Prediction., Mol Cell Proteomics, PMID 36280141PXD034041 Dataset with its publication pending (from jPOST) Dataset title: Apically-located P4-ATPase1-Lem1 complex flips phosphatidylserine and regulates motility-dependent invasion and egress in Toxoplasma gondii Possible reference: Chen, K. et al. (2023) Apically-located P4-ATPase1-Lem1 complex internalizes phosphatidylserine and regulates motility-dependent invasion and egress in Toxoplasma gondii., Comput Struct Biotechnol J, PMID 36936814PXD034033 Dataset with its publication pending (from jPOST) Dataset title: Phosphorylation barcodes encoded by CXCR3 agonists direct biased chemokine signaling Possible reference: Eiger, DS. et al. (2023) Phosphorylation barcodes direct biased chemokine signaling at CXCR3., bioRxiv, PMID 36993369PXD034031 Dataset with its publication pending (from jPOST) Dataset title: Plasma membrane-associated proteins identified in Arabidopsis wild type, lbr2-2 and bak1-4 mutants treated with LPSs from Pseudomonas syringae and Xanthomonas campestris Possible reference: Offor, BC. et al. (2022) Plasma Membrane-Associated Proteins Identified in Arabidopsis Wild Type, lbr2-2 and bak1-4 Mutants Treated with LPSs from Pseudomonas syringae and Xanthomonas campestris., Membranes (Basel), PMID 35736313PXD034028 Dataset with its publication pending (from PRIDE) Dataset title: Activation loop phosphorylation tunes conformational dynamics underlying Pyk2 tyrosine kinase activation Possible reference: Palhano Zanela, TM. et al. (2023) Activation loop phosphorylation tunes conformational dynamics underlying Pyk2 tyrosine kinase activation., Structure, PMID 36870334PXD034027 Dataset with its publication pending (from PRIDE) Dataset title: DISCO-MS: Proteomics of spatially identified tissues in whole organs and organisms Possible reference: Bhatia, HS. et al. (2022) Spatial proteomics in three-dimensional intact specimens., Cell, PMID 36563667PXD034026 Dataset with its publication pending (from jPOST) Dataset title: A cell type-specific proteomics uncovers a guard cell-specific RAF15-SnRK2.6/OST1 kinase cascade Possible reference: Wang, H. et al. (2023) Cell type-specific proteomics uncovers a RAF15-SnRK2.6/OST1 kinase cascade in guard cells., J Integr Plant Biol, PMID 37226855PXD034018 Dataset with its publication pending (from jPOST) Dataset title: Absolute quantification of ribosome subunits Possible reference: Waite, CJ. et al. (2021) Resource Allocation During the Transition to Diazotrophy in Klebsiella oxytoca., Front Microbiol, PMID 34434180PXD034014 Dataset with its publication pending (from PRIDE) Dataset title: The small RNA Teg41 is a pleiotropic regulator of virulence in Staphylococcus aureus Possible reference: Briaud, P. et al. (2022) The Small RNA Teg41 Is a Pleiotropic Regulator of Virulence in Staphylococcus aureus., Infect Immun, PMID 36214557PXD034002 Dataset with its publication pending (from iProX) Dataset title: Caffeine alleviates high altitude pulmonary edema via mitochondrial quality control process Possible reference: Tian, L. et al. (2023) Low-dose of caffeine alleviates high altitude pulmonary edema via regulating mitochondrial quality control process in AT1 cells., Front Pharmacol, PMID 37081967PXD033999 no publication (from MassIVE) Dataset title: GTSF1 accelerates target RNA cleavage by PIWI-clade Argonaute proteins Possible reference: Arif, A. et al. (2022) GTSF1 accelerates target RNA cleavage by PIWI-clade Argonaute proteins., Nature, PMID 35772669PXD033978 Dataset with its publication pending (from PRIDE) Dataset title: Charting the proteoform landscape of serum proteins in individual donors by high-resolution native mass spectrometry Possible reference: Cramer, DAT. et al. (2022) Charting the Proteoform Landscape of Serum Proteins in Individual Donors by High-Resolution Native Mass Spectrometry., Anal Chem, PMID 36074704PXD033957 Dataset with its publication pending (from PRIDE) Dataset title: The Plasmodium falciparum Nuclear Protein Phosphatase NIF4 is Required for Efficient Merozoite Invasion and Regulates Artemisinin Sensitivity Possible reference: Zhu, X. et al. (2022) The Plasmodium falciparum Nuclear Protein Phosphatase NIF4 Is Required for Efficient Merozoite Invasion and Regulates Artemisinin Sensitivity., mBio, PMID 35938722PXD033942 Dataset with its publication pending (from PRIDE) Dataset title: Identification of myeloid-derived growth factor as a mechanically-induced, growth-promoting angiocrine signal for human hepatocytes Possible reference: Groe-Segerath, L. et al. (2024) Identification of myeloid-derived growth factor as a mechanically-induced, growth-promoting angiocrine signal for human hepatocytes., Nat Commun, PMID 38316785PXD033940 Dataset with its publication pending (from PRIDE) Dataset title: An optimized proteomics approach reveals novel alternative proteins in mouse liver development Possible reference: Yang, Y. et al. (2023) An Optimized Proteomics Approach Reveals Novel Alternative Proteins in Mouse Liver Development., Mol Cell Proteomics, PMID 36494044PXD033923 Dataset with its publication pending (from PRIDE) Dataset title: The Human Nse5 Orthologue SIMC1 Localizes SMC5/6 to Polyomavirus Replication Centers Possible reference: Oravcov, M. et al. (2022) The Nse5/6-like SIMC1-SLF2 complex localizes SMC5/6 to viral replication centers., Elife, PMID 36373674PXD033901 Dataset with its publication pending (from PRIDE) Dataset title: Optogenetic rejuvenation of mitochondrial membrane potential extends C. elegans lifespan Possible reference: Berry, BJ. et al. (2023) Optogenetic rejuvenation of mitochondrial membrane potential extends C. elegans lifespan., Nat Aging, PMID 36873708PXD033887 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of the wood decay fungus Fomitopsis pinicola is altered by substrate Possible reference: Sabat, G. et al. (2022) Proteome of the Wood Decay Fungus Fomitopsis pinicola Is Altered by Substrate., Microbiol Resour Announc, PMID 35969048PXD033874 Dataset with its publication pending (from PRIDE) Dataset title: GFP pulldown for the RiboVD project Possible reference: Lin, H. et al. (2022) Improving Lipophagy by Restoring Rab7 Cycle: Protective Effects of Quercetin on Ethanol-Induced Liver Steatosis., Nutrients, PMID 35277017PXD033871 Dataset with its publication pending (from PRIDE) Dataset title: A cooperative organelle biogenesis program in mammalian cells Possible reference: Perera, RM. et al. (2016) The Lysosome as a Regulatory Hub., Annu Rev Cell Dev Biol, PMID 27501449PXD033868 Dataset with its publication pending (from PRIDE) Dataset title: MSRescore: Data-driven rescoring dramatically boosts immunopeptide identification rates Possible reference: Declercq, A. et al. (2022) MS2Rescore: Data-Driven Rescoring Dramatically Boosts Immunopeptide Identification Rates., Mol Cell Proteomics, PMID 35803561PXD033863 Dataset with its publication pending (from PRIDE) Dataset title: Sox9 directs divergent epigenomic states in brain tumor subtypes Possible reference: Sardar, D. et al. (2022) Sox9 directs divergent epigenomic states in brain tumor subtypes., Proc Natl Acad Sci U S A, PMID 35858326PXD033858 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic network of antibiotic-induced outer membrane vesicles released by extensively drug-resistant Elizabethkingia anophelis Possible reference: Chiang, MH. et al. (2022) Proteomic Network of Antibiotic-Induced Outer Membrane Vesicles Released by Extensively Drug-Resistant Elizabethkingia anophelis., Microbiol Spectr, PMID 35852325PXD033843 Dataset with its publication pending (from PRIDE) Dataset title: Duplicated ribosomal protein paralogs promote alternative translation and drug resistance Possible reference: Malik Ghulam, M. et al. (2022) Duplicated ribosomal protein paralogs promote alternative translation and drug resistance., Nat Commun, PMID 35999447PXD033836 Dataset with its publication pending (from PRIDE) Dataset title: The DREAM complex functions as conserved master regulator of somatic DNA repair capacities Possible reference: Bujarrabal-Dueso, A. et al. (2023) The DREAM complex functions as conserved master regulator of somatic DNA-repair capacities., Nat Struct Mol Biol, PMID 36959262PXD033787 no publication (from MassIVE) Dataset title: Coenzyme A binding sites induce proximal acylation across protein families Possible reference: Carrico, C. et al. (2023) Coenzyme A binding sites induce proximal acylation across protein families., Sci Rep, PMID 36977698PXD033762 Dataset with its publication pending (from PRIDE) Dataset title: Mebendazole Inhibits Histoplasma capsulatum In Vitro Growth and Decreases Mitochondrion and Cytoskeleton Protein Levels Possible reference: Almeida, MA. et al. (2023) Mebendazole Inhibits Histoplasma capsulatum In Vitro Growth and Decreases Mitochondrion and Cytoskeleton Protein Levels., J Fungi (Basel), PMID 36983553PXD033755 Dataset with its publication pending (from iProX) Dataset title: Proteome-wide analysis of protein thermal stability in Arabidopsis Possible reference: Volkening, JD. et al. (2019) Proteome-wide Analysis of Protein Thermal Stability in the Model Higher Plant Arabidopsis thaliana., Mol Cell Proteomics, PMID 30401684PXD033752 Dataset with its publication pending (from PRIDE) Dataset title: Salivary orosomucoid 1 as a biomarker of hepatitis B associated hepatocellular carcinoma Possible reference: He, J. et al. (2022) Salivary orosomucoid 1 as a biomarker of hepatitis B associated hepatocellular carcinoma., Sci Rep, PMID 36096917PXD033741 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Characterization of Epithelial Ovarian Cancer Delineates Molecular Signatures and Therapeutic Targets in Distinct Histological Subtypes Possible reference: Gong, TT. et al. (2023) Proteomic characterization of epithelial ovarian cancer delineates molecular signatures and therapeutic targets in distinct histological subtypes., Nat Commun, PMID 38016970PXD033731 Dataset with its publication pending (from jPOST) Dataset title: TRIM22 negatively regulates MHC-II expression Possible reference: Inoue, A. et al. (2022) TRIM22 negatively regulates MHC-II expression., Biochim Biophys Acta Mol Cell Res, PMID 35777501PXD033728 Dataset with its publication pending (from iProX) Dataset title: Serum Exosome Proteome Differentiate Early Stage Liver Fibrosis Possible reference: Ye, B. et al. (2022) Differential proteomic analysis of plasma-derived exosomes as diagnostic biomarkers for chronic HBV-related liver disease., Sci Rep, PMID 36002595PXD033722 . . . (from MassIVE) Dataset title: Proteome Remodeling of the Eye Lens at 50 Years Identified with Data-Independent Acquisition Possible reference: Cantrell, LS. et al. (2023) Proteome Remodeling of the Eye Lens at 50Years Identified With Data-Independent Acquisition., Mol Cell Proteomics, PMID 36470534PXD033701 Dataset with its publication pending (from iProX) Dataset title: Placental proteome Analysis in women with intrahepatic cholestasis of pregnancy by LC-MS/MS Possible reference: Zhang, T. et al. (2013) Comparative proteomics analysis of placenta from pregnant women with intrahepatic cholestasis of pregnancy., PLoS One, PMID 24391750PXD033692 Dataset with its publication pending (from PRIDE) Dataset title: Metaexoproteomics identifies active plant-microbe interactions operating in the rhizosphere Possible reference: Lidbury, IDEA. et al. (2022) Stimulation of Distinct Rhizosphere Bacteria Drives Phosphorus and Nitrogen Mineralization in Oilseed Rape under Field Conditions., mSystems, PMID 35862821PXD033673 Dataset with its publication pending (from PRIDE) Dataset title: Neddylation tunes peripheral blood mononuclear cells immune response in COVID-19 patients Possible reference: Serrano-Maci, M. et al. (2022) Neddylation tunes peripheral blood mononuclear cells immune response in COVID-19 patients., Cell Death Discov, PMID 35831294PXD033654 no publication (from MassIVE) Dataset title: Streptomyces tenebrarius proteomics Possible reference: Linardi, D. et al. (2022) Proteomining-Based Elucidation of Natural Product Biosynthetic Pathways in Streptomyces., Front Microbiol, PMID 35898901PXD033644 Dataset with its publication pending (from PRIDE) Dataset title: Transforming chemical proteomics into high-throughput method using SP2E workflow. Possible reference: Becker, T. et al. (2022) Transforming Chemical Proteomics Enrichment into a High-Throughput Method Using an SP2E Workflow., JACS Au, PMID 35911458PXD033640 Dataset with its publication pending (from PRIDE) Dataset title: Plasmid manipulation of bacterial behaviour through translational regulatory crosstalk Possible reference: Thompson, CMA. et al. (2023) Plasmids manipulate bacterial behaviour through translational regulatory crosstalk., PLoS Biol, PMID 36787297PXD033616 Dataset with its publication pending (from PRIDE) Dataset title: Druggable Serine Proteases of Leishmania by Activity‐Based Protein Profiling Possible reference: Porta, EOJ. et al. (2022) Discovery of Leishmania Druggable Serine Proteases by Activity-Based Protein Profiling., Front Pharmacol, PMID 35910377PXD033586 Dataset with its publication pending (from PRIDE) Dataset title: The marine Bacteroidetes Muricauda sp. MAR_2010_75 digests diatom β-mannan Possible reference: Beidler, I. et al. (2023) Marine bacteroidetes use a conserved enzymatic cascade to digest diatom β-mannan., ISME J, PMID 36411326PXD033583 Dataset with its publication pending (from PRIDE) Dataset title: RcgA and RcgR, two novel proteins involved in conjugative transfer of rhizobial plasmids Possible reference: Castellani, LG. et al. (2022) RcgA and RcgR, Two Novel Proteins Involved in the Conjugative Transfer of Rhizobial Plasmids., mBio, PMID 36073816PXD033571 no publication (from MassIVE) Dataset title: Shared and distinctive neighborhoods of emerin and LBR revealed by proximity labeling and quantitative proteomics Possible reference: Cheng, LC. et al. (2022) Shared and Distinctive Neighborhoods of Emerin and Lamin B Receptor Revealed by Proximity Labeling and Quantitative Proteomics., J Proteome Res, PMID 35972904PXD033560 Dataset with its publication pending (from iProX) Dataset title: Proteomic Analysis of Retinal Degeneration in the Rd10 Mouse Possible reference: Ly, A. et al. (2016) Proteomic Profiling Suggests Central Role Of STAT Signaling during Retinal Degeneration in the rd10 Mouse Model., J Proteome Res, PMID 26939627PXD033553 Dataset with its publication pending (from PRIDE) Dataset title: Role of the two-component system CiaRH in the regulation of efflux pump SatAB and its correlation with fluoroquinolones susceptibility Possible reference: Yang, X. et al. (2022) Role of the Two-Component System CiaRH in the Regulation of Efflux Pump SatAB and Its Correlation with Fluoroquinolone Susceptibility., Microbiol Spectr, PMID 35638854PXD033528 Dataset with its publication pending (from PRIDE) Dataset title: A Conformation specific Nanobody Targeting the NMN-activated State of SARM1 Possible reference: Hou, YN. et al. (2022) A conformation-specific nanobody targeting the nicotinamide mononucleotide-activated state of SARM1., Nat Commun, PMID 36550129PXD033509 Dataset with its publication pending (from PRIDE) Dataset title: Interacting partners of Trypanosoma brucei RBSR1 and RBSR2 Possible reference: Waithaka, A. et al. (2022) Sequences and proteins that influence mRNA processing in Trypanosoma brucei: Evolutionary conservation of SR-domain and PTB protein functions., PLoS Negl Trop Dis, PMID 36288402PXD033508 Dataset with its publication pending (from PRIDE) Dataset title: SENP2 is an important regulator of energy metabolism in adipocytes and knockdown increases markers of browning Possible reference: Krapf, SA. et al. (2023) SENP2 knockdown in human adipocytes reduces glucose metabolism and lipid accumulation, while increases lipid oxidation., Metabol Open, PMID 37013149PXD033507 Dataset with its publication pending (from PRIDE) Dataset title: Aedes aegypti CLIPB9 activates prophenoloxidase-3 in the presence of CLIPA14 after fungal infection Possible reference: Ji, Y. et al. (2022) Aedes aegypti CLIPB9 activates prophenoloxidase-3 in the presence of CLIPA14 after fungal infection., Front Immunol, PMID 35967454PXD033506 Dataset with its publication pending (from PRIDE) Dataset title: GLH/VASA helicases promote germ granule formation to ensure the fidelity of piRNA-mediated transcriptome surveillance Possible reference: Chen, W. et al. (2022) GLH/VASA helicases promote germ granule formation to ensure the fidelity of piRNA-mediated transcriptome surveillance., Nat Commun, PMID 36085149PXD033488 Dataset with its publication pending (from PRIDE) Dataset title: Human RIPK3 C-lobe phosphorylation is essential for necroptotic signaling Possible reference: Meng, Y. et al. (2022) Human RIPK3 C-lobe phosphorylation is essential for necroptotic signaling., Cell Death Dis, PMID 35739084PXD033480 Dataset with its publication pending (from iProX) Dataset title: fish-Cynoglossus semilaevis skin mucus and exosome proteome Possible reference: Zhao, N. et al. (2021) Proteomics of mucosal exosomes of Cynoglossus semilaevis altered when infected by Vibrio harveyi., Dev Comp Immunol, PMID 33582105PXD033476 Dataset with its publication pending (from PRIDE) Dataset title: A proteomics approach reveals digestive and nutritional responses to food intake in anadromous Coilia nasus Possible reference: Ma, F. et al. (2022) A proteomics approach reveals digestive and nutritional responses to food intake in anadromous Coilia nasus., Comp Biochem Physiol Part D Genomics Proteomics, PMID 35594610PXD033468 Dataset with its publication pending (from PRIDE) Dataset title: Discovery and characterization of a new class of O-linking oligosaccharyltransferase from bacteria in the Moraxellaceae family Possible reference: Knoot, CJ. et al. (2023) Discovery and characterization of a new class of O-linking oligosaccharyltransferases from the Moraxellaceae family., Glycobiology, PMID 36239418PXD033461 Dataset with its publication pending (from iProX) Dataset title: Proteomic and Phosphoproteomic Analyses Reveal Gibel Carp Responses to Cyprinid Herpesvirus 2 Infection Possible reference: Xu, C. et al. (2022) Proteomic and Phosphoproteomic Analyses Reveal Gibel Carp Responses to Cyprinid Herpesvirus 2 Infection., J Proteome Res, PMID 35792615PXD033458 no publication (from MassIVE) Dataset title: Histone malonylation is regulated by SIRT5 and KAT2A Possible reference: Zhang, R. et al. (2023) Histone malonylation is regulated by SIRT5 and KAT2A., iScience, PMID 36879797PXD033449 Dataset with its publication pending (from PRIDE) Dataset title: Integrative proteomic and physiological analyses of the molecular response to dessication-stress in Auricularia fibrillifera Possible reference: Guo, H. et al. (2022) Integrative proteomic and physiological analyses of the molecular response to dessication-stress in Auricularia fibrillifera., Front Plant Sci, PMID 36212373PXD033440 Dataset with its publication pending (from PRIDE) Dataset title: Loss of colonic primary cilia promotes inflammation and carcinogenesis Possible reference: Paul, C. et al. (2022) Loss of primary cilia promotes inflammation and carcinogenesis., EMBO Rep, PMID 36281991PXD033418 Dataset with its publication pending (from PRIDE) Dataset title: Metaproteome plasticity sheds light on the ecology of the rumen microbiome and its connection to host traits Possible reference: Sasson, G. et al. (2022) Metaproteome plasticity sheds light on the ecology of the rumen microbiome and its connection to host traits., ISME J, PMID 35974086PXD033412 Dataset with its publication pending (from PRIDE) Dataset title: Hepatic urea, creatinine and uric acid metabolism in dairy cows with divergent milk urea concentrations Possible reference: Prahl, MC. et al. (2022) Hepatic urea, creatinine and uric acid metabolism in dairy cows with divergent milk urea concentrations., Sci Rep, PMID 36266429PXD033407 Dataset with its publication pending (from PRIDE) Dataset title: Selective modulation of cell surface proteins during vaccinia infection: a resource for identifying viral immune evasion strategies Possible reference: Depierreux, DM. et al. (2022) Selective modulation of cell surface proteins during vaccinia infection: A resource for identifying viral immune evasion strategies., PLoS Pathog, PMID 35727847PXD033404 Dataset with its publication pending (from iProX) Dataset title: Proteomics of AH sample from Diabetic Macular Edema Possible reference: Han, R. et al. (2022) Proteome Changes Associated with the VEGFR Pathway and Immune System in Diabetic Macular Edema Patients at Different Diabetic Retinopathy Stages., Curr Eye Res, PMID 35435079PXD033403 Dataset with its publication pending (from jPOST) Dataset title: Time series of E. coli whole proteomic analysis before and after severe heat shock Possible reference: Shay, JW. et al. (2016) Abstracts from the 3rd International Genomic Medicine Conference (3rd IGMC 2015) : Jeddah, Kingdom of Saudi Arabia. 30 November - 3 December 2015., BMC Genomics, PMID 27454254PXD033394 Dataset with its publication pending (from PRIDE) Dataset title: Angel2 phosphatase activity is required for non-canonical mitochondrial RNA processing Possible reference: Clemente, P. et al. (2022) ANGEL2 phosphatase activity is required for non-canonical mitochondrial RNA processing., Nat Commun, PMID 36180430PXD033375 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of differentially abundant proteins in sugarcane during red rot infection Possible reference: Ashwin, NMR. et al. (2017) Comparative secretome analysis of Colletotrichum falcatum identifies a cerato-platanin protein (EPL1) as a potential pathogen-associated molecular pattern (PAMP) inducing systemic resistance in sugarcane., J Proteomics, PMID 28546091PXD033362 Dataset with its publication pending (from jPOST) Dataset title: Bioenergetic phenotyping of DEN-induced hepatocellular carcinoma reveals a link between adenylate kinase isoform expression and reduced complex I-supported respiration. Possible reference: McLaughlin, KL. et al. (2022) Bioenergetic Phenotyping of DEN-Induced Hepatocellular Carcinoma Reveals a Link Between Adenylate Kinase Isoform Expression and Reduced Complex I-Supported Respiration., Front Oncol, PMID 35756609PXD033360 Dataset with its publication pending (from PRIDE) Dataset title: Korean Lung Adenocarcinoma proteogenomics Possible reference: Kim, H. et al. (2024) Proteogenomic characterization identifies clinical subgroups in EGFR and ALK wild-type never-smoker lung adenocarcinoma., Exp Mol Med, PMID 39300154PXD033356 Dataset with its publication pending (from PRIDE) Dataset title: NCOA4-mediated ferritinophagy is a pancreatic cancer dependency via maintenance of iron bioavailability for iron-sulfur cluster proteins Possible reference: Santana-Codina, N. et al. (2022) NCOA4-Mediated Ferritinophagy Is a Pancreatic Cancer Dependency via Maintenance of Iron Bioavailability for Iron-Sulfur Cluster Proteins., Cancer Discov, PMID 35771492PXD033353 Dataset with its publication pending (from PRIDE) Dataset title: UHMK1 is a novel splicing regulatory kinase Possible reference: Arfelli, VC. et al. (2023) UHMK1 is a novel splicing regulatory kinase., J Biol Chem, PMID 36803961PXD033351 Dataset with its publication pending (from PRIDE) Dataset title: Pan-cancer tumor-specific antigens and membrane targets from transposable elements Possible reference: Shah, NM. et al. (2023) Pan-cancer analysis identifies tumor-specific antigens derived from transposable elements., Nat Genet, PMID 36973455PXD033348 Dataset with its publication pending (from PRIDE) Dataset title: A toolbox for systematic discovery of stable and transient protein interactors in baker’s yeast Possible reference: Fenech, EJ. et al. (2023) A toolbox for systematic discovery of stable and transient protein interactors in baker's yeast., Mol Syst Biol, PMID 36651308PXD033341 Dataset with its publication pending (from PRIDE) Dataset title: Identification of lysine succinylome and acetylome in vancomycin-intermediate Staphylococcus aureus XN108 Possible reference: Tan, L. et al. (2022) Identification of Lysine Succinylome and Acetylome in the Vancomycin-Intermediate Staphylococcus aureus XN108., Microbiol Spectr, PMID 36374118PXD033335 Dataset with its publication pending (from PRIDE) Dataset title: Integrated Multiomics analysis to infer covid 19 biological insights Possible reference: Agamah, FE. et al. (2022) Computational approaches for network-based integrative multi-omics analysis., Front Mol Biosci, PMID 36452456PXD033334 Dataset with its publication pending (from PRIDE) Dataset title: Human RNase 4 Improves mRNA Sequence Characterization by LC-MS/MS. Possible reference: Wolf, EJ. et al. (2022) Human RNase 4 improves mRNA sequence characterization by LC-MS/MS., Nucleic Acids Res, PMID 35871301PXD033277 Dataset with its publication pending (from jPOST) Dataset title: Antibiotic-like Activity of Atomic Layer Boron Nitride for Combating Resistant Bacteria Possible reference: Pan, Y. et al. (2022) Antibiotic-Like Activity of Atomic Layer Boron Nitride for Combating Resistant Bacteria., ACS Nano, PMID 35511445PXD033250 Dataset with its publication pending (from PRIDE) Dataset title: Virulence induction in Pseudomonas aeruginosa under inorganic phosphate limitation: a proteomics perspective Possible reference: Matilla, MA. et al. (2022) Virulence Induction in Pseudomonas aeruginosa under Inorganic Phosphate Limitation: a Proteomics Perspective., Microbiol Spectr, PMID 36354317PXD033249 Dataset with its publication pending (from PRIDE) Dataset title: Silent recognition by Toll-like receptor 5 of flagellins from human gut commensal bacteria Possible reference: Clasen, SJ. et al. (2023) Silent recognition of flagellins from human gut commensal bacteria by Toll-like receptor 5., Sci Immunol, PMID 36608151PXD033234 Dataset with its publication pending (from PRIDE) Dataset title: CryoEM structure of mitochondrial complex I from the thermophilic eukaryote Chaetomium thermophilum Possible reference: Laube, E. et al. (2022) Conformational changes in mitochondrial complex I of the thermophilic eukaryote Chaetomium thermophilum., Sci Adv, PMID 36427319PXD033231 Dataset with its publication pending (from PRIDE) Dataset title: Aedes aegypti Aag-2 cells proteome modulation in response to Chikungunya virus infection Possible reference: Vasconcellos, AF. et al. (2020) Dynamic proteomic analysis of Aedes aegypti Aag-2 cells infected with Mayaro virus., Parasit Vectors, PMID 32522239PXD033230 Dataset with its publication pending (from PRIDE) Dataset title: Glycosaminoglycan linkage region of urinary bikunin as a potentially useful biomarker for β3GalT6-deficient spondylodysplastic Ehlers-Danlos syndrome Possible reference: Nikpour, M. et al. (2022) Glycosaminoglycan linkage region of urinary bikunin as a potentially useful biomarker for β3GalT6-deficient spondylodysplastic Ehlers-Danlos syndrome., JIMD Rep, PMID 36101818PXD033226 Dataset with its publication pending (from PRIDE) Dataset title: Enrichment and Fragmentation Approaches for Enhanced Detection and Characterization of Endogenous Glycosylated Neuropeptides Possible reference: Phetsanthad, A. et al. (2023) Enrichment and fragmentation approaches for enhanced detection and characterization of endogenous glycosylated neuropeptides., Proteomics, PMID 35906894PXD033218 Dataset with its publication pending (from iProX) Dataset title: Data-Independent Acquisition-Based Mass Spectrometry (DIA-MS) for Quantitative Analysis of Human Intestinal Ischemia/reperfusion Possible reference: Huang, A. et al. (2022) Data-Independent Acquisition-Based Mass Spectrometry (DIA-MS) for Quantitative Analysis of Human Intestinal Ischemia/Reperfusion., Appl Biochem Biotechnol, PMID 35666382PXD033158 no publication (from MassIVE) Dataset title: Genentech IBD Fecal Proteomics Possible reference: Casavant, E. et al. (2020) Proteomic Discovery of Stool Protein Biomarkers for Distinguishing Pediatric Inflammatory Bowel Disease Flares., Clin Gastroenterol Hepatol, PMID 31499250PXD033157 Dataset with its publication pending (from PRIDE) Dataset title: Evidence for a widespread third system for bacterial polysaccharide export across the outer membrane comprising a composite OPX/β-barrel translocon Possible reference: Schwabe, J. et al. (2022) Evidence for a Widespread Third System for Bacterial Polysaccharide Export across the Outer Membrane Comprising a Composite OPX/β-Barrel Translocon., mBio, PMID 35972145PXD033155 no publication (from MassIVE) Dataset title: Proteomic insight into the interaction of Paenibacillus larvae with honey bee larvae before capping collected from an American foulbrood outbreak Possible reference: Erban, T. et al. (2023) Proteomic insight into the interaction of Paenibacillus larvae with honey bee larvae before capping collected from an American foulbrood outbreak: Pathogen proteins within the host, lysis signatures and interaction markers., Proteomics, PMID 35946602PXD033148 Dataset with its publication pending (from PRIDE) Dataset title: human lung adenocarcinoma cell lines TMT based proteomics Possible reference: Vgvri, . et al. (2022) Single Cell Proteomics Using Multiplexed Isobaric Labeling for Mass Spectrometric Analysis., Methods Mol Biol, PMID 34766268PXD033120 Dataset with its publication pending (from PRIDE) Dataset title: The protein phosphatase 2A holoenzyme is a key regulator of starch metabolism and bradyzoite differentiation in Toxoplasma gondii Possible reference: Wang, JL. et al. (2022) The protein phosphatase 2A holoenzyme is a key regulator of starch metabolism and bradyzoite differentiation in Toxoplasma gondii., Nat Commun, PMID 36476594PXD033117 Dataset with its publication pending (from PRIDE) Dataset title: Effect of Sample Transportation on the Proteome of Human Circulating Blood Extracellular Vesicles Possible reference: Uldry, AC. et al. (2022) Effect of Sample Transportation on the Proteome of Human Circulating Blood Extracellular Vesicles., Int J Mol Sci, PMID 35562906PXD033106 no publication (from MassIVE) Dataset title: HLA-II immunopeptidome profiling and deep learning reveal features of antigenicity to inform antigen discovery Possible reference: Stražar, M. et al. (2023) HLA-II immunopeptidome profiling and deep learning reveal features of antigenicity to inform antigen discovery., Immunity, PMID 37301199PXD033102 Dataset with its publication pending (from PRIDE) Dataset title: Light Quality Modulates Plant Cold Response and Freezing Tolerance Possible reference: Kinmonth-Schultz, HA. et al. (2013) Circadian clock-regulated physiological outputs: dynamic responses in nature., Semin Cell Dev Biol, PMID 23435352PXD033098 Dataset with its publication pending (from iProX) Dataset title: Proteome in Tibetan sheep testes Possible reference: Wang, X. et al. (2019) Characterization of GLOD4 in Leydig Cells of Tibetan Sheep During Different Stages of Maturity., Genes (Basel), PMID 31614839PXD033071 Dataset with its publication pending (from PRIDE) Dataset title: E. coli toxin YjjJ (HipH) is a Ser/Thr protein kinase that impacts cell division, carbon metabolism and ribosome assembly Possible reference: Gratani, FL. et al. (2023) E. coli Toxin YjjJ (HipH) Is a Ser/Thr Protein Kinase That Impacts Cell Division, Carbon Metabolism, and Ribosome Assembly., mSystems, PMID 36537800PXD033068 Dataset with its publication pending (from PRIDE) Dataset title: The chromatin-regulating CoREST complex is animal specific and essential for development in the cnidarian Nematostella vectensis Possible reference: Gahan, JM. et al. (2022) A developmental role for the chromatin-regulating CoREST complex in the cnidarian Nematostella vectensis., BMC Biol, PMID 35999597PXD033067 Dataset with its publication pending (from PRIDE) Dataset title: Mapping subcellular localizations of unannotated microproteins with MicroID Possible reference: Na, Z. et al. (2022) Mapping subcellular localizations of unannotated microproteins and alternative proteins with MicroID., Mol Cell, PMID 35905735PXD033060 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of the dentate gyrus reveals semantic dementia specific molecular pathology Possible reference: Mol, MO. et al. (2022) Proteomics of the dentate gyrus reveals semantic dementia specific molecular pathology., Acta Neuropathol Commun, PMID 36578035PXD033059 Dataset with its publication pending (from PRIDE) Dataset title: SDR enzymes oxidize specific lipidic alkynylcarbinols into cytotoxic protein-reactive species Possible reference: Demange, P. et al. (2022) SDR enzymes oxidize specific lipidic alkynylcarbinols into cytotoxic protein-reactive species., Elife, PMID 35535493PXD033058 Dataset with its publication pending (from PRIDE) Dataset title: Label-free proteomics test on TGF-β1-induced human mesothelial cell (Met5A) treated with or without Fushen Granule Possible reference: Jiang, C. et al. (2020) Fushen Granule, A Traditional Chinese Medicine, ameliorates intestinal mucosal dysfunction in peritoneal dialysis rat model by regulating p38MAPK signaling pathway., J Ethnopharmacol, PMID 31877365PXD033053 Dataset with its publication pending (from PRIDE) Dataset title: Fish hydrolysate supplementation prevents stress-induced dysregulation of hippocampal proteins relative to mitochondrial metabolism and neuronal network in mice Possible reference: Le Faouder, J. et al. (2022) Fish Hydrolysate Supplementation Prevents Stress-Induced Dysregulation of Hippocampal Proteins Relative to Mitochondrial Metabolism and the Neuronal Network in Mice., Foods, PMID 35681342PXD033048 Dataset with its publication pending (from PRIDE) Dataset title: Arginine dimethylation and liquid-liquid phase separation Possible reference: Gill, AL. et al. (2021) Hypothesis and Theory: Roles of Arginine Methylation in C9orf72-Mediated ALS and FTD., Front Cell Neurosci, PMID 33833668PXD033045 Dataset with its publication pending (from PRIDE) Dataset title: Nucleoporins facilitate ORC loading onto chromatin Possible reference: Richards, L. et al. (2022) Nucleoporins facilitate ORC loading onto chromatin., Cell Rep, PMID 36351393PXD033042 Dataset with its publication pending (from PRIDE) Dataset title: p166 links membrane and intramitochondrial modules of the trypanosomal tripartite attachment complex Possible reference: Schimanski, B. et al. (2022) p166 links membrane and intramitochondrial modules of the trypanosomal tripartite attachment complex., PLoS Pathog, PMID 35709300PXD033036 Dataset with its publication pending (from PRIDE) Dataset title: Photo-ANA enables profiling of host–bacteria protein interactions during infection Possible reference: Li, XM. et al. (2023) Photo-ANA enables profiling of host-bacteria protein interactions during infection., Nat Chem Biol, PMID 36702958PXD033022 Dataset with its publication pending (from PRIDE) Dataset title: Mapping glucose uptake, transport and metabolism in the bovine lens Possible reference: Zahraei, A. et al. (2020) Mapping glucose metabolites in the normal bovine lens: Evaluation and optimisation of a matrix-assisted laser desorption/ionisation imaging mass spectrometry method., J Mass Spectrom, PMID 33089566PXD033012 Dataset with its publication pending (from PRIDE) Dataset title: Regionally defined proteomic profiles of human cerebral tissue and organoids reveal conserved molecular modules of neurodevelopment Possible reference: Melliou, S. et al. (2022) Regionally defined proteomic profiles of human cerebral tissue and organoids reveal conserved molecular modules of neurodevelopment., Cell Rep, PMID 35613588PXD033010 Dataset with its publication pending (from PRIDE) Dataset title: Lung macrophages utilize unique cathepsin K-dependent phagosomal machinery to degrade intracellular collagen Possible reference: Fabrik, I. et al. (2023) Lung macrophages utilize unique cathepsin K-dependent phagosomal machinery to degrade intracellular collagen., Life Sci Alliance, PMID 36697252PXD033000 Dataset with its publication pending (from PRIDE) Dataset title: Neuropeptidome of Zophobas atratus Possible reference: Marciniak, P. et al. (2022) Neuropeptidomes of Tenebrio molitor L. and Zophobas atratus Fab. (Coleoptera, Polyphaga: Tenebrionidae)., J Proteome Res, PMID 36107737PXD032975 Dataset with its publication pending (from PRIDE) Dataset title: dCas9 targeted chromatin and histone enrichment for mass spectrometry (Catchet-MS) identifies IKZF1 as a novel target for HIV-1 latency reversal Possible reference: Ne, E. et al. (2022) Catchet-MS identifies IKZF1-targeting thalidomide analogues as novel HIV-1 latency reversal agents., Nucleic Acids Res, PMID 35640596PXD032956 Dataset with its publication pending (from PRIDE) Dataset title: SUMOylation controls the rapid transcriptional reprogramming induced by chemotherapies in Acute Myeloid Leukemias Possible reference: Boulanger, M. et al. (2023) DeSUMOylation of chromatin-bound proteins limits the rapid transcriptional reprogramming induced by daunorubicin in acute myeloid leukemias., Nucleic Acids Res, PMID 37462077PXD032947 Dataset with its publication pending (from PRIDE) Dataset title: Neuropeptidome of Tenebrio molitor Possible reference: Marciniak, P. et al. (2022) Neuropeptidomes of Tenebrio molitor L. and Zophobas atratus Fab. (Coleoptera, Polyphaga: Tenebrionidae)., J Proteome Res, PMID 36107737PXD032924 Dataset with its publication pending (from PRIDE) Dataset title: Simple and Fast Maximally Deuterated Control (maxD) preparation for HDX MS Experiments Possible reference: Peterle, D. et al. (2022) Simple and Fast Maximally Deuterated Control (maxD) Preparation for Hydrogen-Deuterium Exchange Mass Spectrometry Experiments., Anal Chem, PMID 35796687PXD032913 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomics reveals rewiring of the insulin signaling network and multi-nodal defects in insulin resistance Possible reference: Fazakerley, DJ. et al. (2023) Phosphoproteomics reveals rewiring of the insulin signaling network and multi-nodal defects in insulin resistance., Nat Commun, PMID 36808134PXD032836 Dataset with its publication pending (from PRIDE) Dataset title: Distinct proteostasis states drive pharmacologic chaperone susceptibility for Cystic Fibrosis Transmembrane Conductance Regulator misfolding mutants Possible reference: McDonald, EF. et al. (2022) Distinct proteostasis states drive pharmacologic chaperone susceptibility for cystic fibrosis transmembrane conductance regulator misfolding mutants., Mol Biol Cell, PMID 35389766PXD032829 Dataset with its publication pending (from PRIDE) Dataset title: Fatty Acid Binding Protein 5 is a Novel Target in Multiple Myeloma Possible reference: Farrell, M. et al. (2023) Targeting the fatty acid binding proteins disrupts multiple myeloma cell cycle progression and MYC signaling., Elife, PMID 36880649PXD032824 Dataset with its publication pending (from PRIDE) Dataset title: Sphingomyelin phodiesterase acid-like 3A promotes hepatocellular carcinoma growth through the enhancer of rudimentary homologSphingomyelin phodiesterase acid-like 3A promotes hepatocellular carcinoma growth through the enhancer of rudimentary homolog Possible reference: Zhang, Y. et al. (2022) Sphingomyelin Phodiesterase Acid-Like 3A Promotes Hepatocellular Carcinoma Growth Through the Enhancer of Rudimentary Homolog., Front Oncol, PMID 35686107PXD032794 Dataset with its publication pending (from PRIDE) Dataset title: Antimicrobial potential of a ponericin-like peptide isolated from Bombyx mori L. hemolymph in response to Pseudomonas aeruginosa infection Possible reference: Nesa, J. et al. (2022) Antimicrobial potential of a ponericin-like peptide isolated from Bombyx mori L. hemolymph in response to Pseudomonas aeruginosa infection., Sci Rep, PMID 36109567PXD032792 Dataset with its publication pending (from PRIDE) Dataset title: Integrated Multi-Omics Reveal Polycomb Repressive Complex 2 Restricts Human Trophoblast Induction Possible reference: Zijlmans, DW. et al. (2022) Integrated multi-omics reveal polycomb repressive complex 2 restricts human trophoblast induction., Nat Cell Biol, PMID 35697783PXD032787 Dataset with its publication pending (from PRIDE) Dataset title: Rhodnius prolixus hemolymph proteome Possible reference: Ouali, R. et al. (2022) Rhodnius prolixus Hemolymph Immuno-Physiology: Deciphering the Systemic Immune Response Triggered by Trypanosoma cruzi Establishment in the Vector Using Quantitative Proteomics., Cells, PMID 35563760PXD032786 Dataset with its publication pending (from PRIDE) Dataset title: Sequence Coverage Visualizer: A web application for protein sequence coverage 3D visualization Possible reference: Shao, X. et al. (2023) Sequence Coverage Visualizer: A Web Application for Protein Sequence Coverage 3D Visualization., J Proteome Res, PMID 36511722PXD032762 Dataset with its publication pending (from PRIDE) Dataset title: Sideroflexin 4 is a Complex I assembly factor that interacts with the MCIA complex and is required for the assembly of the ND2 module Possible reference: Jackson, TD. et al. (2022) Sideroflexin 4 is a complex I assembly factor that interacts with the MCIA complex and is required for the assembly of the ND2 module., Proc Natl Acad Sci U S A, PMID 35333655PXD032708 no publication (from MassIVE) Dataset title: Multi-omic profiling of the leukemic microenvironment shows bone marrow interstitial fluid is distinct from peripheral blood Possible reference: Nierves, L. et al. (2022) Multi-omic profiling of the leukemic microenvironment shows bone marrow interstitial fluid is distinct from peripheral blood plasma., Exp Hematol Oncol, PMID 36109804PXD032188 Dataset with its publication pending (from PRIDE) Dataset title: Signalling Inhibition by Ponatinib Disrupts Productive Alternative Lengthening of Telomeres (ALT) Possible reference: Kusuma, FK. et al. (2023) Signalling inhibition by ponatinib disrupts productive alternative lengthening of telomeres (ALT)., Nat Commun, PMID 37024489PXD032185 Dataset with its publication pending (from PRIDE) Dataset title: The cohesin acetylation cycle controls chromatin loop length through a PDS5A brake mechanism Possible reference: van Ruiten, MS. et al. (2022) The cohesin acetylation cycle controls chromatin loop length through a PDS5A brake mechanism., Nat Struct Mol Biol, PMID 35710836PXD032184 Dataset with its publication pending (from PRIDE) Dataset title: Pramel7-Cul2 axis establishes ground-state gene expression in embryonic stem cells Possible reference: Yang, SH. et al. (2014) Otx2 and Oct4 drive early enhancer activation during embryonic stem cell transition from naive pluripotency., Cell Rep, PMID 24931607PXD032175 Hadisurya, M., Li, L., Kuwaranancharoen, K. et al. Quantitative proteomics and phosphoproteomics of urinary extracellular vesicles define putative diagnostic biosignatures for Parkinson’s disease. Commun Med 3, 64 (2023). https://doi.org/10.1038/s43856- (from PanoramaPublic) Dataset title: Quantitative proteomics and phosphoproteomics of urinary extracellular vesicles define putative diagnostic biosignatures for Parkinson’s disease Possible reference: Hadisurya, M. et al. (2023) Quantitative proteomics and phosphoproteomics of urinary extracellular vesicles define putative diagnostic biosignatures for Parkinson's disease., Commun Med (Lond), PMID 37165152PXD032161 Dataset with its publication pending (from PRIDE) Dataset title: Cell type-specific biotin labeling in vivo resolves regional neuronal and astrocyte proteomic differences in mouse brain Possible reference: Rayaprolu, S. et al. (2022) Cell type-specific biotin labeling in vivo resolves regional neuronal and astrocyte proteomic differences in mouse brain., Nat Commun, PMID 35614064PXD032153 Dataset with its publication pending (from PRIDE) Dataset title: Apoptotic brown adipocytes enhance energy expenditure via SLC29A1-regulated extracellular inosine Possible reference: Niemann, B. et al. (2022) Apoptotic brown adipocytes enhance energy expenditure via extracellular inosine., Nature, PMID 35790189PXD032142 Dataset with its publication pending (from jPOST) Dataset title: Label free quantification of LC-MS analysis of Dental pulp cells Possible reference: Zainol Abidin, IZ. et al. (2023) Label-free Quantitative Proteomic Analysis of Ascorbic Acid-induced Differentially Expressed Osteoblast-related Proteins in Dental Pulp Stem Cells from Deciduous and Permanent Teeth., Curr Stem Cell Res Ther, PMID 35762553PXD032141 Dataset with its publication pending (from PRIDE) Dataset title: Influence of sex, age and diabetes on brain transcriptome and proteome modifications following cerebral ischemia Possible reference: Ramiro, L. et al. (2023) Influence of sex, age and diabetes on brain transcriptome and proteome modifications following cerebral ischemia., BMC Neurosci, PMID 36707762PXD032132 Dataset with its publication pending (from PRIDE) Dataset title: Cross-link assisted spatial proteomics to map sub-organelle proteomes and membrane protein topology Possible reference: Zhu, Y. et al. (2024) Cross-link assisted spatial proteomics to map sub-organelle proteomes and membrane protein topologies., Nat Commun, PMID 38632225PXD032129 Dataset with its publication pending (from iProX) Dataset title: Circadian rhythm disturbance mediates adipose tissue protein analysis in mice Possible reference: Barclay, JL. et al. (2013) High-fat diet-induced hyperinsulinemia and tissue-specific insulin resistance in Cry-deficient mice., Am J Physiol Endocrinol Metab, PMID 23531614PXD032093 Dataset with its publication pending (from iProX) Dataset title: ILF3 safeguards telomere from aberrant homologous recombination as a telomeric R-loop reader Possible reference: Wang, C. et al. (2024) ILF3 safeguards telomeres from aberrant homologous recombination as a telomeric R-loop reader., Protein Cell, PMID 37991243PXD032082 Dataset with its publication pending (from PRIDE) Dataset title: Metabolomic and Proteomic and Revealed Differences in the Distribution and Synthesis Mechanism of Aroma Precursors in Tobacco Leaf, Stem, and Root at Seedling Stage Possible reference: Liu, A. et al. (2022) Proteomic and Metabolomic Revealed Differences in the Distribution and Synthesis Mechanism of Aroma Precursors in Yunyan 87 Tobacco Leaf, Stem, and Root at the Seedling Stage., ACS Omega, PMID 36157728PXD032072 Dataset with its publication pending (from PRIDE) Dataset title: The PripA-TbcrA complex-centered Rab GAP cascade facilitates macropinosome maturation in Dictyostelium Possible reference: Tu, H. et al. (2022) The PripA-TbcrA complex-centered Rab GAP cascade facilitates macropinosome maturation in Dictyostelium., Nat Commun, PMID 35379834PXD032052 Dataset with its publication pending (from PRIDE) Dataset title: Identification of substrates of palmitoyl protein thioesterase 1 highlights roles of depalmitoylation in disulfide bond formation and synaptic function Possible reference: Gorenberg, EL. et al. (2022) Identification of substrates of palmitoyl protein thioesterase 1highlights roles of depalmitoylation in disulfide bond formation and synaptic function., PLoS Biol, PMID 35358180PXD032030 Dataset with its publication pending (from PRIDE) Dataset title: Allosteric HSP70 inhibitors in Proteasome Inhibitor Resistant Multiple Myeloma Possible reference: Ferguson, ID. et al. (2022) Allosteric HSP70 inhibitors perturb mitochondrial proteostasis and overcome proteasome inhibitor resistance in multiple myeloma., Cell Chem Biol, PMID 35853457PXD032000 no publication (from MassIVE) Dataset title: A mass spectrometry-based atlas of extracellular matrix proteins across 25 mouse organs Possible reference: McCabe, MC. et al. (2023) Mass Spectrometry-Based Atlas of Extracellular Matrix Proteins across 25 Mouse Organs., J Proteome Res, PMID 36763087PXD031989 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic comparison of Biomphalaria glabrata excretory-secretory proteins at different time-points of Schistosoma mansoni infection Possible reference: Fogarty, CE. et al. (2022) Identification of Schistosoma mansoni miracidia attractant candidates in infected Biomphalaria glabrata using behaviour-guided comparative proteomics., Front Immunol, PMID 36300127PXD031979 Dataset with its publication pending (from iProX) Dataset title: Multi-platform omics analysis reveals molecular signatures for pathogenesis and activity of systemic lupus erythematosus Possible reference: Huang, X. et al. (2022) Multi-Platform Omics Analysis Reveals Molecular Signatures for Pathogenesis and Activity of Systemic Lupus Erythematosus., Front Immunol, PMID 35514958PXD031974 Dataset with its publication pending (from PRIDE) Dataset title: Shotgun analysis of serum proteome on Schistosoma mansoni infection Possible reference: Gonalves-Silva, G. et al. (2022) Profiling the serum proteome during Schistosoma mansoni infection in the BALB/c mice: A focus on the altered lipid metabolism as a key modulator of host-parasite interactions., Front Immunol, PMID 36119112PXD031972 Dataset with its publication pending (from PRIDE) Dataset title: Protection of nascent DNA at stalled replication forks is mediated by phosphorylation of RIF1 intrinsically disordered region Possible reference: Balasubramanian, S. et al. (2022) Protection of nascent DNA at stalled replication forks is mediated by phosphorylation of RIF1 intrinsically disordered region., Elife, PMID 35416772PXD031964 Dataset with its publication pending (from PRIDE) Dataset title: UBQLN2 restrains the domesticated retrotransposon PEG10 to maintain neuronal health in ALS Possible reference: Black, HH. et al. (2023) UBQLN2 restrains the domesticated retrotransposon PEG10 to maintain neuronal health in ALS., Elife, PMID 36951542PXD031959 Dataset with its publication pending (from jPOST) Dataset title: Quantitative proteomics reveals metabolic reprogramming in host cells induced by trophozoites and intermediate subunit of Gal/GalNAc lectins from Entamoeba histolytica Possible reference: Zhao, Y. et al. (2022) Quantitative Proteomics Reveals Metabolic Reprogramming in Host Cells Induced by Trophozoites and Intermediate Subunit of Gal/GalNAc Lectins from Entamoeba histolytica., mSystems, PMID 35343800PXD031955 Dataset with its publication pending (from PRIDE) Dataset title: Capillary Electrophoresis Mass Spectrometry for Scalable Single-Cell Proteomics Possible reference: Lombard-Banek, C. et al. (2019) Microsampling Capillary Electrophoresis Mass Spectrometry Enables Single-Cell Proteomics in Complex Tissues: Developing Cell Clones in Live Xenopus laevis and Zebrafish Embryos., Anal Chem, PMID 30827088PXD031949 no publication (from MassIVE) Dataset title: Oncogenic deubiquitination controls tyrosine kinase signaling and therapy response in acute lymphoblastic leukemia Possible reference: Jin, Q. et al. (2022) Oncogenic deubiquitination controls tyrosine kinase signaling and therapy response in acute lymphoblastic leukemia., Sci Adv, PMID 36490346PXD031922 Dataset with its publication pending (from PRIDE) Dataset title: The Dynamic Proteome in Arabidopsis Thaliana Early Embryogenesis Possible reference: Galland, M. et al. (2014) Dynamic proteomics emphasizes the importance of selective mRNA translation and protein turnover during Arabidopsis seed germination., Mol Cell Proteomics, PMID 24198433PXD031916 Dataset with its publication pending (from PRIDE) Dataset title: Early response evaluation by single cell signaling profiling in acute myeloid leukemia Possible reference: Shay, JW. et al. (2016) Abstracts from the 3rd International Genomic Medicine Conference (3rd IGMC 2015) : Jeddah, Kingdom of Saudi Arabia. 30 November - 3 December 2015., BMC Genomics, PMID 27454254PXD031903 Dataset with its publication pending (from iProX) Dataset title: A terminal alkyne and disulfide functionalized agarose resin specifically enriches azidohomoalanine labeled nascent proteins Possible reference: Hou, Z. et al. (2021) A terminal alkyne and disulfide functionalized agarose resin specifically enriches azidohomoalanine labeled nascent proteins., J Chromatogr B Analyt Technol Biomed Life Sci, PMID 33486215PXD031853 Dataset with its publication pending (from iProX) Dataset title: CTNNBL1 restricts HIV-1 replication Possible reference: Liang, G. et al. (2022) CTNNBL1 restricts HIV-1 replication by suppressing viral DNA integration into the cell genome., Cell Rep, PMID 35294870PXD031689 Dataset with its publication pending (from jPOST) Dataset title: ctenophore comb plate whole proteins Possible reference: Sachkova, MY. et al. (2021) Neuropeptide repertoire and 3D anatomy of the ctenophore nervous system., Curr Biol, PMID 34587474PXD031677 Dataset with its publication pending (from PRIDE) Dataset title: 40S hnRNP particles are a novel class of nuclear biomolecular condensates Possible reference: Domanski, M. et al. (2022) 40S hnRNP particles are a novel class of nuclear biomolecular condensates., Nucleic Acids Res, PMID 35687109PXD031667 no publication (from MassIVE) Dataset title: Redox-dependent Structure and Dynamics of Macrophage Migration Inhibitory Factor Reveal Sites of Latent Allostery Possible reference: Skeens, E. et al. (2022) Redox-dependent structure and dynamics of macrophage migration inhibitory factor reveal sites of latent allostery., Structure, PMID 35381187PXD031611 Dataset with its publication pending (from PRIDE) Dataset title: Depletion of EXOSC2 protects against clinical COVID-19 and impedes SARS-CoV-2 replication Possible reference: Moll, T. et al. (2022) Low expression of EXOSC2 protects against clinical COVID-19 and impedes SARS-CoV-2 replication., bioRxiv, PMID 35291294PXD031568 no publication (from MassIVE) Dataset title: Cysteine residues are responsible for the sulfurous off-flavor formed in heated whey protein solutions Possible reference: Li, C. et al. (2022) Cysteine residues are responsible for the sulfurous off-flavor formed in heated whey protein solutions., Food Chem (Oxf), PMID 35865714PXD031566 no publication (from MassIVE) Dataset title: Functional protein composition in femoral glands of sand lizards (Lacerta agilis) Possible reference: Ibez, A. et al. (2022) Functional Protein Composition in Femoral Glands of Sand Lizards (Lacerta agilis)., Molecules, PMID 35408771PXD031500 no publication (from PanoramaPublic) Dataset title: An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia Possible reference: Provez, L. et al. (2022) An interactive mass spectrometry atlas of histone posttranslational modifications in T-cell acute leukemia., Sci Data, PMID 36243775PXD031490 Dataset with its publication pending (from PRIDE) Dataset title: Cyclodepsipeptides, solonamides, influence motility in the native producer Photobacterium galatheae S2753 Possible reference: Zhang, SD. et al. (2022) Solonamides, a Group of Cyclodepsipeptides, Influence Motility in the Native Producer Photobacterium galatheae S2753., Appl Environ Microbiol, PMID 36000852PXD031477 no publication (from MassIVE) Dataset title: Proteomics analysis of FFPE AIS thrombi Possible reference: Rossi, R. et al. (2022) Potential Biomarkers of Acute Ischemic Stroke Etiology Revealed by Mass Spectrometry-Based Proteomic Characterization of Formalin-Fixed Paraffin-Embedded Blood Clots., Front Neurol, PMID 35518205PXD031461 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics of airway epithelial cells from COPD and control pre- and post-influenza virus infection Possible reference: Nakayama, M. et al. (2022) Quantitative proteomics of differentiated primary bronchial epithelial cells from chronic obstructive pulmonary disease and control identifies potential novel host factors post-influenza A virus infection., Front Microbiol, PMID 36713229PXD031456 Dataset with its publication pending (from PRIDE) Dataset title: Translational reprogramming in response to accumulating stressors ensures critical threshold levels of Hsp90 for mammalian life Possible reference: Bhattacharya, K. et al. (2022) Translational reprogramming in response to accumulating stressors ensures critical threshold levels of Hsp90 for mammalian life., Nat Commun, PMID 36270993PXD031443 Dataset with its publication pending (from PRIDE) Dataset title: Multiple cis acting polypyrimidine tract elements regulate a cooperative mechanism for Triticum mosaic virus internal ribosomal entry site activity=] Possible reference: Jaramillo-Mesa, H. et al. (2022) Multiple Cis-acting Polypyrimidine Tract Elements Regulate a Cooperative Mechanism for Triticum Mosaic Virus Internal Ribosomal Entry Site Activity., Front Plant Sci, PMID 35498652PXD031434 no publication (from MassIVE) Dataset title: Quality assurance of hematopoietic stem cells by macrophages determines stem cell clonality Possible reference: Wattrus, SJ. et al. (2022) Quality assurance of hematopoietic stem cells by macrophages determines stem cell clonality., Science, PMID 36137040PXD031431 no publication (from MassIVE) Dataset title: Lysine acetylation of E. coli aconitase isozymes Possible reference: Araujo, J. et al. (2022) Studying Acetylation of Aconitase Isozymes by Genetic Code Expansion., Front Chem, PMID 35402385PXD031421 Dataset with its publication pending (from PRIDE) Dataset title: Structure and molecular assembly of a MuvB transcription factor complex with the nucleosome Possible reference: Asthana, A. et al. (2022) The MuvB complex binds and stabilizes nucleosomes downstream of the transcription start site of cell-cycle dependent genes., Nat Commun, PMID 35082292PXD031412 Dataset with its publication pending (from PRIDE) Dataset title: Proteome dynamics during transition from exponential to stationary phase in yeast Possible reference: Ridder, MD. et al. (2023) Proteome Dynamics During Transition From Exponential to Stationary Phase Under Aerobic and Anaerobic Conditions in Yeast., Mol Cell Proteomics, PMID 37076048PXD031408 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular endosulfatase Sulf-2 harbors a chondroitin/dermatan sulfate chain that modulates its enzyme activity Possible reference: El Masri, R. et al. (2022) Extracellular endosulfatase Sulf-2 harbors a chondroitin/dermatan sulfate chain that modulates its enzyme activity., Cell Rep, PMID 35294879PXD031400 no publication (from MassIVE) Dataset title: Carry-over effects of dry period heat stress on mammary gland proteome and phosphoproteome in the subsequent lactation of dairy cows Possible reference: Skibiel, AL. et al. (2022) Carry-over effects of dry period heat stress on the mammary gland proteome and phosphoproteome in the subsequent lactation of dairy cows., Sci Rep, PMID 35459770PXD031348 Dataset with its publication pending (from PRIDE) Dataset title: An atlas of Arabidopsis protein S-Acylation reveals its widespread role in plant cell organisation of and function. Possible reference: Kumar, M. et al. (2022) An atlas of Arabidopsis protein S-acylation reveals its widespread role in plant cell organization and function., Nat Plants, PMID 35681017PXD031337 Dataset with its publication pending (from PRIDE) Dataset title: Formation of toxic oligomers of polyQ-expanded Huntingtin by prion-mediated cross-seeding Possible reference: Gropp, MHM. et al. (2022) Formation of toxic oligomers of polyQ-expanded Huntingtin by prion-mediated cross-seeding., Mol Cell, PMID 36272412PXD031335 Dataset with its publication pending (from PRIDE) Dataset title: Paramecium Polycomb Repressive Complex 2 physically interacts with the small RNA binding PIWI protein to repress transposable elements Possible reference: Mir-Pina, C. et al. (2022) Paramecium Polycomb repressive complex 2 physically interacts with the small RNA-binding PIWI protein to repress transposable elements., Dev Cell, PMID 35429435PXD031331 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of differential anther development from sterile/fertile lines in Capsicum annuum L. Possible reference: Pei, H. et al. (2022) Proteomic analysis of differential anther development from sterile/fertile lines in Capsicum annuum L., PeerJ, PMID 35651745PXD031322 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic analysis of oxaliplatin induced peripheral neurotoxicity Possible reference: Yang, L. et al. (2022) Quantitative proteomic analysis of oxaliplatin induced peripheral neurotoxicity., J Proteomics, PMID 35830924PXD031319 Dataset with its publication pending (from PRIDE) Dataset title: Novel assays monitoring direct GR protein activity exhibit high predictive power for ligand activity on endogenous GR gene targets Possible reference: Van Moortel, L. et al. (2022) Novel assays monitoring direct glucocorticoid receptor protein activity exhibit high predictive power for ligand activity on endogenous gene targets., Biomed Pharmacother, PMID 35709653PXD031318 Dataset with its publication pending (from PRIDE) Dataset title: Changes in saliva associated to COVID-19: a proteomic study Possible reference: Muoz-Prieto, A. et al. (2022) Saliva changes in composition associated to COVID-19: a preliminary study., Sci Rep, PMID 35760827PXD031315 Dataset with its publication pending (from PRIDE) Dataset title: The structural basis of Cdc7-Dbf4 kinase dependent targeting and phosphorylation of the MCM2-7 double hexamer Possible reference: Saleh, A. et al. (2022) The structural basis of Cdc7-Dbf4 kinase dependent targeting and phosphorylation of the MCM2-7 double hexamer., Nat Commun, PMID 35614055PXD031303 Dataset with its publication pending (from iProX) Dataset title: Neddylation is Essential for beta-catenin Degradation in Wnt Signaling Pathway Possible reference: Jumpertz, S. et al. (2017) CSN5/JAB1 suppresses the WNT inhibitor DKK1 in colorectal cancer cells., Cell Signal, PMID 28229932PXD031299 no publication (from MassIVE) Dataset title: Bacterial Proteomics - AMPs stressing action Possible reference: Maria-Neto, S. et al. (2012) Deciphering the magainin resistance process of Escherichia coli strains in light of the cytosolic proteome., Antimicrob Agents Chemother, PMID 22290970PXD031290 Dataset with its publication pending (from iProX) Dataset title: Serum Proteome profiling of Cryoglobulinemia Possible reference: Wang, JJ. et al. (2018) Molecular Profiling and Clonal Tracking of Secreted Rheumatoid Factors in Primary Sjgren's Syndrome., Arthritis Rheumatol, PMID 29697211PXD031287 Dataset with its publication pending (from iProX) Dataset title: Serum proteomics unveil characteristic protein diagnostic biomarkers and signaling pathways in patients with esophageal squamous cell carcinoma Possible reference: Liu, W. et al. (2022) Serum proteomics unveil characteristic protein diagnostic biomarkers and signaling pathways in patients with esophageal squamous cell carcinoma., Clin Proteomics, PMID 35610567PXD031277 Dataset with its publication pending (from PRIDE) Dataset title: Optimal analytical strategies for sensitive and quantitative phosphoproteomics using TMT-based multiplexing Possible reference: Koenig, C. et al. (2022) Optimal analytical strategies for sensitive and quantitative phosphoproteomics using TMT-based multiplexing., Proteomics, PMID 35713889PXD031229 Dataset with its publication pending (from PRIDE) Dataset title: Knockdown of DHRS7 in LNCaP cells Possible reference: Seibert, JK. et al. (2015) A role for the dehydrogenase DHRS7 (SDR34C1) in prostate cancer., Cancer Med, PMID 26311046PXD031225 Dataset with its publication pending (from PRIDE) Dataset title: Structure-guided mutagenesis of a mucin-selective metalloprotease from Akkermansia muciniphila alters substrate preferences Possible reference: Shon, DJ. et al. (2022) Structure-guided mutagenesis of a mucin-selective metalloprotease from Akkermansia muciniphila alters substrate preferences., J Biol Chem, PMID 35405095PXD031222 Dataset with its publication pending (from PRIDE) Dataset title: Augmented enterocyte damage during Candida albicans and Proteus mirabilis coinfection Possible reference: Niemiec, MJ. et al. (2022) Augmented Enterocyte Damage During Candida albicans and Proteus mirabilis Coinfection., Front Cell Infect Microbiol, PMID 35651758PXD031216 Dataset with its publication pending (from PRIDE) Dataset title: Effects of non-thermal methods (High-Pressure Processing, UV-C irradiation and thermoultrasonication) on donor human milk safety and functionality Possible reference: Kontopodi, E. et al. (2022) Effects of High-Pressure Processing, UV-C Irradiation and Thermoultrasonication on Donor Human Milk Safety and Quality., Front Pediatr, PMID 35386262PXD031199 Dataset with its publication pending (from PRIDE) Dataset title: A phylogenomic approach to explore the Aspergillus fumigatus conidia surforme and its role in pathogenesis Possible reference: Valero, C. et al. (2023) A phylogenetic approach to explore the Aspergillus fumigatus conidial surface-associated proteome and its role in pathogenesis., bioRxiv, PMID 37662192PXD031193 Dataset with its publication pending (from PRIDE) Dataset title: Chronic stress causes striatal disinhibition mediated by SOM-interneurons Possible reference: Rodrigues, D. et al. (2022) Chronic stress causes striatal disinhibition mediated by SOM-interneurons in male mice., Nat Commun, PMID 36446783PXD031184 Dataset with its publication pending (from iProX) Dataset title: Protein glycosylation changes during systemic acquired resistance in Arabidopsis thaliana Possible reference: Holmes, EC. et al. (2021) Arabidopsis UGT76B1 glycosylates N-hydroxy-pipecolic acid and inactivates systemic acquired resistance in tomato., Plant Cell, PMID 33955491PXD031174 Dataset with its publication pending (from PRIDE) Dataset title: Aging-Associated Changes in CSF Protein Abundances and Structures Revealed by a Modified LiP-MS Screen Possible reference: Shuken, SR. et al. (2022) Limited Proteolysis-Mass Spectrometry Reveals Aging-Associated Changes in Cerebrospinal Fluid Protein Abundances and Structures., Nat Aging, PMID 36741774PXD031173 Dataset with its publication pending (from PRIDE) Dataset title: Bacterial necromass is rapidly metabolized by heterotrophic bacteria and supports multiple trophic levels of the groundwater microbiome Possible reference: Geesink, P. et al. (2022) Bacterial Necromass Is Rapidly Metabolized by Heterotrophic Bacteria and Supports Multiple Trophic Levels of the Groundwater Microbiome., Microbiol Spectr, PMID 35699474PXD031170 Dataset with its publication pending (from PRIDE) Dataset title: Replisome composition of stalled, terminating replication forks Possible reference: Priego Moreno, S. et al. (2019) Mitotic replisome disassembly depends on TRAIP ubiquitin ligase activity., Life Sci Alliance, PMID 30979826PXD031169 Dataset with its publication pending (from PRIDE) Dataset title: Engineering and exploiting synthetic allostery of NanoLuc luciferase Possible reference: Guo, Z. et al. (2022) Engineering and exploiting synthetic allostery of NanoLuc luciferase., Nat Commun, PMID 35145068PXD031144 Dataset with its publication pending (from PRIDE) Dataset title: Regulators of proteostasis are translationally repressed in fibroblasts from sporadic and LRRK2-G2019S Parkinson’s patients Possible reference: Flinkman, D. et al. (2023) Regulators of proteostasis are translationally repressed in fibroblasts from patients with sporadic and LRRK2-G2019S Parkinson's disease., NPJ Parkinsons Dis, PMID 36746972PXD031139 no publication (from MassIVE) Dataset title: How do Protein Contaminants Influence DDA and DIA Proteomics? Possible reference: Frankenfield, AM. et al. (2022) Protein Contaminants Matter: Building Universal Protein Contaminant Libraries for DDA and DIA Proteomics., J Proteome Res, PMID 35793413PXD031136 Dataset with its publication pending (from PRIDE) Dataset title: Decoupling astrocytes in adult mice impairs synaptic plasticity and spatial learning Possible reference: Hsli, L. et al. (2022) Decoupling astrocytes in adult mice impairs synaptic plasticity and spatial learning., Cell Rep, PMID 35263595PXD031124 Dataset with its publication pending (from PRIDE) Dataset title: Genotyping-by-sequencing-based identification of Arabidopsis pattern recognition receptor RLP32 recognizing proteobacterial translation initiation factor IF1 Possible reference: Fan, L. et al. (2022) Genotyping-by-sequencing-based identification of Arabidopsis pattern recognition receptor RLP32 recognizing proteobacterial translation initiation factor IF1., Nat Commun, PMID 35277499PXD031123 Dataset with its publication pending (from PRIDE) Dataset title: A seed-like proteome in oil-rich tubers Possible reference: Niemeyer, PW. et al. (2022) A seed-like proteome in oil-rich tubers., Plant J, PMID 36050843PXD031115 Dataset with its publication pending (from PRIDE) Dataset title: Prenylcysteine oxidase 1 like protein is required for neutrophil bactericidal activities Possible reference: Petenkova, A. et al. (2023) Prenylcysteine oxidase 1 like protein is required for neutrophil bactericidal activities., Nat Commun, PMID 37179332PXD031114 Dataset with its publication pending (from PRIDE) Dataset title: Optimized TMT-based quantitative cross-linking mass spectrometry strategy for large-scale interactomic studies Possible reference: Ruwolt, M. et al. (2022) Optimized TMT-Based Quantitative Cross-Linking Mass Spectrometry Strategy for Large-Scale Interactomic Studies., Anal Chem, PMID 35290030PXD031109 Dataset with its publication pending (from PRIDE) Dataset title: comparative mass spectrometry analysis of the PARP1 and PAR-PARP1 interactomes Possible reference: Pavan, IC. et al. (2016) Different interactomes for p70-S6K1 and p54-S6K2 revealed by proteomic analysis., Proteomics, PMID 27493124PXD031103 Dataset with its publication pending (from jPOST) Dataset title: Proteome-wide deconvolution of drug targets and binding sites by lysine reactivity profiling Possible reference: Ruan, C. et al. (2022) Proteome-Wide Deconvolution of Drug Targets and Binding Sites by Lysine Reactivity Profiling., Anal Chem, PMID 35147412PXD031102 no publication (from MassIVE) Dataset title: Proteomic identification of phosphorylation dependent Septin 7 interactors that drive dendritic spine formation Possible reference: Byeon, S. et al. (2022) Proteomic Identification of Phosphorylation-Dependent Septin 7 Interactors that Drive Dendritic Spine Formation., Front Cell Dev Biol, PMID 35602601PXD031083 Dataset with its publication pending (from PRIDE) Dataset title: Gel-like inclusions of C-terminal fragments of TDP-43 sequester stalled proteasomes in neurons Possible reference: Riemenschneider, H. et al. (2022) Gel-like inclusions of C-terminal fragments of TDP-43 sequester stalled proteasomes in neurons., EMBO Rep, PMID 35438230PXD031078 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Investigation of Evolved Daptomycin-Tolerant MRSA due to Mutation in YycH Possible reference: Sulaiman, JE. et al. (2022) Mutation in the Two-Component System Regulator YycH Leads to Daptomycin Tolerance in Methicillin-Resistant Staphylococcus aureus upon Evolution with a Population Bottleneck., Microbiol Spectr, PMID 35913149PXD031072 Dataset with its publication pending (from PRIDE) Dataset title: A plant tethering system for the functional study of protein-RNA interactions in vivo Possible reference: Cuerda-Gil, D. et al. (2022) A plant tethering system for the functional study of protein-RNA interactions in vivo., Plant Methods, PMID 35658900PXD031070 Dataset with its publication pending (from PRIDE) Dataset title: A proteome-level investigation into Plasmodiophora brassicae resistance in Brassica napus canola Possible reference: Adhikary, D. et al. (2022) A Proteome-Level Investigation Into Plasmodiophora brassicae Resistance in Brassica napus Canola., Front Plant Sci, PMID 35401597PXD031063 Dataset with its publication pending (from PRIDE) Dataset title: ABP1-TMK auxin perception mediates rapid phosphorylation for regeneration and auxin canalization Possible reference: Friml, J. et al. (2022) ABP1-TMK auxin perception for global phosphorylation and auxin canalization., Nature, PMID 36071161PXD031054 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics and in-cell cross-linking reveal cellular reorganisation during early neuronal differentiation of SH-SY5Y cells Possible reference: Barth, M. et al. (2022) Quantitative proteomics and in-cell cross-linking reveal cellular reorganisation during early neuronal differentiation of SH-SY5Y cells., Commun Biol, PMID 35672350PXD031049 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomic analysis of three exercise modalities in human skeletal muscle Possible reference: Blazev, R. et al. (2022) Phosphoproteomics of three exercise modalities identifies canonical signaling and C18ORF25 as an AMPK substrate regulating skeletal muscle function., Cell Metab, PMID 35882232PXD031046 Dataset with its publication pending (from PRIDE) Dataset title: Tgfbr2 in dental pulp cells guides neurite outgrowth in developing teeth Possible reference: Stanwick, M. et al. (2022) Tgfbr2 in Dental Pulp Cells Guides Neurite Outgrowth in Developing Teeth., Front Cell Dev Biol, PMID 35265620PXD031021 Dataset with its publication pending (from iProX) Dataset title: Glycyrrhetinic acid restricts mitochondrial energy metabolism through targeting SHMT2 Possible reference: Jin, X. et al. (2022) Glycyrrhetinic acid restricts mitochondrial energy metabolism by targeting SHMT2., iScience, PMID 35602963PXD031016 Dataset with its publication pending (from PRIDE) Dataset title: Isoform-dependent lysosomal degradation and internalization of Apolipoprotein E requires autophagy proteins Possible reference: Fote, GM. et al. (2022) Isoform-dependent lysosomal degradation and internalization of apolipoprotein E requires autophagy proteins., J Cell Sci, PMID 34982109PXD030995 Dataset with its publication pending (from PRIDE) Dataset title: Metabolic control of adult neural stem cell self-renewal by the mitochondrial protease YME1L Possible reference: Wani, GA. et al. (2022) Metabolic control of adult neural stem cell self-renewal by the mitochondrial protease YME1L., Cell Rep, PMID 35172139PXD030979 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics on pink1 mutant Drosophila melanogaster Possible reference: Auburger, G. et al. (2019) SerThr-PhosphoProteome of Brain from Aged PINK1-KO+A53T-SNCA Mice Reveals pT1928-MAP1B and pS3781-ANK2 Deficits, as Hub between Autophagy and Synapse Changes., Int J Mol Sci, PMID 31277379PXD030963 Dataset with its publication pending (from PRIDE) Dataset title: Off the shelf proximity biotinylation using ProtA-TurboID Possible reference: Santos-Barriopedro, I. et al. (2023) Off-the-shelf proximity biotinylation using ProtA-TurboID., Nat Protoc, PMID 36224470PXD030955 Dataset with its publication pending (from PRIDE) Dataset title: Characteristics of extracellular vesicles secreted by senescent human vascular smooth muscle cells and its influence on immune cells. Possible reference: Głuchowska, A. et al. (2022) Unbiased proteomic analysis of extracellular vesicles secreted by senescent human vascular smooth muscle cells reveals their ability to modulate immune cell functions., Geroscience, PMID 35900662PXD030953 Dataset with its publication pending (from PRIDE) Dataset title: Spatiotemporal expression of regulatory kinases directs the transition from mitosis to cellular morphogenesis in Drosophila Possible reference: Yang, S. et al. (2022) Spatiotemporal expression of regulatory kinases directs the transition from mitosis to cellular morphogenesis in Drosophila., Nat Commun, PMID 35140224PXD030940 Dataset with its publication pending (from PRIDE) Dataset title: Cell membrane remodeling mediates polymyxin B resistance in Klebsiella pneumoniae: an integrated proteomics and metabolomics study Possible reference: Chen, X. et al. (2022) Cell Membrane Remodeling Mediates Polymyxin B Resistance in Klebsiella pneumoniae: An Integrated Proteomics and Metabolomics Study., Front Microbiol, PMID 35222333PXD030936 Dataset with its publication pending (from PRIDE) Dataset title: Red blood cells protein profile is modified in breast cancer patients Possible reference: Pereira-Veiga, T. et al. (2022) Red Blood Cells Protein Profile Is Modified in Breast Cancer Patients., Mol Cell Proteomics, PMID 36519745PXD030925 Dataset with its publication pending (from PRIDE) Dataset title: Rapidly evolving genes underlie Aedes aegypti mosquito reproductive resilience during drought Possible reference: Venkataraman, K. et al. (2023) Two novel, tightly linked, and rapidly evolving genes underlie Aedes aegypti mosquito reproductive resilience during drought., Elife, PMID 36744865PXD030915 Dataset with its publication pending (from PRIDE) Dataset title: Spatiotemporal profiling of the bovine oviduct fluid proteome around the time of ovulation Possible reference: Mah, C. et al. (2022) Spatiotemporal profiling of the bovine oviduct fluid proteome around the time of ovulation., Sci Rep, PMID 35264682PXD030896 Dataset with its publication pending (from jPOST) Dataset title: Proteome of FAO deficient mouse model Possible reference: Benitez-Amaro, A. et al. (2020) Low-density lipoprotein receptor-related protein 1 deficiency in cardiomyocytes reduces susceptibility to insulin resistance and obesity., Metabolism, PMID 32112822PXD030889 Dataset with its publication pending (from PRIDE) Dataset title: Translation rescue by targeting Ppp1r15a upstream open reading frame in vivo Possible reference: Kidwell, A. et al. (2023) Translation Rescue by Targeting Ppp1r15a through Its Upstream Open Reading Frame in Sepsis-Induced Acute Kidney Injury in a Murine Model., J Am Soc Nephrol, PMID 36283811PXD030886 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic and functional analyses of the periodic membrane skeleton in neurons Possible reference: Zhou, R. et al. (2022) Proteomic and functional analyses of the periodic membrane skeleton in neurons., Nat Commun, PMID 35680881PXD030870 no publication (from MassIVE) Dataset title: Proteomic screen reveals diverse protein transport between connected neurons in the visual system. Possible reference: Schiapparelli, LM. et al. (2022) Proteomic screen reveals diverse protein transport between connected neurons in the visual system., Cell Rep, PMID 35081342PXD030839 Dataset with its publication pending (from PRIDE) Dataset title: Data of chemical composition of the particles from OH-initiated oxidation of 1,3,5-trimethylbenzene Possible reference: Lin, X. et al. (2022) Data of chemical composition of the particles from OH-initiated oxidation of 1,3,5-trimethylbenzene., Data Brief, PMID 35496493PXD030837 Dataset with its publication pending (from PRIDE) Dataset title: A G-protein-coupled receptor modulates gametogenesis via PKG-mediated signaling cascade in Plasmodium berghei Possible reference: Wang, PP. et al. (2022) A G-Protein-Coupled Receptor Modulates Gametogenesis via PKG-Mediated Signaling Cascade in Plasmodium berghei., Microbiol Spectr, PMID 35404079PXD030821 Dataset with its publication pending (from PRIDE) Dataset title: Secretomics of human pluripotent stem cell derived neural progenitor cells and induced astrocytes. Possible reference: Araujo, BHS. et al. (2018) Down Syndrome iPSC-Derived Astrocytes Impair Neuronal Synaptogenesis and the mTOR Pathway In Vitro., Mol Neurobiol, PMID 29128905PXD030820 Dataset with its publication pending (from PRIDE) Dataset title: The Inhibitory Receptor Siglec-8 Interacts with FcεRI and Globally Inhibits Intracellular Signaling in Primary Mast Cells Upon Activation Possible reference: Korver, W. et al. (2022) The Inhibitory Receptor Siglec-8 Interacts With FcεRI and Globally Inhibits Intracellular Signaling in Primary Mast Cells Upon Activation., Front Immunol, PMID 35154156PXD030819 Dataset with its publication pending (from PRIDE) Dataset title: Protein-based engineering of the initial acquired enamel pellicle in vivo: proteomic evaluation Possible reference: Arajo, TT. et al. (2022) Protein-based engineering of the initial acquired enamel pellicle in vivo: Proteomic evaluation., J Dent, PMID 34798481PXD030818 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic study reveals differential expression of matricellular proteins between fibrous dysplasia and cemento-ossifying fibroma pathogenesis Possible reference: Duarte-Andrade, FF. et al. (2022) Quantitative proteomic study reveals differential expression of matricellular proteins between fibrous dysplasia and cemento-ossifying fibroma pathogenesis., J Oral Pathol Med, PMID 35103997PXD030804 Dataset with its publication pending (from PRIDE) Dataset title: Precision structural interpretation of site-specific N-glycans in seminal plasma Possible reference: Xin, M. et al. (2022) Precision Structural Interpretation of Site-Specific N-Glycans in Seminal Plasma., J Proteome Res, PMID 35616904PXD030798 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-Wide Analysis of Lysine 2-Hydroxyisobutyrylation in Frankliniella occidentalis Possible reference: Ding, C. et al. (2022) Proteome-wide analysis of lysine 2-hydroxyisobutyrylation in Frankliniella occidentalis., BMC Genomics, PMID 36038823PXD030797 Dataset with its publication pending (from PRIDE) Dataset title: Comparison of SPEED, S-Trap, and In-Solution based sample preparation methods for tandem mass spectrometry Possible reference: Templeton, EM. et al. (2023) Comparison of SPEED, S-Trap, and In-Solution-Based Sample Preparation Methods for Mass Spectrometry in Kidney Tissue and Plasma., Int J Mol Sci, PMID 37047281PXD030796 Dataset with its publication pending (from PRIDE) Dataset title: Comparison of SPEED, S-Trap, and In-Solution based sample preparation methods for tandem mass spectrometry Possible reference: Templeton, EM. et al. (2023) Comparison of SPEED, S-Trap, and In-Solution-Based Sample Preparation Methods for Mass Spectrometry in Kidney Tissue and Plasma., Int J Mol Sci, PMID 37047281PXD030792 Dataset with its publication pending (from iProX) Dataset title: Proteomics analysis of RRDCD Vitreous Possible reference: Wu, Z. et al. (2016) Identification of Potential Biomarkers for Rhegmatogenous Retinal Detachment Associated with Choroidal Detachment by Vitreous iTRAQ-Based Proteomic Profiling., Int J Mol Sci, PMID 27941623PXD030785 Dataset with its publication pending (from PRIDE) Dataset title: Protective immune trajectories in early viral containment of non-pneumonic SARS-CoV-2 infection Possible reference: Pekayvaz, K. et al. (2022) Protective immune trajectories in early viral containment of non-pneumonic SARS-CoV-2 infection., Nat Commun, PMID 35197461PXD030782 Dataset with its publication pending (from PRIDE) Dataset title: Peroxisome-derived hydrogen peroxide can modulate the sulfenylation profiles of key redox signaling proteins in Flp-In T-REx 293 cells Possible reference: Lismont, C. et al. (2022) Peroxisome-Derived Hydrogen Peroxide Modulates the Sulfenylation Profiles of Key Redox Signaling Proteins in Flp-In T-REx 293 Cells., Front Cell Dev Biol, PMID 35557958PXD030776 Dataset with its publication pending (from PRIDE) Dataset title: The proto-oncogene TCL1A deregulates mitotic checkpoint transition and genomic stability in CLL Possible reference: Stachelscheid, J. et al. (2023) The proto-oncogene TCL1A deregulates cell cycle andgenomic stability in CLL., Blood, PMID 36179280PXD030773 Dataset with its publication pending (from PRIDE) Dataset title: The proto-oncogene TCL1A deregulates mitotic checkpoint transition and genomic stability in CLL Possible reference: Stachelscheid, J. et al. (2023) The proto-oncogene TCL1A deregulates cell cycle andgenomic stability in CLL., Blood, PMID 36179280PXD030757 Dataset with its publication pending (from PRIDE) Dataset title: Integrative metabolomics, proteomics and transcriptomics analysis reveals liver toxicity of mesoporous silica nanoparticles Possible reference: Li, J. et al. (2022) Integrative Metabolomics, Proteomics and Transcriptomics Analysis Reveals Liver Toxicity of Mesoporous Silica Nanoparticles., Front Pharmacol, PMID 35153799PXD030754 Dataset with its publication pending (from PRIDE) Dataset title: Histidine Kinase Inhibitors Impair Shoot Regeneration in Arabidopsis thaliana via Cytokinin Signalling and SAM Patterning Determinants Possible reference: Lardon, R. et al. (2022) Histidine kinase inhibitors impair shoot regeneration in Arabidopsis thaliana via cytokinin signaling and SAM patterning determinants., Front Plant Sci, PMID 36684719PXD030729 Dataset with its publication pending (from PRIDE) Dataset title: Identification of CCNF/Cyclin F targets Possible reference: Zhang, Y. et al. (2021) Identification of hub genes in colorectal cancer based on weighted gene co-expression network analysis and clinical data from The Cancer Genome Atlas., Biosci Rep, PMID 34308980PXD030712 Dataset with its publication pending (from PRIDE) Dataset title: Salivary Hemoglobin Protects against Erosive Tooth Wear in Gastric Reflux Patients Possible reference: Martini, T. et al. (2019) Proteomics of acquired pellicle in gastroesophageal reflux disease patients with or without erosive tooth wear., J Dent, PMID 30579861PXD030673 no publication (from MassIVE) Dataset title: Proximity Profiling of the CFTR Interaction Landscape In Response to Orkambi Possible reference: Iazzi, M. et al. (2022) Proximity Profiling of the CFTR Interaction Landscape in Response to Orkambi., Int J Mol Sci, PMID 35269585PXD030672 Dataset with its publication pending (from PRIDE) Dataset title: Off-target effects of the lysosomal acid lipase inhibitors Lalistat-1 and Lalistat-2 on neutral lipid hydrolases Possible reference: Bradić, I. et al. (2022) Off-target effects of the lysosomal acid lipase inhibitors Lalistat-1 and Lalistat-2 on neutral lipid hydrolases., Mol Metab, PMID 35504532PXD030669 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analyses of excess starch and early senescent leaf mutant lses1 in rice Possible reference: Chen, Z. et al. (2022) Integration of transcriptomic and proteomic analyses reveals several levels of metabolic regulation in the excess starch and early senescent leaf mutant lses1 in rice., BMC Plant Biol, PMID 35321646PXD030666 Dataset with its publication pending (from PRIDE) Dataset title: Systematic identification of factors involved in the silencing of germline genes in mouse embryonic stem cells Possible reference: Al Adhami, H. et al. (2023) Systematic identification of factors involved in the silencing of germline genes in mouse embryonic stem cells., Nucleic Acids Res, PMID 36772830PXD030663 Dataset with its publication pending (from PRIDE) Dataset title: Cell-type-specific labeling and profiling of glycans in living mice Possible reference: Fan, X. et al. (2022) Cell-type-specific labeling and profiling of glycans in living mice., Nat Chem Biol, PMID 35513511PXD030633 Dataset with its publication pending (from PRIDE) Dataset title: Cellular Protein Client Recovery by Human Hsp40s DNAJB1 and DNAJB8 Possible reference: Montoya, MR. et al. (2024) Factors affecting protein recovery during Hsp40 affinity profiling., Anal Bioanal Chem, PMID 38850318PXD030631 Dataset with its publication pending (from PRIDE) Dataset title: OXSR1 inhibits inflammasome activation by limiting potassium efflux during mycobacterial infection Possible reference: Hortle, E. et al. (2022) OXSR1 inhibits inflammasome activation by limiting potassium efflux during mycobacterial infection., Life Sci Alliance, PMID 35545295PXD030619 Dataset with its publication pending (from PRIDE) Dataset title: Mass Spectrometry Uncovers Protein Interactions and Stoichiometry of Intermediates and Sub-complexes for SNARE Complex Assembly Possible reference: Hesselbarth, J. et al. (2023) Mass spectrometry uncovers intermediates and off-pathway complexes for SNARE complex assembly., Commun Biol, PMID 36806321PXD030613 Dataset with its publication pending (from PRIDE) Dataset title: Venomics analysis of Thai Daboia siamensis using integrated omics data Possible reference: Saethang, T. et al. (2022) Identification of Daboia siamensis venome using integrated multi-omics data., Sci Rep, PMID 35907887PXD030609 Dataset with its publication pending (from PRIDE) Dataset title: Two closely related white rot fungi, Obba rivulosa and Gelatoporia subvermispora, produce orthologous plant cell wall degrading enzymes for spruce wood degradation Possible reference: Marinovc, M. et al. (2022) Comparative Analysis of Enzyme Production Patterns of Lignocellulose Degradation of Two White Rot Fungi: Obba rivulosa and Gelatoporia subvermispora., Biomolecules, PMID 35892327PXD030591 Dataset with its publication pending (from PRIDE) Dataset title: Promiscuity of peptides presented in HLA-DP molecules from different immunogenicity groups is associated with T-cell cross-reactivity Possible reference: Laghmouchi, A. et al. (2022) Promiscuity of Peptides Presented in HLA-DP Molecules from Different Immunogenicity Groups Is Associated With T-Cell Cross-Reactivity., Front Immunol, PMID 35251023PXD030580 Dataset with its publication pending (from PRIDE) Dataset title: UBIQUITIN LIGASE STUB1 DESTABILIZES IFNγ-RECEPTOR COMPLEX TO SUPPRESS TUMOR IFNγ SIGNALING Possible reference: Apriamashvili, G. et al. (2022) Ubiquitin ligase STUB1 destabilizes IFNγ-receptor complex to suppress tumor IFNγ signaling., Nat Commun, PMID 35395848PXD030574 no publication (from MassIVE) Dataset title: FOSL1 binding proteins in lung adenocarcinoma Possible reference: Elangovan, IM. et al. (2018) FOSL1 Promotes Kras-induced Lung Cancer through Amphiregulin and Cell Survival Gene Regulation., Am J Respir Cell Mol Biol, PMID 29112457PXD030539 Dataset with its publication pending (from PRIDE) Dataset title: thermal proteome profiling of hypomethylating agents in infant ALL Possible reference: Cheung, LC. et al. (2023) Preclinical efficacy of azacitidine and venetoclax for infant KMT2A-rearranged acute lymphoblastic leukemia reveals a new therapeutic strategy., Leukemia, PMID 36380143PXD030537 Dataset with its publication pending (from PRIDE) Dataset title: Metal removal capability of two cyanobacterial species in autotrophic and mixotrophic mode of nutrition Possible reference: Ghorbani, E. et al. (2022) Metal removal capability of two cyanobacterial species in autotrophic and mixotrophic mode of nutrition., BMC Microbiol, PMID 35176992PXD030535 Dataset with its publication pending (from PRIDE) Dataset title: Metal removal capability of two cyanobacterial species in autotrophic and mixotrophic mode of nutrition Possible reference: Ghorbani, E. et al. (2022) Metal removal capability of two cyanobacterial species in autotrophic and mixotrophic mode of nutrition., BMC Microbiol, PMID 35176992PXD030532 Dataset with its publication pending (from PRIDE) Dataset title: Cross-linking of the Endolysosomal System Reveals Potential Flotillin Structures and Cargo Possible reference: Singh, J. et al. (2022) Cross-linking of the endolysosomal system reveals potential flotillin structures and cargo., Nat Commun, PMID 36266287PXD030530 no publication (from MassIVE) Dataset title: SIRT5 is a proviral factor that interacts with SARS-CoV-2 Nsp14 protein Possible reference: Walter, M. et al. (2022) SIRT5 is a proviral factor that interacts with SARS-CoV-2 Nsp14 protein., bioRxiv, PMID 35018374PXD030529 Dataset with its publication pending (from PRIDE) Dataset title: Palaeoproteomics identifies beaver fur and fur trade in Danish high-status Viking Age burials Possible reference: Brandt, L. et al. (2022) Palaeoproteomics identifies beaver fur in Danish high-status Viking Age burials - direct evidence of fur trade., PLoS One, PMID 35895633PXD030492 Dataset with its publication pending (from PRIDE) Dataset title: Dynamics of allosteric regulation of the phospholipase C-gamma isoform Possible reference: Hajicek, N. et al. (2019) Structural basis for the activation of PLC-γ isozymes by phosphorylation and cancer-associated mutations., Elife, PMID 31889510PXD030490 no publication (from MassIVE) Dataset title: Proximity proteomics of C9orf72 dipeptide repeat proteins Possible reference: Božič, J. et al. (2022) Interactome screening of C9orf72 dipeptide repeats reveals VCP sequestration and functional impairment by polyGA., Brain, PMID 34534264PXD030473 Dataset with its publication pending (from iProX) Dataset title: 2018YFC0910200-application demonstration of key technologies for national omics data quality control Possible reference: Zhao, B. et al. (2020) NPF:network propagation for protein function prediction., BMC Bioinformatics, PMID 32787776PXD030467 Dataset with its publication pending (from PRIDE) Dataset title: Functional Requirements for a Samd14-Capping Protein Complex in Stress Erythropoiesis Possible reference: Ray, S. et al. (2022) Functional requirements for a Samd14-capping protein complex in stress erythropoiesis., Elife, PMID 35713400PXD030458 Dataset with its publication pending (from PRIDE) Dataset title: Functional effects of sweeteners on ex vivo human gut microbiome Possible reference: Sun, Z. et al. (2022) Comprehensive Assessment of Functional Effects of Commonly Used Sugar Substitute Sweeteners on Ex Vivo Human Gut Microbiome., Microbiol Spectr, PMID 35695565PXD030434 Dataset with its publication pending (from iProX) Dataset title: Comprehensive Comparison of Sample Preparation workflow for Large Scaled Proteome Identification Possible reference: Karayel, O. et al. (2020) DIA-based systems biology approach unveils E3 ubiquitin ligase-dependent responses to a metabolic shift., Proc Natl Acad Sci U S A, PMID 33288721PXD030429 Dataset with its publication pending (from PRIDE) Dataset title: MiniTurbo-based interactomics of two plasma membrane-localized SNARE proteins in Marchantia polymorpha Possible reference: Melkonian, K. et al. (2022) miniTurbo-based interactomics of two plasma membrane-localized SNARE proteins in Marchantia polymorpha., New Phytol, PMID 35396742PXD030424 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomic analysis of breast cancer-derived extracellular vesicles reveals disease-specific phosphorylated enzymes Possible reference: Minic, Z. et al. (2022) Phosphoproteomic Analysis of Breast Cancer-Derived Small Extracellular Vesicles Reveals Disease-Specific Phosphorylated Enzymes., Biomedicines, PMID 35203617PXD030422 Dataset with its publication pending (from PRIDE) Dataset title: Inflammatory fibroblasts mediate resistance to neoadjuvant therapy in rectal cancer Possible reference: Nicolas, AM. et al. (2022) Inflammatory fibroblasts mediate resistance to neoadjuvant therapy in rectal cancer., Cancer Cell, PMID 35120600PXD030409 no publication (from MassIVE) Dataset title: Development of an experimental approach to achieve spatially resolved plant root-associated metaproteomics using an agar-plate system Possible reference: Appidi, MR. et al. (2022) Development of an Experimental Approach to Achieve Spatially Resolved Plant Root-Associated Metaproteomics Using an Agar-Plate System., Mol Plant Microbe Interact, PMID 35349304PXD030407 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics and secretome characterisation of a senescence-like cell state upon CDK4/6 inhibition Possible reference: Beykou, M. et al. (2022) Proteomic characterisation of triple negative breast cancer cells following CDK4/6 inhibition., Sci Data, PMID 35817775PXD030393 Dataset with its publication pending (from PRIDE) Dataset title: Proteome adaptations of the organohalide-respiring Desulfitobacterium hafniense to fermentative and various respiratory metabolisms Possible reference: Willemin, MS. et al. (2023) Proteome adaptations of the organohalide-respiring Desulfitobacterium hafniense strain DCB-2 to various energy metabolisms., Front Microbiol, PMID 36733918PXD030390 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Signature for Detection of High Grade Ovarian Cancer in germline BRCA mutation carriers Possible reference: Bahar-Shany, K. et al. (2023) Proteomic signature for detection of high-grade ovarian cancer in germline BRCA mutation carriers., Int J Cancer, PMID 36214786PXD030337 Dataset with its publication pending (from PRIDE) Dataset title: Migration of Acanthamoeba through Legionella biofilms is regulated by bacterial quorum sensing, effectors and the flagellum Possible reference: Hochstrasser, R. et al. (2022) Migration of Acanthamoeba through Legionella biofilms is regulated by the bacterial Lqs-LvbR network, effector proteins and the flagellum., Environ Microbiol, PMID 35415862PXD030210 Dataset with its publication pending (from PRIDE) Dataset title: Integrated analysis of early transcriptomic and proteomic alterations in mouse models of ALS/FTD identify early metabolic adaptions with similarities to mitochondrial dysfunction disorders Possible reference: Matveeva, A. et al. (2024) Integrated analysis of transcriptomic and proteomic alterations in mouse models of ALS/FTD identify early metabolic adaptions with similarities to mitochondrial dysfunction disorders., Amyotroph Lateral Scler Frontotemporal Degener, PMID 37779364PXD030206 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic response of SK-MEL-2 cells to polymyxin B Possible reference: Zhang, C. et al. (2022) Proteomic Response Revealed Signaling Pathways Involving in the Mechanism of Polymyxin B-Induced Melanogenesis., Microbiol Spectr, PMID 35377227PXD030201 no publication (from MassIVE) Dataset title: Oxidation of whey proteins during thermal treatment characterized by a site-specific LC-MS/MS-based proteomic approach Possible reference: Li, C. et al. (2022) Oxidation of Whey Proteins during Thermal Treatment Characterized by a Site-Specific LC-MS/MS-Based Proteomic Approach., J Agric Food Chem, PMID 35380828PXD030188 Stefano Doccini*, Maria Marchese, Federica Morani, Nicola Gammaldi, Serena Mero, Francesco Pezzini, Rabah Soliymani, Melissa Santi, Giovanni Signore, Asahi Ogi, Silvia Rocchiccioli, Katja M. Kanninen, Alessandro Simonati, Maciej M. Lalowski*, Filippo M. S (from MassIVE) Dataset title: Lysosomal proteomics links disturbances in lipid homeostasis and sphingolipid metabolism to CLN5 disease. Possible reference: Doccini, S. et al. (2022) Lysosomal Proteomics Links Disturbances in Lipid Homeostasis and Sphingolipid Metabolism to CLN5 Disease., Cells, PMID 35681535PXD030185 Dataset with its publication pending (from PRIDE) Dataset title: The FtsH-inactive Protein TSL2/FtsHi5 Is Required for Chloroplast Development and Proteostasis at Low Ambient Temperature in Arabidopsis thaliana Possible reference: Li, JY. et al. (2021) The FtsH-Inactive Protein FtsHi5 Is Required for Chloroplast Development and Protein Accumulation in Chloroplasts at Low Ambient Temperature in Arabidopsis., Front Plant Sci, PMID 35185971PXD030177 no publication (from MassIVE) Dataset title: Lung proteome of the AAV-DTR/DT mouse model of acute epithelial lung injury Possible reference: Griesser, E. et al. (2022) Characterization of a flexible AAV-DTR/DT mouse model of acute epithelial lung injury., Am J Physiol Lung Cell Mol Physiol, PMID 35762632PXD030176 Dataset with its publication pending (from jPOST) Dataset title: Shotgun proteomics (label-free quantitation) of Pyrodinium bahamense Possible reference: Subong, BJJ. et al. (2021) Biochemical Mapping of Pyrodinium bahamense Unveils Molecular Underpinnings behind Organismal Processes., Int J Mol Sci, PMID 34948131PXD030167 Dataset with its publication pending (from PRIDE) Dataset title: Surgical trauma in mice modifies the content of circulating extracellular vesicles Possible reference: Mkrtchian, S. et al. (2021) Surgical Trauma in Mice Modifies the Content of Circulating Extracellular Vesicles., Front Immunol, PMID 35116043PXD030142 Dataset with its publication pending (from PRIDE) Dataset title: Single-cell transcriptomic and proteomic analysis of Parkinson’s disease brains Possible reference: Eninger, T. et al. (2022) Signatures of glial activity can be detected in the CSF proteome., Proc Natl Acad Sci U S A, PMID 35666874PXD030134 Dataset with its publication pending (from PRIDE) Dataset title: RNase L activating 2′-5′ oligoadenlyates bind ABCF1, -3 and Decr-1 Possible reference: Govande, AA. et al. (2023) RNase L-activating 2'-5' oligoadenylates bind ABCF1, ABCF3 and Decr-1., J Gen Virol, PMID 37676257PXD030131 Dataset with its publication pending (from PRIDE) Dataset title: Global analysis of lysine 2-hydroxyisobutyrylation during Fusarium graminearum infection in maize Possible reference: Zhang, K. et al. (2022) Global analysis of lysine 2-hydroxyisobutyrylation during Fusarium graminearum infection in maize., Front Plant Sci, PMID 36186065PXD030130 Dataset with its publication pending (from PRIDE) Dataset title: Age-related differences in structure and function of nasal epithelial cultures from healthy children and elderly people Possible reference: Balzs, A. et al. (2022) Age-Related Differences in Structure and Function of Nasal Epithelial Cultures From Healthy Children and Elderly People., Front Immunol, PMID 35296085PXD030092 Dataset with its publication pending (from PRIDE) Dataset title: The proteome of irradiated glioma stem cells and of their extracellular vesicles Possible reference: Pan, J. et al. (2022) Extracellular vesicles derived from glioblastoma promote proliferation and migration of neural progenitor cells via PI3K-Akt pathway., Cell Commun Signal, PMID 35022057PXD030091 Dataset with its publication pending (from PRIDE) Dataset title: The E3 ubiquitin ligase adaptor cereblon targets the C-terminal cyclic imide degron Possible reference: Ichikawa, S. et al. (2024) The cyclimids: Degron-inspired cereblon binders for targeted protein degradation., Cell Chem Biol, PMID 38320555PXD030076 Dataset with its publication pending (from PRIDE) Dataset title: Distinct ribosome states trigger diverse mRNA quality control pathways Possible reference: Garshott, DM. et al. (2021) iRQC, a surveillance pathway for 40S ribosomal quality control during mRNA translation initiation., Cell Rep, PMID 34469731PXD029964 Dataset with its publication pending (from PRIDE) Dataset title: Knockout of MITOGEN-ACTIVATED PROTEIN KINASE 3 causes barley root resistance against Fusarium graminearum Possible reference: Basheer, J. et al. (2022) Knockout of MITOGEN-ACTIVATED PROTEIN KINASE 3 causes barley root resistance against Fusarium graminearum., Plant Physiol, PMID 35993881PXD029955 Dataset with its publication pending (from PRIDE) Dataset title: Reactivity-dependent profiling of RNA 5-methylcytidine dioxygenases Possible reference: Arguello, AE. et al. (2022) Reactivity-dependent profiling of RNA 5-methylcytidine dioxygenases., Nat Commun, PMID 35853884PXD029942 Dataset with its publication pending (from PRIDE) Dataset title: Von Willebrand factor A1 domain affinity for GPIbα and stability are differentially regulated by its O-glycosylated N-linker and C-linker Possible reference: Bonazza, K. et al. (2022) Von Willebrand factor A1 domain stability and affinity for GPIbα are differentially regulated by its O-glycosylated N- and C-linker., Elife, PMID 35532124PXD029927 Dataset with its publication pending (from PRIDE) Dataset title: Melanoma RBPome identification reveals PDIA6 as an unconventional RNA-binding protein involved in metastasis Possible reference: Mestre-Farrs, N. et al. (2022) Melanoma RBPome identification reveals PDIA6 as an unconventional RNA-binding protein involved in metastasis., Nucleic Acids Res, PMID 35848924PXD029902 Dataset with its publication pending (from PRIDE) Dataset title: A fully automated FAIMS-DIA mass spectrometry-based proteomic pipeline Possible reference: Reilly, L. et al. (2023) A fully automated FAIMS-DIA mass spectrometry-based proteomic pipeline., Cell Rep Methods, PMID 37729920PXD029899 Dataset with its publication pending (from PRIDE) Dataset title: Polypyrimidine Tract Binding Proteins PTBP1 and PTBP2 Interact with Distinct Proteins Under Splicing Conditions Possible reference: Pina, JM. et al. (2022) Polypyrimidine tract binding proteins PTBP1 and PTBP2 interact with distinct proteins under splicing conditions., PLoS One, PMID 35113929PXD029828 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic signatures of antimicrobial resistance in Yersinia pestis and Francisella tularensis Possible reference: Deatherage Kaiser, BL. et al. (2022) Proteomic Signatures of Antimicrobial Resistance in Yersinia pestis and Francisella tularensis., Front Med (Lausanne), PMID 35223919PXD029825 Dataset with its publication pending (from PRIDE) Dataset title: Sex differences in the role of protein sumoylation in the amygdala during fear memory formation Possible reference: Gustin, A. et al. (2022) Protein SUMOylation is a sex-specific regulator of fear memory formation in the amygdala., Behav Brain Res, PMID 35597476PXD029814 Dataset with its publication pending (from jPOST) Dataset title: Water droplet-in-oil digestion method for single-cell proteomics Possible reference: Masuda, T. et al. (2022) Water Droplet-in-Oil Digestion Method for Single-Cell Proteomics., Anal Chem, PMID 35817413PXD029800 no publication (from MassIVE) Dataset title: Identification of Endogenous Peptides in MALDI-TOF-MS based COVID-19 diagnostics Possible reference: Tsai, H. et al. (2022) Identification of Endogenous Peptides in Nasal Swab Transport Media used in MALDI-TOF-MS Based COVID-19 Screening., ACS Omega, PMID 35600141PXD029793 Dataset with its publication pending (from PRIDE) Dataset title: Serum proteomic profile of asthmatic patients after 6 months of Benralizumab and Mepolizumab treatment Possible reference: Landi, C. et al. (2021) Differential redox proteomic profiles of serum from severe asthma patients after one month of benralizumab and mepolizumab treatment., Pulm Pharmacol Ther, PMID 34303823PXD029792 Dataset with its publication pending (from PRIDE) Dataset title: Improved identification of proteoforms using FAIMS with internal CV stepping in top-down proteomics Possible reference: Kaulich, PT. et al. (2022) Improved Identification of Proteoforms in Top-Down Proteomics Using FAIMS with Internal CV Stepping., Anal Chem, PMID 35172570PXD029557 Dataset with its publication pending (from jPOST) Dataset title: Dietary germinated paddy rice and stocking density affect egg performance, serum biochemical properties, and proteomic and transcriptomic response of laying hens exposed to chronic heat stress Possible reference: Incharoen, T. et al. (2021) Dietary Germinated Paddy Rice and Stocking Density Affect Egg Performance, Serum Biochemical Properties, and Proteomic and Transcriptomic Response of Laying Hens Exposed to Chronic Heat Stress., Proteomes, PMID 34941813PXD029447 no publication (from MassIVE) Dataset title: TIMSFolding allows the use of ion mobility enhanced spectral libraries Possible reference: Shen, T. et al. (2023) The unknown lipids project: harmonized methods improve compound identification and data reproducibility in an inter-laboratory untargeted lipidomics study., bioRxiv, PMID 36778509PXD029431 Dataset with its publication pending (from PRIDE) Dataset title: Enrichment and Proteomic Identification of Cryptosporidium parvum Oocyst Wall Possible reference: Wang, L. et al. (2022) Enrichment and proteomic identification of Cryptosporidium parvum oocyst wall., Parasit Vectors, PMID 36151578PXD029411 no publication (from MassIVE) Dataset title: Label free proteomic and complementary metabolomic analysis of leaves of the resurrection plant Xerophyta schlechteri during dehydration Possible reference: Gabier, H. et al. (2021) A Label-Free Proteomic and Complementary Metabolomic Analysis of Leaves of the Resurrection Plant Xerophytaschlechteri during Dehydration., Life (Basel), PMID 34833116PXD029396 Dataset with its publication pending (from PRIDE) Dataset title: Actinobacillus pleuropneumoniae serotype 2 exoproteome LF-LC-MS/MS Possible reference: Stancheva, SG. et al. (2022) Proteomic and immunoproteomic insights into the exoproteome of Actinobacillus pleuropneumoniae, the causative agent of porcine pleuropneumonia., Microb Pathog, PMID 36087692PXD029374 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling and alteration in Tuta absoluta upon infection with entomopathogenic fungi, Beauveria bassiana and Purpureocillium lilacinum Possible reference: Bali, GK. et al. (2022) An insight in proteome profiling of Tuta absoluta larvae after entomopathogenic fungal infection., Sci Data, PMID 35986033PXD029368 Dataset with its publication pending (from PRIDE) Dataset title: Rat parathyroid glands LC-MS/MS Possible reference: Şenkal-Turhan, S. et al. (2024) Induced Pluripotent Stem Cell-Derived Parathyroid Organoids Resemble Parathyroid Morphology and Function., Adv Sci (Weinh), PMID 39331961PXD029344 Dataset with its publication pending (from PRIDE) Dataset title: Deep membrane proteome profiling of high-risk human paraganglioma Possible reference: Vit, O. et al. (2021) Deep Membrane Proteome Profiling Reveals Overexpression of Prostate-Specific Membrane Antigen (PSMA) in High-Risk Human Paraganglioma and Pheochromocytoma, Suggesting New Theranostic Opportunity., Molecules, PMID 34770976PXD029321 Dataset with its publication pending (from PRIDE) Dataset title: Anti-SARS-CoV-2 antibodies elicited by COVID-19mRNA vaccine exhibits a unique glycosylation pattern Possible reference: Farkash, I. et al. (2021) Anti-SARS-CoV-2 antibodies elicited by COVID-19 mRNA vaccine exhibit a unique glycosylation pattern., Cell Rep, PMID 34883043PXD029320 Dataset with its publication pending (from PRIDE) Dataset title: Real-Time Search Assisted Acquisition on a Tribrid Mass Spectrometer Improves Coverage in Multiplexed Single-Cell Proteomics Possible reference: Furtwngler, B. et al. (2022) Real-Time Search-Assisted Acquisition on a Tribrid Mass Spectrometer Improves Coverage in Multiplexed Single-Cell Proteomics., Mol Cell Proteomics, PMID 35219906PXD029319 Dataset with its publication pending (from PRIDE) Dataset title: Putative methylomirabilis lanthanidiphila surface layer protein Possible reference: Gambelli, L. et al. (2021) The Polygonal Cell Shape and Surface Protein Layer of Anaerobic Methane-Oxidizing Methylomirabilis lanthanidiphila Bacteria., Front Microbiol, PMID 34925275PXD029303 Dataset with its publication pending (from jPOST) Dataset title: eIF4A1-bound 48S complex in HEK293T cells Possible reference: Babaylova, E. et al. (2019) Tetrapeptide 60-63 of human ribosomal protein uS3 is crucial for translation initiation., Biochim Biophys Acta Gene Regul Mech, PMID 31356988PXD029302 Dataset with its publication pending (from jPOST) Dataset title: eIF4A1-bound 48S complex in HEK293T cells Possible reference: Babaylova, E. et al. (2019) Tetrapeptide 60-63 of human ribosomal protein uS3 is crucial for translation initiation., Biochim Biophys Acta Gene Regul Mech, PMID 31356988PXD029291 Dataset with its publication pending (from PRIDE) Dataset title: N1-methylpseudouridine found within COVID-19 mRNA vaccines produces faithful protein products Possible reference: Kim, KQ. et al. (2022) N1-methylpseudouridine found within COVID-19 mRNA vaccines produces faithful protein products., Cell Rep, PMID 35988540PXD029285 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic profiling identifies reciprocal expression of mitochondrial proteins between white and grey matter lesions from multiple sclerosis brains Possible reference: Rai, NK. et al. (2021) Comparative Proteomic Profiling Identifies Reciprocal Expression of Mitochondrial Proteins Between White and Gray Matter Lesions From Multiple Sclerosis Brains., Front Neurol, PMID 35002930PXD029278 Andrew Frando, Vishant Boradia, Marina Gritsenko, Michael-Claude Beltejar, Le Day, David R. Sherman, Shuyi Ma, Jon M. Jacobs, Christoph Grundner. The Mycobacterium tuberculosis protein O-phosphorylation landscape. bioRxiv. Epub 2022 Feb 17. doi: https://d (from MassIVE) Dataset title: The Mycobacterium tuberculosis O-phosphorylation landscape Possible reference: Frando, A. et al. (2023) The Mycobacterium tuberculosis protein O-phosphorylation landscape., Nat Microbiol, PMID 36690861PXD029270 Dataset with its publication pending (from PRIDE) Dataset title: Cysteine 253 of UCP1 regulates energy expenditure and adipose tissue inflammation Possible reference: Mills, EL. et al. (2022) Cysteine 253 of UCP1 regulates energy expenditure and sex-dependent adipose tissue inflammation., Cell Metab, PMID 34861155PXD029269 Dataset with its publication pending (from PRIDE) Dataset title: Boost-DiLeu: Enhanced Isobaric N,N-Dimethyl Leucine Tagging Strategy for Comprehensive Quantitative Glycoproteomic Analysis Possible reference: Wang, D. et al. (2022) Boost-DiLeu: Enhanced Isobaric N,N-Dimethyl Leucine Tagging Strategy for a Comprehensive Quantitative Glycoproteomic Analysis., Anal Chem, PMID 35960654PXD029227 Dataset with its publication pending (from PRIDE) Dataset title: Characterising the RNA-binding protein atlas of the mammalian brain uncovers RBM5 misregulation in mouse models of Huntington’s disease Possible reference: Mullari, M. et al. (2023) Characterising the RNA-binding protein atlas of the mammalian brain uncovers RBM5 misregulation in mouse models of Huntington's disease., Nat Commun, PMID 37468457PXD029226 Dataset with its publication pending (from PRIDE) Dataset title: Liver mitochondria-associated ER membrane proteomics for studying the effects of ZiBuPiYin recipe on Zucker diabetic fatty rats after chronic psychological stress Possible reference: Xu, H. et al. (2022) Liver mitochondria-associated endoplasmic reticulum membrane proteomics for studying the effects of ZiBuPiYin recipe on Zucker diabetic fatty rats after chronic psychological stress., Front Cell Dev Biol, PMID 36407109PXD029205 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic dataset of the moss Physcomitrium patens SMG1 KO mutant line Possible reference: Mamaeva, A. et al. (2022) Quantitative proteomic dataset of the moss Physcomitrium patens SMG1 KO mutant line., Data Brief, PMID 34977295PXD029202 Dataset with its publication pending (from PRIDE) Dataset title: Using Quantitative Proteomic Assessments and their Association with Long Term Healing Outcomes Possible reference: Chen, J. et al. (2022) Complement factor D as a predictor of Achilles tendon healing and long-term patient outcomes., FASEB J, PMID 35596679PXD029193 Dataset with its publication pending (from PRIDE) Dataset title: Identification of antimicrobial peptides isolated from the skin mucus of African Catfish, Clarias gariepinus (Burchell, 1822) Possible reference: Okella, H. et al. (2021) Identification of Antimicrobial Peptides Isolated From the Skin Mucus of African Catfish, Clarias gariepinus (Burchell, 1822)., Front Microbiol, PMID 34987491PXD029170 no publication (from MassIVE) Dataset title: Site-specific characterization of heat-induced disulfide rearrangement in beta-lactoglobulin by liquid chromatography-mass spectrometry Possible reference: Li, C. et al. (2022) Site-Specific Characterization of Heat-Induced Disulfide Rearrangement in Beta-Lactoglobulin by Liquid Chromatography-Mass Spectrometry., J Agric Food Chem, PMID 35025507PXD029169 Dataset with its publication pending (from jPOST) Dataset title: Reversible flower opening regulated by CPK16-dependent phosphorylation and activation of aquaporin PIP2;2 in Gentiana Possible reference: Nemoto, K. et al. (2022) Calcium-dependent protein kinase 16 phosphorylates and activates the aquaporin PIP2;2 to regulate reversible flower opening in Gentiana scabra., Plant Cell, PMID 35441691PXD029163 Dataset with its publication pending (from PRIDE) Dataset title: SPHINGOSINE 1-PHOSPHATE MEDIATES ADIPONECTIN RECEPTOR SIGNALING ESSENTIAL FOR LIPID HOMEOSTASIS AND EMBRYOGENESIS Possible reference: Ruiz, M. et al. (2022) Sphingosine 1-phosphate mediates adiponectin receptor signaling essential for lipid homeostasis and embryogenesis., Nat Commun, PMID 36418331PXD029156 Dataset with its publication pending (from PRIDE) Dataset title: CLUH controls astrin-1 expression to couple mitochondrial metabolism to cell cycle progression Possible reference: Schatton, D. et al. (2022) CLUH controls astrin-1 expression to couple mitochondrial metabolism to cell cycle progression., Elife, PMID 35559794PXD029152 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Trichomonas vaginalis phagolysosomes, lysosomal targeting, and unconventional secretion of cysteine peptidases Possible reference: Zimmann, N. et al. (2022) Proteomic Analysis of Trichomonas vaginalis Phagolysosome, Lysosomal Targeting, and Unconventional Secretion of Cysteine Peptidases., Mol Cell Proteomics, PMID 34763061PXD029145 Dataset with its publication pending (from PRIDE) Dataset title: CLUH controls astrin-1 expression to couple mitochondrial metabolism to cell cycle progression Possible reference: Schatton, D. et al. (2022) CLUH controls astrin-1 expression to couple mitochondrial metabolism to cell cycle progression., Elife, PMID 35559794PXD029144 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics and immunoproteomics of Anoplocephala perfoliata Possible reference: Hautala, K. et al. (2022) Label-free quantitative proteomics and immunoblotting identifies immunoreactive and other excretory-secretory (E/S) proteins of Anoplocephala perfoliata., Front Immunol, PMID 36466892PXD029143 Dataset with its publication pending (from PRIDE) Dataset title: Noninvasive Nasopharyngeal Proteomics Identify Coagulation Abnormalities in SARS-CoV-2 Possible reference: Ayass, MA. et al. (2022) Noninvasive nasopharyngeal proteomics of COVID-19 patient identify abnormalities related to complement and coagulation cascade and mucosal immune system., PLoS One, PMID 36094909PXD029142 Dataset with its publication pending (from PRIDE) Dataset title: CLUH controls astrin-1 expression to couple mitochondrial metabolism to cell cycle progression Possible reference: Schatton, D. et al. (2022) CLUH controls astrin-1 expression to couple mitochondrial metabolism to cell cycle progression., Elife, PMID 35559794PXD029140 Dataset with its publication pending (from PRIDE) Dataset title: Impacts of resistance gene knock-outs on the proteome Possible reference: Ding, J. et al. (2013) Mouse models of growth hormone action and aging: a proteomic perspective., Proteomics, PMID 23019135PXD029136 Dataset with its publication pending (from PRIDE) Dataset title: Role of the E3 Ubiquitin-ligase Hakai in intestinal inflammation and cancer bowel disease Possible reference: Roca-Lema, D. et al. (2022) Role of the E3 ubiquitin-ligase Hakai in intestinal inflammation and cancer bowel disease., Sci Rep, PMID 36266428PXD029131 Dataset with its publication pending (from PRIDE) Dataset title: MS to detect peptides of human HCT116 cell lysate immunoprecipitated by anti-miPEP31 Possible reference: Labots, M. et al. (2017) Phosphotyrosine-based-phosphoproteomics scaled-down to biopsy level for analysis of individual tumor biology and treatment selection., J Proteomics, PMID 28442448PXD029130 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic analysis for revealing the advantage mechanisms of Salt-tolerant tomato (Solanum lycopersicum) Possible reference: Wang, Q. et al. (2022) Comparative proteomic analysis for revealing the advantage mechanisms of salt-tolerant tomato (Solanum lycoperscium)., PeerJ, PMID 35251781PXD029124 no publication (from MassIVE) Dataset title: Dietary relevant concentrations of BDE-47, -99, -209 and their mixture differently affect HepG2 transcriptomic and proteomic profiles. Possible reference: Casella, M. et al. (2022) BDE-47, -99, -209 and Their Ternary Mixture Disrupt Glucose and Lipid Metabolism of Hepg2 Cells at Dietary Relevant Concentrations: Mechanistic Insight through Integrated Transcriptomics and Proteomics Analysis., Int J Mol Sci, PMID 36430946PXD029120 Dataset with its publication pending (from PRIDE) Dataset title: G3BP1 inhibits Cul3SPOP to amplify AR signaling and promote prostate cancer Possible reference: Mukhopadhyay, C. et al. (2021) G3BP1 inhibits Cul3SPOP to amplify AR signaling and promote prostate cancer., Nat Commun, PMID 34795264PXD029105 Dataset with its publication pending (from PRIDE) Dataset title: Identification of new amniotic fluid prognostic biomarkers of congenital cytomegalovirus infection severity Possible reference: Desveaux, C. et al. (2016) Identification of Symptomatic Fetuses Infected with Cytomegalovirus Using Amniotic Fluid Peptide Biomarkers., PLoS Pathog, PMID 26808779PXD029080 Dataset with its publication pending (from PRIDE) Dataset title: Eggshell-matrix protein proteome for squamates Possible reference: Xie, HX. et al. (2022) The eggshell-matrix protein gene OC-17 is functionally lost in the viviparous Chinese crocodile lizard., J Evol Biol, PMID 36129910PXD029076 Dataset with its publication pending (from PRIDE) Dataset title: Antioxidant, Immunomodulatory and Potential Anticancer Capacity of Polysaccharides (Glucans) from Euglena gracilis G.A. Klebs Possible reference: Casas-Arrojo, V. et al. (2022) Antioxidant, Immunomodulatory and Potential Anticancer Capacity of Polysaccharides (Glucans) from Euglena gracilis G.A. Klebs., Pharmaceuticals (Basel), PMID 36355551PXD029048 Dataset with its publication pending (from PRIDE) Dataset title: Hydrodynamic conditions affect the proteomic profile of marine biofilms formed by filamentous cyanobacterium Possible reference: Romeu, MJ. et al. (2022) Hydrodynamic conditions affect the proteomic profile of marine biofilms formed by filamentous cyanobacterium., NPJ Biofilms Microbiomes, PMID 36253388PXD029035 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of residues from experimental ceramics Possible reference: Rafalska, KT. et al. (2024) A Comparison of White and Yellow Seminal Plasma Phosphoproteomes Obtained from Turkey (Meleagris gallopavo) Semen., Int J Mol Sci, PMID 39337428PXD029029 Dataset with its publication pending (from PRIDE) Dataset title: Citrullinated epitopes identified on tumor MHC class II by peptide elution stimulate both regulatory and Th1 responses and require careful selection for optimal tumor therapy Possible reference: Symonds, P. et al. (2021) Citrullinated Epitopes Identified on Tumour MHC Class II by Peptide Elution Stimulate Both Regulatory and Th1 Responses and Require Careful Selection for Optimal Anti-Tumour Responses., Front Immunol, PMID 34858415PXD029025 Xiaowei Gao ,Bhagyashree N. Swarge, Henk L. Dekker, Winfried Roseboom, Stanley Brul, and Gertjan Kramer. The Membrane Proteome of Spores and Vegetative Cells of the Food-Borne Pathogen Bacillus cereus. Int. J. Mol. Sci. 2021, 22(22), 12475. (from MassIVE) Dataset title: The membrane proteome of spores and vegetative cells of the food-borne pathogen Bacillus cereus. Possible reference: Gao, X. et al. (2021) The Membrane Proteome of Spores and Vegetative Cells of the Food-Borne Pathogen Bacillus cereus., Int J Mol Sci, PMID 34830357PXD029009 Dataset with its publication pending (from PRIDE) Dataset title: A proteomic survival predictor for COVID-19 patients in intensive care Possible reference: Meizlish, ML. et al. (2020) A neutrophil activation signature predicts critical illness and mortality in COVID-19., medRxiv, PMID 32908988PXD029008 Dataset with its publication pending (from PRIDE) Dataset title: C. elegans TFIIH subunit GTF-2H5/TTDA is a non-essential transcription factor indispensable for DNA repairC. elegans TFIIH subunit GTF-2H5/TTDA is a non-essential transcription factor indispensable for DNA repair. Possible reference: Thijssen, KL. et al. (2021) C. elegans TFIIH subunit GTF-2H5/TTDA is a non-essential transcription factor indispensable for DNA repair., Commun Biol, PMID 34824371PXD029002 no publication (from MassIVE) Dataset title: Cowen_Myers_Chemogenomics_2021 Possible reference: Fu, C. et al. (2021) Leveraging machine learning essentiality predictions and chemogenomic interactions to identify antifungal targets., Nat Commun, PMID 34764269PXD028995 no publication (from MassIVE) Dataset title: Expanding the biological role of lipo-chitooligosaccharides and chitooligosaccharides in Laccaria bicolor growth and development Possible reference: Villalobos Solis, MI. et al. (2022) Expanding the Biological Role of Lipo-Chitooligosaccharides and Chitooligosaccharides in Laccaria bicolor Growth and Development., Front Fungal Biol, PMID 37746234PXD028987 Dataset with its publication pending (from PRIDE) Dataset title: Hypoxia-induced aquaporins and regulation of redox homeostasis by a trans-plasma membrane electron transport system in maize roots Possible reference: Hofmann, A. et al. (2022) Hypoxia-Induced Aquaporins and Regulation of Redox Homeostasis by a Trans-Plasma Membrane Electron Transport System in Maize Roots., Antioxidants (Basel), PMID 35624700PXD028974 Dataset with its publication pending (from PRIDE) Dataset title: A longer isoform of Stim1 is a negative SOCE regulator but increases cAMP modulated NFAT signaling Possible reference: Knapp, ML. et al. (2022) A longer isoform of Stim1 is a negative SOCE regulator but increases cAMP-modulated NFAT signaling., EMBO Rep, PMID 34942054PXD028973 no publication (from MassIVE) Dataset title: The F-box protein Bard (CG14317) targets the Smaug RNA-binding protein for destruction during the Drosophila maternal-to-zygotic transition Possible reference: Cao, WX. et al. (2022) The F-box protein Bard (CG14317) targets the Smaug RNA-binding protein for destruction during the Drosophila maternal-to-zygotic transition., Genetics, PMID 34757425PXD028963 Dataset with its publication pending (from PRIDE) Dataset title: Identification of long-lived proteins in the mitochondria reveals increased stability of the electron transport chain Possible reference: Krishna, S. et al. (2021) Identification of long-lived proteins in the mitochondria reveals increased stability of the electron transport chain., Dev Cell, PMID 34715012PXD028945 Dataset with its publication pending (from PRIDE) Dataset title: GFI1 tethers the NuRD complex to open and transcriptionally active chromatin in myeloid progenitors Possible reference: Helness, A. et al. (2021) GFI1 tethers the NuRD complex to open and transcriptionally active chromatin in myeloid progenitors., Commun Biol, PMID 34857890PXD028940 Dataset with its publication pending (from PRIDE) Dataset title: Connections between exoproteome heterogeneity and virulence in the oral pathogen Aggregatibacter actinomycetemcomitans Possible reference: Fu, Y. et al. (2022) Connections between Exoproteome Heterogeneity and Virulence in the Oral Pathogen Aggregatibacter actinomycetemcomitans., mSystems, PMID 35695491PXD028937 Dataset with its publication pending (from PRIDE) Dataset title: Pfcerli2, a duplicated gene in the malaria parasite Plasmodium falciparum essential for invasion of erythrocytes as revealed by phylogenetic and cell biological analysis. Possible reference: Liffner, B. et al. (2022) Cell biological analysis reveals an essential role for Pfcerli2 in erythrocyte invasion by malaria parasites., Commun Biol, PMID 35140336PXD028933 Dataset with its publication pending (from PRIDE) Dataset title: Competitive binding of E3 ligases TRIM26 and WWP2 controls SOX2 in glioblastoma Possible reference: Mahlokozera, T. et al. (2021) Competitive binding of E3 ligases TRIM26 and WWP2 controls SOX2 in glioblastoma., Nat Commun, PMID 34732716PXD028907 Dataset with its publication pending (from PRIDE) Dataset title: β-1,3-glucan recognition by Acanthamoeba castellanii as a putative mechanism of amoeba-fungal interactions Possible reference: Ferreira, MdS. et al. (2024) β-1,3-Glucan recognition by Acanthamoeba castellanii as a putative mechanism of amoeba-fungal interactions., Appl Environ Microbiol, PMID 38259076PXD028904 Dataset with its publication pending (from PRIDE) Dataset title: New molecular insights into atrial fibrillation due to obscurin Ig58/59 deletion Possible reference: Grogan, A. et al. (2023) Alterations in cytoskeletal and Ca2+ cycling regulators in atria lacking the obscurin Ig58/59 module., Front Cardiovasc Med, PMID 37304957PXD028901 Dataset with its publication pending (from PRIDE) Dataset title: MSLibrarian: Optimized predicted spectral libraries for DIA proteomics Possible reference: Isaksson, M. et al. (2022) MSLibrarian: Optimized Predicted Spectral Libraries for Data-Independent Acquisition Proteomics., J Proteome Res, PMID 35042333PXD028898 Dataset with its publication pending (from PRIDE) Dataset title: Multi-omics analysis of microglial extracellular vesicles from human Alzheimer’s Disease brain reveals disease-associated signatures Possible reference: Cohn, W. et al. (2021) Multi-Omics Analysis of Microglial Extracellular Vesicles From Human Alzheimer's Disease Brain Tissue Reveals Disease-Associated Signatures., Front Pharmacol, PMID 34925024PXD028886 Dataset with its publication pending (from PRIDE) Dataset title: Paeonia lactiflora extract increase the muscle function via downregulation of high mobility group box 1 and NF-kB signaling in mdx mice, an animal model of Duchenne muscular dystrophy Possible reference: Sim, I. et al. (2022) Paeonia lactiflora extract improves the muscle function of mdx mice, an animal model of Duchenne muscular dystrophy, via downregulating the high mobility group box 1 protein., J Ethnopharmacol, PMID 35149132PXD028880 Dataset with its publication pending (from PRIDE) Dataset title: Extending the range of SLIM-labeling applications: from human cell lines in culture to Caenorhabditis elegans whole-organism labeling Possible reference: Lignieres, L. et al. (2023) Extending the Range of SLIM-Labeling Applications: From Human Cell Lines in Culture to Caenorhabditis elegans Whole-Organism Labeling., J Proteome Res, PMID 36748112PXD028864 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative structural proteomics unveils the conformational changes of proteins under ER stress Possible reference: Yin, K. et al. (2022) Quantitative Structural Proteomics Unveils the Conformational Changes of Proteins under the Endoplasmic Reticulum Stress., Anal Chem, PMID 36108266PXD028849 Dataset with its publication pending (from PRIDE) Dataset title: Shotgun proteomic profiling of dormant, 'non-culturable' Mycobacterium tuberculosis Possible reference: Nikitushkin, V. et al. (2022) Shotgun proteomic profiling of dormant, 'non-culturable' Mycobacterium tuberculosis., PLoS One, PMID 35944020PXD028833 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of the wood decay fungus Fomitopsis pinicola is altered by substrate Possible reference: Sabat, G. et al. (2022) Proteome of the Wood Decay Fungus Fomitopsis pinicola Is Altered by Substrate., Microbiol Resour Announc, PMID 35969048PXD028825 Dataset with its publication pending (from PRIDE) Dataset title: Citrullination of glucokinase is linked to autoimmune diabetes Possible reference: Yang, ML. et al. (2022) Citrullination of glucokinase is linked to autoimmune diabetes., Nat Commun, PMID 35388005PXD028824 Dataset with its publication pending (from PRIDE) Dataset title: DOT1L regulates pericentromeric heterochromatin Possible reference: Ooga, M. et al. (2013) Involvement of DOT1L in the remodeling of heterochromatin configuration during early preimplantation development in mice., Biol Reprod, PMID 24132959PXD028804 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic identification of an endogenous synaptic SUMOylome in the developing rat brain Possible reference: Pronot, M. et al. (2021) Proteomic Identification of an Endogenous Synaptic SUMOylome in the Developing Rat Brain., Front Mol Neurosci, PMID 34887727PXD028787 Dataset with its publication pending (from PRIDE) Dataset title: A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation [RBP screening THP-1 cells] Possible reference: Ren, Y. et al. (2021) A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation., Genome Biol, PMID 34649616PXD028747 Dataset with its publication pending (from jPOST) Dataset title: Proteomic response of Pediococcus pentosaceus M41 under different environmental stresses Possible reference: Baig, MA. et al. (2021) Potential Probiotic Pediococcus pentosaceus M41 Modulates Its Proteome Differentially for Tolerances Against Heat, Cold, Acid, and Bile Stresses., Front Microbiol, PMID 34721329PXD028736 Dataset with its publication pending (from PRIDE) Dataset title: Solvent Precipitation SP3 (SP4) enhances recovery for proteomics sample preparation without magnetic beads Possible reference: Johnston, HE. et al. (2022) Solvent Precipitation SP3 (SP4) Enhances Recovery for Proteomics Sample Preparation without Magnetic Beads., Anal Chem, PMID 35848328PXD028729 Dataset with its publication pending (from iProX) Dataset title: Species authentication of Pheretima Possible reference: Sun, J. et al. (2019) Chromatographic Fingerprint and Quantitative Analysis of Commercial Pheretima aspergillum (Guang Dilong) and Its Adulterants by UPLC-DAD., Int J Anal Chem, PMID 30728838PXD028727 Dataset with its publication pending (from iProX) Dataset title: Deciphering the molecular mechanism of long non-coding RNA HIFA-AS1 regulating pancreatic cancer cells Possible reference: Saraswat, SK. et al. (2024) Deciphering the oncogenic landscape: Unveiling the molecular machinery and clinical significance of LncRNA TMPO-AS1 in human cancers., Pathol Res Pract, PMID 38330619PXD028713 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic and phosphoproteomic of C2C12 myogenesis and MAPK inhibition Possible reference: Lee, H. et al. (2017) A Phosphoproteomic Screen Identifies a Guanine Nucleotide Exchange Factor for Rab3A Protein as a Mitogen-activated Protein (MAP) Kinase Phosphatase-5-regulated MAP Kinase Target in Interleukin 6 (IL-6) Secretion and Myogenesis., J Biol Chem, PMID 28096466PXD028711 Dataset with its publication pending (from iProX) Dataset title: Versican Promotes Cardiomyocyte Proliferation and Heart Regeneration Possible reference: Feng, J. et al. (2024) Versican Promotes Cardiomyocyte Proliferation and Cardiac Repair., Circulation, PMID 37886839PXD028709 Dataset with its publication pending (from PRIDE) Dataset title: Mapping the Melanoma Plasma Proteome (MPP) using Single-Shot Proteomics and Custom Protein Databases Possible reference: Almeida, N. et al. (2021) Mapping the Melanoma Plasma Proteome (MPP) Using Single-Shot Proteomics Interfaced with the WiMT Database., Cancers (Basel), PMID 34944842PXD028704 Dataset with its publication pending (from PRIDE) Dataset title: Master mitotic kinases regulate viral genome delivery during papillomavirus cell entry Possible reference: Rizzato, M. et al. (2023) Master mitotic kinases regulate viral genome delivery during papillomavirus cell entry., Nat Commun, PMID 36683055PXD028698 Dataset with its publication pending (from PRIDE) Dataset title: Regulation of Plant Phototropic Growth by NPH3/RPT2-like Substrate Phosphorylation and 14-3-3 Binding Possible reference: Sullivan, S. et al. (2021) Regulation of plant phototropic growth by NPH3/RPT2-like substrate phosphorylation and 14-3-3 binding., Nat Commun, PMID 34675214PXD028694 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-wide screening for mitogen-activated protein kinase docking motifs and interactors Possible reference: Shi, G. et al. (2023) Proteome-wide screening for mitogen-activated protein kinase docking motifs and interactors., Sci Signal, PMID 36626580PXD028680 Dataset with its publication pending (from PRIDE) Dataset title: A20 and ABIN-1 cooperate in balancing CBM complex-triggered NF-kB signaling in activated T cells Possible reference: Yin, H. et al. (2022) A20 and ABIN-1 cooperate in balancing CBM complex-triggered NF-κB signaling in activated T cells., Cell Mol Life Sci, PMID 35099607PXD028668 Dataset with its publication pending (from PRIDE) Dataset title: A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation [RBP screening K562 cells] Possible reference: Ren, Y. et al. (2021) A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation., Genome Biol, PMID 34649616PXD028666 Dataset with its publication pending (from PRIDE) Dataset title: Elucidation of the translation initiation factor interaction network of Haloferax volcanii reveals coupling of transcription and translation in haloarchaea Possible reference: Schramm, F. et al. (2021) Elucidation of the Translation Initiation Factor Interaction Network of Haloferax volcanii Reveals Coupling of Transcription and Translation in Haloarchaea., Front Microbiol, PMID 34764944PXD028665 Dataset with its publication pending (from PRIDE) Dataset title: FLI1 and FRA1 transcription factors drive the transcriptional regulatory networks characterizing muscle invasive bladder cancer Possible reference: Guneri-Sozeri, PY. et al. (2023) FLI1 and FRA1 transcription factors drive the transcriptional regulatory networks characterizing muscle invasive bladder cancer., Commun Biol, PMID 36805539PXD028660 Dataset with its publication pending (from PRIDE) Dataset title: A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation [RBP screening 293T cells] Possible reference: Ren, Y. et al. (2021) A global screening identifies chromatin-enriched RNA-binding proteins and the transcriptional regulatory activity of QKI5 during monocytic differentiation., Genome Biol, PMID 34649616PXD028656 Dataset with its publication pending (from PRIDE) Dataset title: Mutant glucocerebrosidase impairs ï¡-synuclein degradation by blockade of chaperone-mediated autophagy Possible reference: Kuo, SH. et al. (2022) Mutant glucocerebrosidase impairs α-synuclein degradation by blockade of chaperone-mediated autophagy., Sci Adv, PMID 35138901PXD028640 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive Phosphoproteomic Analysis of Nostoc flagelliforme in Response to Dehydration Provides Insights into Plant ROS Signaling Transduction Possible reference: Liang, W. et al. (2021) Comprehensive Phosphoproteomic Analysis of Nostoc flagelliforme in Response to Dehydration Provides Insights into Plant ROS Signaling Transduction., ACS Omega, PMID 34095650PXD028629 no publication (from MassIVE) Dataset title: Northern elephant seal skeletal muscle, blubber, and plasma proteome responses to prolonged fasting Possible reference: Khudyakov, JI. et al. (2022) Changes in apolipoprotein abundance dominate proteome responses to prolonged fasting in elephant seals., J Exp Biol, PMID 35188212PXD028628 no publication (from MassIVE) Dataset title: GBS S protein Supernatant Proteomics Possible reference: Papasergi, S. et al. (2013) Analysis of the Streptococcus agalactiae exoproteome., J Proteomics, PMID 23770297PXD028621 Dataset with its publication pending (from jPOST) Dataset title: Protein lactylation induced by neural excitation Possible reference: Hagihara, H. et al. (2021) Protein lactylation induced by neural excitation., Cell Rep, PMID 34644564PXD028618 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic analysis of HPV(+) oropharyngeal squamous cell carcinoma recurrence Possible reference: Ho, AS. et al. (2022) Comparative Proteomic Analysis of HPV(+) Oropharyngeal Squamous Cell Carcinoma Recurrence., J Proteome Res, PMID 34846153PXD028613 Dataset with its publication pending (from PRIDE) Dataset title: Muc2-dependent microbial colonization of the jejunal mucus layer is diet sensitive and confers resistance to enteric pathogen infection Possible reference: Birchenough, GMH. et al. (2023) Muc2-dependent microbial colonization of the jejunal mucus layer is diet sensitive and confers local resistance to enteric pathogen infection., Cell Rep, PMID 36753416PXD028609 Dataset with its publication pending (from iProX) Dataset title: DRAK2 aggravates nonalcoholic fatty liver disease progression through SRSF6-associated RNA alternative splicing Possible reference: Li, Y. et al. (2021) DRAK2 aggravates nonalcoholic fatty liver disease progression through SRSF6-associated RNA alternative splicing., Cell Metab, PMID 34614409PXD028594 Dataset with its publication pending (from PRIDE) Dataset title: Radiotherapy changes the salivary proteome in head and neck cancer patients: evaluation before, during and after treatment Possible reference: Ventura, TMO. et al. (2021) Is there difference in the comparative and quantitative salivary proteome between stimulated and unstimulated saliva in head and neck cancer patients treated by radiotherapy?, Oral Oncol, PMID 33985911PXD028590 Dataset with its publication pending (from PRIDE) Dataset title: Amphiregulin mediates non-cell-autonomous effect of senescence on reprogramming Possible reference: von Joest, M. et al. (2022) Amphiregulin mediates non-cell-autonomous effect of senescence on reprogramming., Cell Rep, PMID 35830812PXD028583 Dataset with its publication pending (from PRIDE) Dataset title: Frequency of change determines effectiveness of microbial response strategies in sulfidic stream microbiomes Possible reference: Li, S. et al. (2023) Frequency of change determines effectiveness of microbial response strategies., ISME J, PMID 37723339PXD028576 Dataset with its publication pending (from PRIDE) Dataset title: The Arabidopsis mature endosperm promotes seedling cuticle formation via release of sulfated peptides Possible reference: De Giorgi, J. et al. (2021) The Arabidopsis mature endosperm promotes seedling cuticle formation via release of sulfated peptides., Dev Cell, PMID 34706263PXD028561 Dataset with its publication pending (from PRIDE) Dataset title: Glucose dissociates DDX21 dimers to regulate mRNA splicing and promote epidermal differentiation Possible reference: Miao, W. et al. (2023) Glucose dissociates DDX21 dimers to regulate mRNA splicing and tissue differentiation., Cell, PMID 36608661PXD028550 Dataset with its publication pending (from PRIDE) Dataset title: ProMetIS: deep phenotyping of mouse models by proteomics and metabolomics Possible reference: Imbert, A. et al. (2021) ProMetIS, deep phenotyping of mouse models by combined proteomics and metabolomics analysis., Sci Data, PMID 34862403PXD028544 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomics demonstrates altered Metabolism pathways in cotrimoxazole-resistant and amikacin-resistant Klebsiella pneumoniae isolates Possible reference: Shen, C. et al. (2021) Comparative Proteomics Demonstrates Altered Metabolism Pathways in Cotrimoxazole- Resistant and Amikacin-Resistant Klebsiella pneumoniae Isolates., Front Microbiol, PMID 34867912PXD028530 Dataset with its publication pending (from PRIDE) Dataset title: Light-triggered and phosphorylation-dependent 14-3-3 association with NON-PHOTOTROPIC HYPOCOTYL 3 is required for hypocotyl phototropism Possible reference: Reuter, L. et al. (2021) Light-triggered and phosphorylation-dependent 14-3-3 association with NON-PHOTOTROPIC HYPOCOTYL 3 is required for hypocotyl phototropism., Nat Commun, PMID 34675219PXD028526 Dataset with its publication pending (from PRIDE) Dataset title: Metabolic Remodeling during Nitrogen Fixation in Zymomonas Possible reference: Martien, JI. et al. (2021) Metabolic Remodeling during Nitrogen Fixation in Zymomonas mobilis., mSystems, PMID 34783580PXD028524 Dataset with its publication pending (from PRIDE) Dataset title: Drosophila female reproductive glands contribute to mating plug composition and the timing of sperm ejection Possible reference: McDonough-Goldstein, CE. et al. (2022) Drosophila female reproductive glands contribute to mating plug composition and the timing of sperm ejection., Proc Biol Sci, PMID 35105240PXD028523 Dataset with its publication pending (from PRIDE) Dataset title: Cell-surface tethered promiscuous biotinylators enable comparative small-scale surface proteomic analysis of human extracellular vesicles and cells Possible reference: Kirkemo, LL. et al. (2022) Cell-surface tethered promiscuous biotinylators enable comparative small-scale surface proteomic analysis of human extracellular vesicles and cells., Elife, PMID 35257663PXD028522 Dataset with its publication pending (from PRIDE) Dataset title: Molecular architecture of the antiophidic protein DM64 and its binding specificity to myotoxin II from Bothrops asper venom Possible reference: Soares, BS. et al. (2021) Molecular Architecture of the Antiophidic Protein DM64 and its Binding Specificity to Myotoxin II From Bothrops asper Venom., Front Mol Biosci, PMID 35155563PXD028516 Dataset with its publication pending (from PRIDE) Dataset title: importance of MTFP1 for mitochondrial function in the heart Possible reference: Wang, K. et al. (2017) Circular RNA mediates cardiomyocyte death via miRNA-dependent upregulation of MTP18 expression., Cell Death Differ, PMID 28498369PXD028502 Dataset with its publication pending (from PRIDE) Dataset title: Correlative proteomics identify the key roles of stress tolerance strategies in Acinetobacter baumannii in response to polymyxin and macrophages Possible reference: Kho, ZY. et al. (2022) Correlative proteomics identify the key roles of stress tolerance strategies in Acinetobacter baumannii in response to polymyxin and human macrophages., PLoS Pathog, PMID 35231068PXD028494 Dataset with its publication pending (from PRIDE) Dataset title: RNA and phosphoprotein profiles of TP53- and PTEN-knockouts in MCF10A at baseline and responding to DNA damage Possible reference: Lin, C. et al. (2024) RNA and phosphoprotein profiles of TP53- and PTEN-knockouts in MCF10A at baseline and responding to DNA damage., Sci Data, PMID 38177134PXD028484 Dataset with its publication pending (from PRIDE) Dataset title: Drosophila nicotinic acetylcholine receptor subunits and their native interactions with insecticidal peptide toxins Possible reference: Korona, D. et al. (2022) Drosophila nicotinic acetylcholine receptor subunits and their native interactions with insecticidal peptide toxins., Elife, PMID 35575460PXD028481 Dataset with its publication pending (from PRIDE) Dataset title: ZNF384 fusion oncoproteins drive lineage aberrancy in acute leukemia Possible reference: Dickerson, KM. et al. (2022) ZNF384 Fusion Oncoproteins Drive Lineage Aberrancy in Acute Leukemia., Blood Cancer Discov, PMID 35247902PXD028432 Dataset with its publication pending (from PRIDE) Dataset title: Salvi_PNAS_Phosphoproteome_ATRwt-cko Possible reference: Salvi, JS. et al. (2022) ATR activity controls stem cell quiescence via the cyclin F-SCF complex., Proc Natl Acad Sci U S A, PMID 35476521PXD028426 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-Wide Analysis of Lysine 2-Hydroxyisobutyrylation in the Aspergillus niger in Peanuts Possible reference: Xu, M. et al. (2021) Proteome-Wide Analysis of Lysine 2-Hydroxyisobutyrylation in Aspergillus niger in Peanuts., Front Microbiol, PMID 34489910PXD028421 Dataset with its publication pending (from PRIDE) Dataset title: “Identifying the SLC25A46 interactome in transgenic mice: cerebrum” Possible reference: Perivolidi, VI. et al. (2022) Proteomic Identification of the SLC25A46 Interactome in Transgenic Mice Expressing SLC25A46-FLAG., J Proteome Res, PMID 34983179PXD028416 Dataset with its publication pending (from PRIDE) Dataset title: ProMetIS: deep phenotyping of mouse models by proteomics and metabolomics. Possible reference: Imbert, A. et al. (2021) ProMetIS, deep phenotyping of mouse models by combined proteomics and metabolomics analysis., Sci Data, PMID 34862403PXD028405 Dataset with its publication pending (from PRIDE) Dataset title: Profiling 4-thiouridine across E. coli tRNAs Possible reference: Bommisetti, P. et al. (2022) Site-Specific Profiling of 4-Thiouridine Across Transfer RNA Genes in Escherichia coli., ACS Omega, PMID 35155896PXD028398 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive chemical proteomics analyses reveal that the new TRi-1 and TRi-2 compounds are more specific thioredoxin reductase 1 inhibitors than Auranofin Possible reference: Sabatier, P. et al. (2021) Comprehensive chemical proteomics analyses reveal that the new TRi-1 and TRi-2 compounds are more specific thioredoxin reductase 1 inhibitors than auranofin., Redox Biol, PMID 34788728PXD028396 Dataset with its publication pending (from PRIDE) Dataset title: Klebsiella pneumoniae x546,ATCC15380, TMT Possible reference: Wang, X. et al. (2021) Rational Proteomic Analysis of a New Domesticated Klebsiella pneumoniae x546 Producing 1,3-Propanediol., Front Microbiol, PMID 34899654PXD028374 Dataset with its publication pending (from PRIDE) Dataset title: Ets-2 propagates IL-6 trans-signaling mediated osteoclast-like changes in human rheumatoid arthritis synovial fibroblast Possible reference: Singh, AK. et al. (2021) Ets-2 Propagates IL-6 Trans-Signaling Mediated Osteoclast-Like Changes in Human Rheumatoid Arthritis Synovial Fibroblast., Front Immunol, PMID 34795667PXD028358 Dataset with its publication pending (from PRIDE) Dataset title: Proteotoxicity caused by perturbed protein complexes underlies hybrid incompatibility Possible reference: Swamy, KBS. et al. (2022) Proteotoxicity caused by perturbed protein complexes underlies hybrid incompatibility in yeast., Nat Commun, PMID 35906261PXD028351 Dataset with its publication pending (from PRIDE) Dataset title: The Hsp90 cochaperone TTT promotes cotranslational maturation of PIKK kinases prior to complex assembly Possible reference: Toullec, D. et al. (2021) The Hsp90 cochaperone TTT promotes cotranslational maturation of PIKKs prior to complex assembly., Cell Rep, PMID 34686329PXD028328 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Arabidopsis fsd1 mutants in response to methyl viologen Possible reference: Melicher, P. et al. (2022) Arabidopsis Iron Superoxide Dismutase FSD1 Protects Against Methyl Viologen-Induced Oxidative Stress in a Copper-Dependent Manner., Front Plant Sci, PMID 35360337PXD028326 Dataset with its publication pending (from PRIDE) Dataset title: Short poly(A) tails are protected from deadenylation by the LARP1-PABP complex Possible reference: Park, J. et al. (2023) Short poly(A) tails are protected from deadenylation by the LARP1-PABP complex., Nat Struct Mol Biol, PMID 36849640PXD028324 Dataset with its publication pending (from PRIDE) Dataset title: Arginine methylation and ubiquitylation crosstalk controls DNA end-resection and homologous recombination repair Possible reference: Sanchez-Bailon, MP. et al. (2021) Arginine methylation and ubiquitylation crosstalk controls DNA end-resection and homologous recombination repair., Nat Commun, PMID 34728620PXD028276 Dataset with its publication pending (from PRIDE) Dataset title: The interferon-inducible antiviral GTPase MxB promotes capsid disassembly and genome release of herpesviruses Possible reference: Serrero, MC. et al. (2022) The interferon-inducible GTPase MxB promotes capsid disassembly and genome release of herpesviruses., Elife, PMID 35475759PXD028247 Dataset with its publication pending (from PRIDE) Dataset title: AK2 promotes the migration and invasion of lung adenocarcinoma by activating TGF-β/Smad pathway in vitro and in vivo Possible reference: Cai, F. et al. (2021) AK2 Promotes the Migration and Invasion of Lung Adenocarcinoma by Activating TGF-β/Smad Pathway In vitro and In vivo., Front Pharmacol, PMID 34630090PXD028241 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of sulfur-respiring haloarchaea from hypersaline lakes Possible reference: Sorokin, DY. et al. (2017) Discovery of anaerobic lithoheterotrophic haloarchaea, ubiquitous in hypersaline habitats., ISME J, PMID 28106880PXD028240 Dataset with its publication pending (from PRIDE) Dataset title: Regulatory Mechanisms between Pattern- and Effector-Triggered Immunity in Tomato Leaves Revealed by Integrative Proteomic and Phosphoproteomic Analyses Possible reference: Yu, J. et al. (2021) Integrative Proteomic and Phosphoproteomic Analyses of Pattern- and Effector-Triggered Immunity in Tomato., Front Plant Sci, PMID 34925416PXD028235 Dataset with its publication pending (from iProX) Dataset title: The acetylated lysine residues of Pta Possible reference: Kuczyńska-Wiśnik, D. et al. (2016) The effect of protein acetylation on the formation and processing of inclusion bodies and endogenous protein aggregates in Escherichia coli cells., Microb Cell Fact, PMID 27832787PXD028223 Dataset with its publication pending (from iProX) Dataset title: USP9X label-free quantitative proteomics Possible reference: Karim, AF. et al. (2017) Proteomics and Network Analyses Reveal Inhibition of Akt-mTOR Signaling in CD4+ T Cells by Mycobacterium tuberculosis Mannose-Capped Lipoarabinomannan., Proteomics, PMID 28994205PXD028221 Dataset with its publication pending (from jPOST) Dataset title: Phosphoproteomics in LRRK2 mutation carriers Possible reference: Garrido, A. et al. (2022) Differential Phospho-Signatures in Blood Cells Identify LRRK2 G2019S Carriers in Parkinson's Disease., Mov Disord, PMID 35049090PXD028206 Dataset with its publication pending (from jPOST) Dataset title: Enhanced antibacterial effect of a novel Friunavirus phage vWU2001 in combination with colistin against carbapenem-resistant Acinetobacter baumannii Possible reference: Wintachai, P. et al. (2022) Enhanced antibacterial effect of a novel Friunavirus phage vWU2001 in combination with colistin against carbapenem-resistant Acinetobacter baumannii., Sci Rep, PMID 35173237PXD028204 no publication (from MassIVE) Dataset title: Defining the dynamic regulation of O-GlcNAc proteome in the mouse cortex -- The O-GlcNAcylation of synaptic and trafficking proteins related to neurodegenerative diseases Possible reference: Huynh, VN. et al. (2021) Defining the Dynamic Regulation of O-GlcNAc Proteome in the Mouse Cortex---the O-GlcNAcylation of Synaptic and Trafficking Proteins Related to Neurodegenerative Diseases., Front Aging, PMID 35822049PXD028184 no publication (from MassIVE) Dataset title: Pah1 phosphorylation by Rim11 Possible reference: Khondker, S. et al. (2022) Glycogen synthase kinase homolog Rim11 regulates lipid synthesis through the phosphorylation of Pah1 phosphatidate phosphatase in yeast., J Biol Chem, PMID 35780834PXD028150 Dataset with its publication pending (from PRIDE) Dataset title: Interrogating kinase-substrate relationships with proximity labeling and phosphorylation enrichment Possible reference: Zhang, T. et al. (2022) Interrogating Kinase-Substrate Relationships with Proximity Labeling and Phosphorylation Enrichment., J Proteome Res, PMID 35044772PXD028128 Dataset with its publication pending (from PRIDE) Dataset title: Proteome characterization of mitochondria, ER, and mitochondrial-associated membrane from BAT and liver Possible reference: Klionsky, DJ. et al. (2016) Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)., Autophagy, PMID 26799652PXD028117 Dataset with its publication pending (from PRIDE) Dataset title: Low cell number proteomic analysis using in-cell protease digests reveals a robust signature for cell cycle state classification Possible reference: Kelly, V. et al. (2022) Low Cell Number Proteomic Analysis Using In-Cell Protease Digests Reveals a Robust Signature for Cell Cycle State Classification., Mol Cell Proteomics, PMID 34742921PXD028111 Dataset with its publication pending (from PRIDE) Dataset title: Polycomb Repressive Complex 2 Restricts Human Naive Pluripotent Stem Cell to Trophoblast Fate Induction Possible reference: Zijlmans, DW. et al. (2022) Integrated multi-omics reveal polycomb repressive complex 2 restricts human trophoblast induction., Nat Cell Biol, PMID 35697783PXD028082 Dataset with its publication pending (from PRIDE) Dataset title: Bioinformatics and mass spectrometry-based proteomics reveal alcohol dehydrogenase 1B as a blood biomarker candidate to monitor acetaminophen-induced liver injury Possible reference: Pailleux, F. et al. (2021) Mass Spectrometry-Based Proteomics Reveal Alcohol Dehydrogenase 1B as a Blood Biomarker Candidate to Monitor Acetaminophen-Induced Liver Injury., Int J Mol Sci, PMID 34681731PXD028063 Dataset with its publication pending (from PRIDE) Dataset title: Defining proximity proteomics of Histone modifications by antibody-mediated protein A-APEX2 labeling Possible reference: Li, X. et al. (2022) Defining Proximity Proteome of Histone Modifications by Antibody-mediated Protein A-APEX2 Labeling., Genomics Proteomics Bioinformatics, PMID 34555496PXD028055 no publication (from MassIVE) Dataset title: A Multi-omics Method Enabled by Sequential Metabolomics and Proteomics for Human Pluripotent Stem Cell-derived Cardiomyocytes Possible reference: Bayne, EF. et al. (2021) Multiomics Method Enabled by Sequential Metabolomics and Proteomics for Human Pluripotent Stem-Cell-Derived Cardiomyocytes., J Proteome Res, PMID 34499502PXD028049 Dataset with its publication pending (from PRIDE) Dataset title: Unravelling the layering of microbial community, proteins and chemical structure in aerobic granules Possible reference: Cydzik-Kwiatkowska, A. et al. (2022) Unravelling gradient layers of microbial communities, proteins, and chemical structure in aerobic granules., Sci Total Environ, PMID 35276168PXD028040 Dataset with its publication pending (from PRIDE) Dataset title: Patch-Clamp Proteomics of Single Neurons in Tissue Using Electrophysiology and Subcellular Capillary Electrophoresis Mass Spectrometry Possible reference: Choi, SB. et al. (2022) Patch-Clamp Proteomics of Single Neurons in Tissue Using Electrophysiology and Subcellular Capillary Electrophoresis Mass Spectrometry., Anal Chem, PMID 34964611PXD028037 Dataset with its publication pending (from PRIDE) Dataset title: A lysosome-targeted DNA nanodevice selectively targets macrophages to attenuate tumors Possible reference: Cui, C. et al. (2021) A lysosome-targeted DNA nanodevice selectively targets macrophages to attenuate tumours., Nat Nanotechnol, PMID 34764452PXD028030 no publication (from MassIVE) Dataset title: Characterization of covalent bonding of 4-methylcatechol to beta-lactoglobulin and the effect on in vitro protein digestibility Possible reference: Waqar, K. et al. (2022) Covalent bonding of 4-methylcatechol to β-lactoglobulin results in the release of cysteine-4-methylcatechol adducts after in vitro digestion., Food Chem, PMID 35917780PXD028007 Dataset with its publication pending (from PRIDE) Dataset title: The Proteogenomic Subtypes of Acute Myeloid Leukemia Possible reference: Jayavelu, AK. et al. (2022) The proteogenomic subtypes of acute myeloid leukemia., Cancer Cell, PMID 35245447PXD028002 Dataset with its publication pending (from PRIDE) Dataset title: Mapping protein interactions in the active TOM-TIM23 supercomplex Possible reference: Gomkale, R. et al. (2021) Mapping protein interactions in the active TOM-TIM23 supercomplex., Nat Commun, PMID 34588454PXD027956 no publication (from MassIVE) Dataset title: Peroxynitrite in tumor microenvironment change the profile of peptide epitopes on tumor cells allowing their escape from cancer immunotherapy Possible reference: Tcyganov, EN. et al. (2022) Peroxynitrite in the tumor microenvironment changes the profile of antigens allowing escape from cancer immunotherapy., Cancer Cell, PMID 36220073PXD027946 Dataset with its publication pending (from PRIDE) Dataset title: Identification of ubiquitin binding protein using TurboID analysis Possible reference: Schmitt, K. et al. (2021) A Multi-Perspective Proximity View on the Dynamic Head Region of the Ribosomal 40S Subunit., Int J Mol Sci, PMID 34769086PXD027940 Dataset with its publication pending (from PRIDE) Dataset title: Tomato trifoliate mutant proteome Possible reference: Tyagi, K. et al. (2022) Seeing the unseen: a trifoliate (MYB117) mutant allele fortifies folate and carotenoids in tomato fruits., Plant J, PMID 35899408PXD027935 Dataset with its publication pending (from PRIDE) Dataset title: A nuclear role for the Argonaute protein AGO2 in mammalian gametogenesis Possible reference: Griffin, KN. et al. (2022) Widespread association of the Argonaute protein AGO2 with meiotic chromatin suggests a distinct nuclear function in mammalian male reproduction., Genome Res, PMID 36109149PXD027917 Dataset with its publication pending (from PRIDE) Dataset title: A proximity interactome map of the VAC14-FIG4 complex using BioID Possible reference: Qiu, S. et al. (2021) Proximity Interactome Map of the Vac14-Fig4 Complex Using BioID., J Proteome Res, PMID 34554760PXD027891 Dataset with its publication pending (from PRIDE) Dataset title: pH dependence of succinimide ester-based protein cross-linking for structural mass spectrometry applications Possible reference: Trabjerg, E. et al. (2022) pH Dependence of Succinimide-Ester-Based Protein Cross-Linking for Structural Mass Spectrometry Applications., ACS Meas Sci Au, PMID 36785722PXD027856 Dataset with its publication pending (from PRIDE) Dataset title: Calcineurin increases expression of aldosterone synthase via dephosphorylation of NFATc4 Possible reference: Berber, M. et al. (2023) Calcineurin regulates aldosterone production via dephosphorylation of NFATC4., JCI Insight, PMID 37310791PXD027853 no publication (from MassIVE) Dataset title: Triazine pyridine Chemistry for Protein Labelling on Tyrosine. Possible reference: Li, T. et al. (2016) First-in-human, open-label dose-escalation and dose-expansion study of the safety, pharmacokinetics, and antitumor effects of an oral ALK inhibitor ASP3026 in patients with advanced solid tumors., J Hematol Oncol, PMID 26966027PXD027851 no publication (from MassIVE) Dataset title: Triazine Pyridine Chemistry for Protein Labelling on Tyrosine Possible reference: Li, T. et al. (2016) First-in-human, open-label dose-escalation and dose-expansion study of the safety, pharmacokinetics, and antitumor effects of an oral ALK inhibitor ASP3026 in patients with advanced solid tumors., J Hematol Oncol, PMID 26966027PXD027847 Dataset with its publication pending (from PRIDE) Dataset title: Lentil and fava bean with contrasting germination kinetics: a focus on digestion of proteins and bioactivity of resistant peptides Possible reference: Bautista-Expsito, S. et al. (2021) Lentil and Fava Bean With Contrasting Germination Kinetics: A Focus on Digestion of Proteins and Bioactivity of Resistant Peptides., Front Plant Sci, PMID 34759946PXD027842 Dataset with its publication pending (from iProX) Dataset title: Platelets Derived Transthyretin Participate in The Development of Sepsis Associated Acute Kidney Possible reference: Lv, D. et al. (2022) Platelets Derived Transthyretin Participate in The Development of Sepsis Associated Acute Kidney Injury by Inducing Oxidative Stress and Apoptosis of Renal Tubular Epithelial Cells., Shock, PMID 35081075PXD027835 Dataset with its publication pending (from PRIDE) Dataset title: Growth Rate Dependent and Nutrient-specific Gene Expression Resource Allocation in Fission Yeast Possible reference: Kleijn, IT. et al. (2022) Growth-rate-dependent and nutrient-specific gene expression resource allocation in fission yeast., Life Sci Alliance, PMID 35228260PXD027821 Dataset with its publication pending (from PRIDE) Dataset title: Interval-based secretomics unravels the time-dependent acute phase response in hepatocyte model systems Possible reference: Knecht, S. et al. (2022) Interval-Based Secretomics Unravels Acute-Phase Response in Hepatocyte Model Systems., Mol Cell Proteomics, PMID 35525403PXD027812 Dataset with its publication pending (from PRIDE) Dataset title: Proteome landscape of schizophrenia in patient-derived cerebral organoids Possible reference: Notaras, M. et al. (2021) The proteomic architecture of schizophrenia iPSC-derived cerebral organoids reveals alterations in GWAS and neuronal development factors., Transl Psychiatry, PMID 34667143PXD027798 Dataset with its publication pending (from iProX) Dataset title: Rack1 is Essential for Corticogenesis by Preventing P21-Dependent Senescence in Neural Stem Cells Possible reference: Zhu, Q. et al. (2021) Rack1 is essential for corticogenesis by preventing p21-dependent senescence in neural stem cells., Cell Rep, PMID 34469723PXD027796 Dataset with its publication pending (from PRIDE) Dataset title: Diel proteomes of field Trichodesmium populations Possible reference: Held, NA. et al. (2022) Dynamic diel proteome and daytime nitrogenase activity supports buoyancy in the cyanobacterium Trichodesmium., Nat Microbiol, PMID 35013592PXD027780 Dataset with its publication pending (from PRIDE) Dataset title: Connecting multiple microenvironment proteomes uncovers the biology in head and neck cancer Possible reference: Busso-Lopes, AF. et al. (2022) Connecting multiple microenvironment proteomes uncovers the biology in head and neck cancer., Nat Commun, PMID 36344512PXD027757 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial interactome quantitation reveals structural changes in metabolic machinery in failing murine heart Possible reference: Caudal, A. et al. (2022) Mitochondrial interactome quantitation reveals structural changes in metabolic machinery in the failing murine heart., Nat Cardiovasc Res, PMID 36405497PXD027749 Dataset with its publication pending (from PRIDE) Dataset title: Peripheral blood CD4+CCR6+ compartment differentiate HIV-1 positive elite controllers from long-term successfully treated individuals Possible reference: Svensson Akusjrvi, S. et al. (2022) Peripheral blood CD4+CCR6+ compartment differentiates HIV-1 infected or seropositive elite controllers from long-term successfully treated individuals., Commun Biol, PMID 35418589PXD027740 Dataset with its publication pending (from PRIDE) Dataset title: Enhancer recruitment of transcription repressors RUNX1 and TLE3 by mis-expressed FOXC1 blocks differentiation in acute myeloid leukemia Possible reference: Simeoni, F. et al. (2021) Enhancer recruitment of transcription repressors RUNX1 and TLE3 by mis-expressed FOXC1 blocks differentiation in acute myeloid leukemia., Cell Rep, PMID 34551306PXD027738 Dataset with its publication pending (from PRIDE) Dataset title: Neprilysins regulate muscle contraction and heart function via cleavage of SERCA-inhibitory micropeptides Possible reference: Schiemann, R. et al. (2022) Neprilysins regulate muscle contraction and heart function via cleavage of SERCA-inhibitory micropeptides., Nat Commun, PMID 35906206PXD027720 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of residues from experimental ceramics Possible reference: Rafalska, KT. et al. (2024) A Comparison of White and Yellow Seminal Plasma Phosphoproteomes Obtained from Turkey (Meleagris gallopavo) Semen., Int J Mol Sci, PMID 39337428PXD027715 Dataset with its publication pending (from PRIDE) Dataset title: Myeloid-derived suppressor cells and tolerogenic dendritic cells are distinctively induced by PI3K and Wnt signaling pathways Possible reference: van Wigcheren, GF. et al. (2023) Myeloid-derived suppressor cells and tolerogenic dendritic cells are distinctively induced by PI3K and Wnt signaling pathways., J Biol Chem, PMID 37739035PXD027713 Dataset with its publication pending (from PRIDE) Dataset title: Ancient proteins resolve controversy over the identity of Genyornis eggshell Possible reference: Demarchi, B. et al. (2022) Ancient proteins resolve controversy over the identity of Genyornis eggshell., Proc Natl Acad Sci U S A, PMID 35609205PXD027688 no publication (from MassIVE) Dataset title: Thiol-Based Functional Mimicry of Phosphorylation of the Two-Component System Response Regulator ArcA Promotes Pathogenesis in Enteric Pathogens Possible reference: Zhou, Y. et al. (2021) Thiol-based functional mimicry of phosphorylation of the two-component system response regulator ArcA promotes pathogenesis in enteric pathogens., Cell Rep, PMID 34936880PXD027687 Dataset with its publication pending (from jPOST) Dataset title: ITS2 sequencing and targeted meta-proteomics of infant gut mycobiome reveal the functional role of Rhodotorula sp. during atopic dermatitis manifestation Possible reference: Mok, K. et al. (2021) ITS2 Sequencing and Targeted Meta-Proteomics of Infant Gut Mycobiome Reveal the Functional Role of Rhodotorula sp. during Atopic Dermatitis Manifestation., J Fungi (Basel), PMID 34575786PXD027680 no publication (from MassIVE) Dataset title: The immunopeptidome of HCT116 cell line Possible reference: Xiang, H. et al. (2022) A Novel Proteogenomic Integration Strategy Expands the Breadth of Neo-Epitope Sources., Cancers (Basel), PMID 35740681PXD027679 Dataset with its publication pending (from jPOST) Dataset title: Sample Size-comparable Spectral Library Enhances Data-Independent Acquisition-based Proteome Coverage of Low-input Cells Possible reference: Siyal, AA. et al. (2021) Sample Size-Comparable Spectral Library Enhances Data-Independent Acquisition-Based Proteome Coverage of Low-Input Cells., Anal Chem, PMID 34904835PXD027677 Dataset with its publication pending (from jPOST) Dataset title: ALK substrate identification and validation Possible reference: Adachi, J. et al. (2022) Systematic identification of ALK substrates by integrated phosphoproteome and interactome analysis., Life Sci Alliance, PMID 35508387PXD027667 Dataset with its publication pending (from PRIDE) Dataset title: Beta-synuclein potentiates synaptic vesicle dopamine uptake and rescues dopaminergic neurons from MPTP-induced death in the absence of other synucleins Possible reference: Ninkina, N. et al. (2021) β-synuclein potentiates synaptic vesicle dopamine uptake and rescues dopaminergic neurons from MPTP-induced death in the absence of other synucleins., J Biol Chem, PMID 34736896PXD027656 Dataset with its publication pending (from PRIDE) Dataset title: Intratumoral magnetic hyperthermia in combination with 5-fluorouracil induces thrombogenic collagen fibers, cellular stress, and immune responses in heterotopic human colon cancer in mice Possible reference: Dabaghi, M. et al. (2021) Iron Oxide Nanoparticles Carrying 5-Fluorouracil in Combination with Magnetic Hyperthermia Induce Thrombogenic Collagen Fibers, Cellular Stress, and Immune Responses in Heterotopic Human Colon Cancer in Mice., Pharmaceutics, PMID 34683917PXD027642 Dataset with its publication pending (from PRIDE) Dataset title: human embryo proteome reprogramming by endometrial extracellular vesicles Possible reference: Rai, A. et al. (2021) Proteomic profiling of human uterine extracellular vesicles reveal dynamic regulation of key players of embryo implantation and fertility during menstrual cycle., Proteomics, PMID 33634576PXD027628 Dataset with its publication pending (from PRIDE) Dataset title: Radiation exposure elicits a neutrophil-driven response in healthy lung tissue that enhances metastatic colonization Possible reference: Nolan, E. et al. (2022) Radiation exposure elicits a neutrophil-driven response in healthy lung tissue that enhances metastatic colonization., Nat Cancer, PMID 35221334PXD027622 Dataset with its publication pending (from PRIDE) Dataset title: “Identifying the SLC25A46 interactome in transgenic mice: Heart" Possible reference: Perivolidi, VI. et al. (2022) Proteomic Identification of the SLC25A46 Interactome in Transgenic Mice Expressing SLC25A46-FLAG., J Proteome Res, PMID 34983179PXD027621 Dataset with its publication pending (from PRIDE) Dataset title: Protective effect and mechanism of kinsenoside on alcoholic liver injury Possible reference: Gao, L. et al. (2021) Kinsenoside Alleviates Alcoholic Liver Injury by Reducing Oxidative Stress, Inhibiting Endoplasmic Reticulum Stress, and Regulating AMPK-Dependent Autophagy., Front Pharmacol, PMID 35115920PXD027614 Dataset with its publication pending (from PRIDE) Dataset title: Global ubiquitylation analysis of mitochondria in primary neurons identifies endogenous Parkin targets following activation of PINK1 Possible reference: Antico, O. et al. (2021) Global ubiquitylation analysis of mitochondria in primary neurons identifies endogenous Parkin targets following activation of PINK1., Sci Adv, PMID 34767452PXD027613 Dataset with its publication pending (from PRIDE) Dataset title: Paleofeces Analysis from Iron Age Hallstatt Salt Miners Possible reference: Maixner, F. et al. (2021) Hallstatt miners consumed blue cheese and beer during the Iron Age and retained a non-Westernized gut microbiome until the Baroque period., Curr Biol, PMID 34648730PXD027609 Dataset with its publication pending (from PRIDE) Dataset title: Low temperature exposure has immediate and lasting effects on the stress tolerance, chemotaxis and proteome of entomopathogenic nematodes Possible reference: Lillis, PE. et al. (2022) Low-temperature exposure has immediate and lasting effects on the stress tolerance, chemotaxis and proteome of entomopathogenic nematodes., Parasitology, PMID 36328953PXD027608 Dataset with its publication pending (from PRIDE) Dataset title: The Effect of Temperature Conditioning (9C and 20C) on the Proteome of Steinernema carpocapsae and Heterorhabditis megidis Infective Juveniles Possible reference: Lillis, PE. et al. (2022) The effect of temperature conditioning (9C and 20C) on the proteome of entomopathogenic nematode infective juveniles., PLoS One, PMID 35390034PXD027605 no publication (from MassIVE) Dataset title: Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Top-Down Mass Spectrometry Possible reference: Roberts, DS. et al. (2021) Structural O-Glycoform Heterogeneity of the SARS-CoV-2 Spike Protein Receptor-Binding Domain Revealed by Native Top-Down Mass Spectrometry., bioRxiv, PMID 33688648PXD027603 Dataset with its publication pending (from PRIDE) Dataset title: “Identifying the SLC25A46 interactome in transgenic mice: Thymus" Possible reference: Perivolidi, VI. et al. (2022) Proteomic Identification of the SLC25A46 Interactome in Transgenic Mice Expressing SLC25A46-FLAG., J Proteome Res, PMID 34983179PXD027599 Dataset with its publication pending (from PRIDE) Dataset title: “Identifying the SLC25A46 interactome in transgenic mice: cerebellum” Possible reference: Perivolidi, VI. et al. (2022) Proteomic Identification of the SLC25A46 Interactome in Transgenic Mice Expressing SLC25A46-FLAG., J Proteome Res, PMID 34983179PXD027588 Dataset with its publication pending (from PRIDE) Dataset title: Deciphering the major metabolic pathways associated with aluminum tolerance in popcorn roots using label-free quantitative proteomics Possible reference: Pinto, VB. et al. (2021) Deciphering the major metabolic pathways associated with aluminum tolerance in popcorn roots using label-free quantitative proteomics., Planta, PMID 34821986PXD027586 Dataset with its publication pending (from PRIDE) Dataset title: Temporal Analysis of Protein Ubiquitylation and Phosphorylation During Parkin-dependent Mitophagy Possible reference: Zittlau, KI. et al. (2022) Temporal Analysis of Protein Ubiquitylation and Phosphorylation During Parkin-Dependent Mitophagy., Mol Cell Proteomics, PMID 34974192PXD027557 Dataset with its publication pending (from iProX) Dataset title: Pulmonary and Renal Long COVID at Two-year Revisit Possible reference: Wang, J. et al. (2024) Pulmonary and renal long COVID at two-year revisit., iScience, PMID 39055942PXD027549 Dataset with its publication pending (from PRIDE) Dataset title: O-GlcNAcylation of fatty acid synthase under nutritional stress as a pro-survival mechanism in cancer cells Possible reference: Wong, YK. et al. (2022) O-GlcNAcylation promotes fatty acid synthase activity under nutritional stress as a pro-survival mechanism in cancer cells., Proteomics, PMID 35083852PXD027544 Dataset with its publication pending (from PRIDE) Dataset title: Sex differences in the role of protein degradation in the amygdala during fear memory formation Possible reference: Farrell, K. et al. (2023) Sex-differences in proteasome-dependent K48-polyubiquitin signaling in the amygdala are developmentally regulated in rats., Biol Sex Differ, PMID 37950270PXD027538 Dataset with its publication pending (from PRIDE) Dataset title: TMT proteomic analysis of thyroid cancer tissue sample Possible reference: Li, J. et al. (2023) Identification of potential diagnostic and prognostic biomarkers for papillary thyroid microcarcinoma (PTMC) based on TMT-labeled LC-MS/MS and machine learning., J Endocrinol Invest, PMID 36418670PXD027534 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of mouse striatal dopamine synaptosomes purified by fluorescence sorting Possible reference: Paget-Blanc, V. et al. (2022) A synaptomic analysis reveals dopamine hub synapses in the mouse striatum., Nat Commun, PMID 35660742PXD027502 Dataset with its publication pending (from PRIDE) Dataset title: : GRAMD1C regulates autophagy initiation and mitochondrial bioenergetics through ER-Mitochondria cholesterol transport Possible reference: Ng, MYW. et al. (2022) The cholesterol transport protein GRAMD1C regulates autophagy initiation and mitochondrial bioenergetics., Nat Commun, PMID 36270994PXD027489 Dataset with its publication pending (from PRIDE) Dataset title: Coupled protein synthesis and ribosome-guided piRNA processing on mRNAs Possible reference: Sun, YH. et al. (2021) Coupled protein synthesis and ribosome-guided piRNA processing on mRNAs., Nat Commun, PMID 34645830PXD027481 Dataset with its publication pending (from PRIDE) Dataset title: Coccolith Vesicle Proteins from Emiliania huxleyi Possible reference: Nam, O. et al. (2019) De novo transcriptome profile of coccolithophorid alga Emiliania huxleyi CCMP371 at different calcium concentrations with proteome analysis., PLoS One, PMID 31465514PXD027476 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics reveals the selectivity of ubiquitin-binding autophagy receptors in the turnover of damaged lysosomes by lysophagy Possible reference: Eapen, VV. et al. (2021) Quantitative proteomics reveals the selectivity of ubiquitin-binding autophagy receptors in the turnover of damaged lysosomes by lysophagy., Elife, PMID 34585663PXD027466 Dataset with its publication pending (from PRIDE) Dataset title: Inward outward signaling in ovarian cancer: morpho-proteomics/phosphoproteomics profiling upon hypoxia and shear stress characterizes the adaptive potential of OVCAR-3 and SKOV-3 cells Possible reference: Bileck, A. et al. (2021) Inward Outward Signaling in Ovarian Cancer: Morpho-Phospho-Proteomic Profiling Upon Application of Hypoxia and Shear Stress Characterizes the Adaptive Plasticity of OVCAR-3 and SKOV-3 Cells., Front Oncol, PMID 35251951PXD027456 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Characterization of Post-Mortem Human Brain Tissue Following Ultracentrifugation-based Subcellular Fractionation Possible reference: Kandigian, SE. et al. (2022) Proteomic characterization of post-mortem human brain tissue following ultracentrifugation-based subcellular fractionation., Brain Commun, PMID 35611312PXD027452 Dataset with its publication pending (from PRIDE) Dataset title: Annexin A1 is a polarity cue that directs planar mitotic spindle orientation during mammalian epithelial morphogenesis Possible reference: Fankhaenel, M. et al. (2023) Annexin A1 is a polarity cue that directs mitotic spindle orientation during mammalian epithelial morphogenesis., Nat Commun, PMID 36631478PXD027450 Dataset with its publication pending (from iProX) Dataset title: AKT controls NLRP3 inflammasome Possible reference: Blomgran, R. et al. (2012) Common genetic variations in the NALP3 inflammasome are associated with delayed apoptosis of human neutrophils., PLoS One, PMID 22403613PXD027440 Dataset with its publication pending (from PRIDE) Dataset title: Emiliania huxleyi coccosphere associated proteins identification Possible reference: Walker, CE. et al. (2018) The requirement for calcification differs between ecologically important coccolithophore species., New Phytol, PMID 29916209PXD027425 Dataset with its publication pending (from PRIDE) Dataset title: Data-independent acquisition mass spectrometry for site-specific glycoproteomics characterization of SARS-CoV-2 spike protein Possible reference: Chang, D. et al. (2021) Data-independent acquisition mass spectrometry for site-specific glycoproteomics characterization of SARS-CoV-2 spike protein., Anal Bioanal Chem, PMID 34635934PXD027422 no publication (from MassIVE) Dataset title: Effect of GP130 Antagonism on Microtubule Associated Proteins Possible reference: Prisco, SZ. et al. (2022) Inflammatory Glycoprotein 130 Signaling Links Changes in Microtubules and Junctophilin-2 to Altered Mitochondrial Metabolism and Right Ventricular Contractility., Circ Heart Fail, PMID 34923829PXD027417 Dataset with its publication pending (from PRIDE) Dataset title: Global identification and systematic analysis of lysine malonylation in maize (Zea mays L. Possible reference: Xu, M. et al. (2021) Global Identification and Systematic Analysis of Lysine Malonylation in Maize (Zea mays L.)., Front Plant Sci, PMID 34490025PXD027413 Dataset with its publication pending (from PRIDE) Dataset title: A direct interplay between the co-chaperones Hop and p23 regulates cycle progression and client folding in the Hsp70/Hsp90 chaperone machineries Possible reference: Dahiya, V. et al. (2022) The switch from client holding to folding in the Hsp70/Hsp90 chaperone machineries is regulated by a direct interplay between co-chaperones., Mol Cell, PMID 35176233PXD027410 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics reveals an increase in the abundance of glycolytic and ethanolic fermentation enzymes in developing sugarcane culms during sucrose accumulation Possible reference: Boaretto, LF. et al. (2021) Proteomics Reveals an Increase in the Abundance of Glycolytic and Ethanolic Fermentation Enzymes in Developing Sugarcane Culms During Sucrose Accumulation., Front Plant Sci, PMID 34659289PXD027388 Dataset with its publication pending (from PRIDE) Dataset title: Integrative proteomics and phosphoproteomics reveals phosphorylation networks involved in maintenance and expression of embryogenic competence in sugarcane callus Possible reference: Xavier, LR. et al. (2022) Integrative proteomics and phosphoproteomics reveals phosphorylation networks involved in the maintenance and expression of embryogenic competence in sugarcane callus., J Plant Physiol, PMID 34906795PXD027387 Dataset with its publication pending (from PRIDE) Dataset title: Conserved exchange of paralog proteins during neuronal differentiation Possible reference: Schmidt, S. et al. (2014) Function and regulation of the Rho guanine nucleotide exchange factor Trio., Small GTPases, PMID 24987837PXD027383 Dataset with its publication pending (from PRIDE) Dataset title: A Multiplexed Parallel Reaction Monitoring Assay to monitor bovine Pregnancy-Associated Glycoproteins throughout pregnancy and after gestation Possible reference: Krebs, T. et al. (2022) A multiplexed parallel reaction monitoring assay to monitor bovine pregnancy-associated glycoproteins throughout pregnancy and after gestation., PLoS One, PMID 36149860PXD027377 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of the aggregated proteins from LONP1 knockdown HeLa cells Possible reference: Pollecker, K. et al. (2021) Proteomic analysis demonstrates the role of the quality control protease LONP1 in mitochondrial protein aggregation., J Biol Chem, PMID 34461102PXD027375 Dataset with its publication pending (from jPOST) Dataset title: Quantitative protein profiling of phenobarbital-induced drug metabolizing enzymes in rat liver by liquid chromatography mass spectrometry using FFPE sample Possible reference: Yamauchi, H. et al. (2021) Quantitative protein profiling of phenobarbital-induced drug metabolizing enzymes in rat liver by liquid chromatography mass spectrometry using formalin-fixed paraffin-embedded samples., J Pharmacol Toxicol Methods, PMID 34363961PXD027373 no publication (from MassIVE) Dataset title: Mammalian hybrid pre-autophagosomal structure HyPAS generates autophagosomes Possible reference: Kumar, S. et al. (2021) Mammalian hybrid pre-autophagosomal structure HyPAS generates autophagosomes., Cell, PMID 34741801PXD027372 Dataset with its publication pending (from PanoramaPublic) Dataset title: Loss of DNAJC3 impairs cholesterol metabolism and mitochondrial function Possible reference: Jennings, MJ. et al. (2021) Intracellular Lipid Accumulation and Mitochondrial Dysfunction Accompanies Endoplasmic Reticulum Stress Caused by Loss of the Co-chaperone DNAJC3., Front Cell Dev Biol, PMID 34692675PXD027366 Dataset with its publication pending (from PRIDE) Dataset title: Myxopyronin B inhibits growth of a Fidaxomicin-resistant Clostridioides difficile isolate and interferes with toxin synthesis Possible reference: Brauer, M. et al. (2022) MyxopyroninB inhibits growth of a Fidaxomicin-resistant Clostridioidesdifficile isolate and interferes with toxin synthesis., Gut Pathog, PMID 34991700PXD027365 Dataset with its publication pending (from PRIDE) Dataset title: MPK3/6-induced degradation of ARR1/10/12 promotes salt tolerance in Arabidopsis Possible reference: Yan, Z. et al. (2021) MPK3/6-induced degradation of ARR1/10/12 promotes salt tolerance in Arabidopsis., EMBO Rep, PMID 34402578PXD027360 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Nrf2 knocked down in HT29 Possible reference: Cheraghi, O. et al. (2022) The effect of Nrf2 deletion on the proteomic signature in a human colorectal cancer cell line., BMC Cancer, PMID 36100939PXD027358 Dataset with its publication pending (from PRIDE) Dataset title: A streamlined data analysis pipeline for the identification of sites of citrullination Possible reference: Maurais, AJ. et al. (2021) A Streamlined Data Analysis Pipeline for the Identification of Sites of Citrullination., Biochemistry, PMID 34491035PXD027350 Dataset with its publication pending (from PRIDE) Dataset title: PLCG2 regulates endocannabinoid and eicosanoid networks in innate immune cells Possible reference: Jing, H. et al. (2021) Phospholipase Cγ2 regulates endocannabinoid and eicosanoid networks in innate immune cells., Proc Natl Acad Sci U S A, PMID 34607960PXD027318 Dataset with its publication pending (from PRIDE) Dataset title: Senescence Biomarker Discovery by LC-MS-based Proteomics Possible reference: Lynn, KS. et al. (2019) Vegetable Signatures Derived from Human Urinary Metabolomic Data in Controlled Feeding Studies., J Proteome Res, PMID 30517004PXD027311 no publication (from MassIVE) Dataset title: Drone honey bees are disproportionately sensitive to abiotic stressors relative to workers, despite expressing high levels of stress response proteins Possible reference: McAfee, A. et al. (2022) Drone honey bees are disproportionately sensitive to abiotic stressors despite expressing high levels of stress response proteins., Commun Biol, PMID 35177754PXD027301 Dataset with its publication pending (from PRIDE) Dataset title: A new mass spectral library for high-coverage and reproducible analysis of the Plasmodium falciparum-infected red blood cell proteome Possible reference: Siddiqui, G. et al. (2022) A new mass spectral library for high-coverage and reproducible analysis of the Plasmodium falciparum-infected red blood cell proteome., Gigascience, PMID 35254426PXD027297 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-Level Functional Redundancy in the Human Gut Microbiome Possible reference: Li, L. et al. (2023) Revealing proteome-level functional redundancy in the human gut microbiome using ultra-deep metaproteomics., Nat Commun, PMID 37301875PXD027294 Dataset with its publication pending (from PRIDE) Dataset title: Identification of novel salivary candidate protein biomarkers for tuberculosis diagnosis: a preliminary biomarker discovery study. Possible reference: Mutavhatsindi, H. et al. (2021) Identification of novel salivary candidate protein biomarkers for tuberculosis diagnosis: A preliminary biomarker discovery study., Tuberculosis (Edinb), PMID 34371310PXD027291 Dataset with its publication pending (from jPOST) Dataset title: CXCL5 secreted from macrophages during cold exposure mediates white adipose tissue browning Possible reference: Lee, D. et al. (2021) CXCL5 secreted from macrophages during cold exposure mediates white adipose tissue browning., J Lipid Res, PMID 34537202PXD027283 Dataset with its publication pending (from PRIDE) Dataset title: Identification of molecular machinery mediating ER to lipid droplet protein targeting Possible reference: Song, J. et al. (2022) Identification of two pathways mediating protein targeting from ER to lipid droplets., Nat Cell Biol, PMID 36050470PXD027278 Dataset with its publication pending (from PRIDE) Dataset title: Candida albicans CUG codon translation, comparison with other yeasts Possible reference: Zhou, XL. et al. (2013) Aminoacylation and translational quality control strategy employed by leucyl-tRNA synthetase from a human pathogen with genetic code ambiguity., Nucleic Acids Res, PMID 23969415PXD027265 Dataset with its publication pending (from PRIDE) Dataset title: A universal peptide matrix interactomics approach to disclose motif dependent protein binding Possible reference: Ramberger, E. et al. (2021) A Universal Peptide Matrix Interactomics Approach to Disclose Motif-Dependent Protein Binding., Mol Cell Proteomics, PMID 34391889PXD027250 Dataset with its publication pending (from PRIDE) Dataset title: Identification of potential of new therapeutic approaches for JAK2 V617F mutant patients Possible reference: Pearson, S. et al. (2023) Identification of curaxin as a potential new therapeutic for JAK2 V617F mutant patients., PLoS One, PMID 37253035PXD027241 Dataset with its publication pending (from PRIDE) Dataset title: A new mass spectral library for high-coverage and reproducible analysis of the Plasmodium falciparum-infected red blood cell proteome Possible reference: Siddiqui, G. et al. (2022) A new mass spectral library for high-coverage and reproducible analysis of the Plasmodium falciparum-infected red blood cell proteome., Gigascience, PMID 35254426PXD027229 Dataset with its publication pending (from PRIDE) Dataset title: Characterisation of the free and membrane-associated fractions of the thylakoid lumen proteome in Arabidopsis thaliana Possible reference: Gollan, PJ. et al. (2021) Characterization of the Free and Membrane-Associated Fractions of the Thylakoid Lumen Proteome in Arabidopsis thaliana., Int J Mol Sci, PMID 34360890PXD027205 Dataset with its publication pending (from PRIDE) Dataset title: lysine acetylation and succinylation in Streptomyces coelicolor Possible reference: Zhang, H. et al. (2019) ScCobB2-mediated Lysine Desuccinylation Regulates Protein Biosynthesis and Carbon Metabolism in Streptomyces coelicolor., Mol Cell Proteomics, PMID 31337674PXD027195 Dataset with its publication pending (from PRIDE) Dataset title: Conserved exchange of paralog proteins during neuronal differentiation Possible reference: Schmidt, S. et al. (2014) Function and regulation of the Rho guanine nucleotide exchange factor Trio., Small GTPases, PMID 24987837PXD027191 Dataset with its publication pending (from PRIDE) Dataset title: Conserved exchange of paralog proteins during neuronal differentiation Possible reference: Schmidt, S. et al. (2014) Function and regulation of the Rho guanine nucleotide exchange factor Trio., Small GTPases, PMID 24987837PXD027187 Dataset with its publication pending (from PRIDE) Dataset title: ATR inhibition enables complete tumour regression in ALK-driven NB mouse models Possible reference: Szydzik, J. et al. (2021) ATR inhibition enables complete tumour regression in ALK-driven NB mouse models., Nat Commun, PMID 34819497PXD027156 Dataset with its publication pending (from PRIDE) Dataset title: Cysteamine inhibits glycine utilisation and disrupts virulence in Pseudomonas aeruginosa Possible reference: Fraser-Pitt, DJ. et al. (2021) Cysteamine Inhibits Glycine Utilisation and Disrupts Virulence in Pseudomonas aeruginosa., Front Cell Infect Microbiol, PMID 34631600PXD027148 Dataset with its publication pending (from PRIDE) Dataset title: Impacts of Ser/Thr protein kinase Stk1 on proteome, twitching motility and competitive advantage in Pseudomonas aeruginosaImpacts of Ser/Thr protein kinase Stk1 on proteome, twitching motility and competitive advantage in Pseudomonas aeruginosa Possible reference: Zhu, X. et al. (2021) Impacts of Ser/Thr Protein Kinase Stk1 on the Proteome, Twitching Motility, and Competitive Advantage in Pseudomonas aeruginosa., Front Microbiol, PMID 34733256PXD027134 Dataset with its publication pending (from PanoramaPublic) Dataset title: The addition of FAIMS Increases Targeted Proteomics Sensitivity from FFPE Tumor Biopsies Possible reference: Sweet, S. et al. (2022) The addition of FAIMS increases targeted proteomics sensitivity from FFPE tumor biopsies., Sci Rep, PMID 35974054PXD027121 Dataset with its publication pending (from PRIDE) Dataset title: In vivo structure-function analysis and redox interactomes of Leishmania tarentolae Erv Possible reference: Turra, GL. et al. (2021) In Vivo Structure-Function Analysis and Redox Interactomes of Leishmania tarentolae Erv., Microbiol Spectr, PMID 34585988PXD027118 Dataset with its publication pending (from jPOST) Dataset title: Antibiotic-like Activity of Atomic Layer Boron Nitride for Combating Resistant Bacteria Possible reference: Pan, Y. et al. (2022) Antibiotic-Like Activity of Atomic Layer Boron Nitride for Combating Resistant Bacteria., ACS Nano, PMID 35511445PXD027110 Dataset with its publication pending (from PRIDE) Dataset title: Surfaceome proteomic of glioblastoma revealed potential targets for immunotherapy Possible reference: Rose, M. et al. (2021) Surfaceome Proteomic of Glioblastoma Revealed Potential Targets for Immunotherapy., Front Immunol, PMID 34646273PXD027107 no publication (from MassIVE) Dataset title: Bone collagen from Australian marsupials for ZooMS peptide markers Possible reference: Peters, C. et al. (2021) Species identification of Australian marsupials using collagen fingerprinting., R Soc Open Sci, PMID 34729210PXD027105 Dataset with its publication pending (from PRIDE) Dataset title: Evidence of immune modulators in the secretome of the equine tapeworm Anoplocephala perfoliata Possible reference: Wititkornkul, B. et al. (2021) Evidence of Immune Modulators in the Secretome of the Equine Tapeworm Anoplocephala perfoliata., Pathogens, PMID 34358062PXD027098 Dataset with its publication pending (from PRIDE) Dataset title: Post-translational responses to elevated c-di-GMP levels in Pseudomonas aeruginosa Possible reference: Petrova, OE. et al. (2012) Dispersion by Pseudomonas aeruginosa requires an unusual posttranslational modification of BdlA., Proc Natl Acad Sci U S A, PMID 23012421PXD027081 Dataset with its publication pending (from jPOST) Dataset title: Reference Proteome-Based Characterization of Liver Cancer Possible reference: Sanyal, AJ. et al. (2023) Defining the serum proteomic signature of hepatic steatosis, inflammation, ballooning and fibrosis in non-alcoholic fatty liver disease., J Hepatol, PMID 36528237PXD027080 no publication (from MassIVE) Dataset title: Protein kinase signalling at the Leishmania kinetochore captured by XL-BioID Possible reference: Geoghegan, V. et al. (2022) CLK1/CLK2-driven signalling at the Leishmania kinetochore is captured by spatially referenced proximity phosphoproteomics., Commun Biol, PMID 36437406PXD027060 no publication (from MassIVE) Dataset title: Long-lived mitochondrial cristae proteins in mouse heart and brain Possible reference: Bomba-Warczak, E. et al. (2021) Long-lived mitochondrial cristae proteins in mouse heart and brain., J Cell Biol, PMID 34259807PXD027057 Dataset with its publication pending (from jPOST) Dataset title: Phosphoproteomics of Vicia GCPs treated with ABA Possible reference: Hayashi, Y. et al. (2021) Identification of Abscisic Acid-Dependent Phosphorylated Basic Helix-Loop-Helix Transcription Factors in Guard Cells of Vicia faba by Mass Spectrometry., Front Plant Sci, PMID 34987530PXD027055 Dataset with its publication pending (from PRIDE) Dataset title: Early and late processes driving NET formation, and the autocrine/paracrine role of endogenous RAGE ligands Possible reference: Tatsiy, O. et al. (2021) Early and Late Processes Driving NET Formation, and the Autocrine/Paracrine Role of Endogenous RAGE Ligands., Front Immunol, PMID 34616390PXD027048 no publication (from MassIVE) Dataset title: Optimized liquid and gas phase fractionation increases HLA-peptidome coverage for primary cell and tissue samples Possible reference: Klaeger, S. et al. (2021) Optimized Liquid and Gas Phase Fractionation Increases HLA-Peptidome Coverage for Primary Cell and Tissue Samples., Mol Cell Proteomics, PMID 34391888PXD027038 Dataset with its publication pending (from PRIDE) Dataset title: Colobanthus quitensis differential proteomics Possible reference: Bertini, L. et al. (2021) What Antarctic Plants Can Tell Us about Climate Changes: Temperature as a Driver for Metabolic Reprogramming., Biomolecules, PMID 34439761PXD027030 Dataset with its publication pending (from PRIDE) Dataset title: Time-series transcriptomics and proteomics reveal alternative modes to decode p53 oscillations Possible reference: Jimnez, A. et al. (2022) Time-series transcriptomics and proteomics reveal alternative modes to decode p53 oscillations., Mol Syst Biol, PMID 35285572PXD027026 Dataset with its publication pending (from PRIDE) Dataset title: Two related coactivator complexes SAGA and ATAC control embryonic stem cell self-renewal through two different acetyltransferase-independent mechanisms Possible reference: Fischer, V. et al. (2021) The related coactivator complexes SAGA and ATAC control embryonic stem cell self-renewal through acetyltransferase-independent mechanisms., Cell Rep, PMID 34433046PXD027019 no publication (from MassIVE) Dataset title: Vitamin C differentially impacts the serum proteome profile in female and male mice Possible reference: Aumailley, L. et al. (2021) Vitamin C Differentially Impacts the Serum Proteome Profile in Female and Male Mice., J Proteome Res, PMID 34643398PXD027017 Dataset with its publication pending (from PRIDE) Dataset title: Indentification of CaMKK2-binding proteins in 293T cells Possible reference: Gee, MH. et al. (2018) Antigen Identification for Orphan T Cell Receptors Expressed on Tumor-Infiltrating Lymphocytes., Cell, PMID 29275860PXD027007 Dataset with its publication pending (from PRIDE) Dataset title: Crotonylation of GAPDH regulates human embryonic stem cell endodermal lineage differentiation and metabolic switch Possible reference: Zhang, J. et al. (2023) Crotonylation of GAPDH regulates human embryonic stem cell endodermal lineage differentiation and metabolic switch., Stem Cell Res Ther, PMID 37013624PXD027006 Dataset with its publication pending (from PRIDE) Dataset title: Allotypic variation in antigen processing controls antigenic peptide generation from SARS-CoV‐2 S1 Spike Glycoprotein Possible reference: Stamatakis, G. et al. (2021) Allotypic variation in antigen processing controls antigenic peptide generation from SARS-CoV-2 S1 spike glycoprotein., J Biol Chem, PMID 34688668PXD026998 Dataset with its publication pending (from PRIDE) Dataset title: Pro-inflammatory Beta Cell Small Extracellular Vesicles Induce Beta Cell Failure Through Activation of the CXCL10/CXCR3 Axis in Diabetes Possible reference: Javeed, N. et al. (2021) Pro-inflammatory β cell small extracellular vesicles induce β cell failure through activation of the CXCL10/CXCR3 axis in diabetes., Cell Rep, PMID 34433033PXD026991 Dataset with its publication pending (from PRIDE) Dataset title: SUPT3H-less SAGA coactivator can assemble and function without significantly perturbing RNA polymerase II transcription in mammalian cells Possible reference: Fischer, V. et al. (2022) SUPT3H-less SAGA coactivator can assemble and function without significantly perturbing RNA polymerase II transcription in mammalian cells., Nucleic Acids Res, PMID 35871303PXD026982 Dataset with its publication pending (from PRIDE) Dataset title: Mildly pathogenic Rickettsia-macrophage interactions Possible reference: Curto, P. et al. (2021) Spotted Fever Group Rickettsia Trigger Species-Specific Alterations in Macrophage Proteome Signatures with Different Impacts in Host Innate Inflammatory Responses., Microbiol Spectr, PMID 34935429PXD026978 Dataset with its publication pending (from PRIDE) Dataset title: Sex-specific social behavior and amygdala proteomic deficits in Foxp2+/- mutant mice Possible reference: Herrero, MJ. et al. (2021) Sex-Specific Social Behavior and Amygdala Proteomic Deficits in Foxp2 +/- Mutant Mice., Front Behav Neurosci, PMID 34421555PXD026950 Dataset with its publication pending (from PRIDE) Dataset title: iTRAQ-based quantitative serum proteomic analysis in ischemic stroke patients Possible reference: Sharma, R. et al. (2015) Proteomic Signature of Endothelial Dysfunction Identified in the Serum of Acute Ischemic Stroke Patients by the iTRAQ-Based LC-MS Approach., J Proteome Res, PMID 25807139PXD026930 Dataset with its publication pending (from PRIDE) Dataset title: Impact of Alanyl-tRNA Synthetase Editing Deficiency in Yeast Possible reference: Zhang, H. et al. (2021) Impact of alanyl-tRNA synthetase editing deficiency in yeast., Nucleic Acids Res, PMID 34500470PXD026921 Dataset with its publication pending (from jPOST) Dataset title: Jiang et al 2021 Ism1-his protein mass spec Possible reference: Yi, F. et al. (2021) The deacetylation-phosphorylation regulation of SIRT2-SMC1A axis as a mechanism of antimitotic catastrophe in early tumorigenesis., Sci Adv, PMID 33627431PXD026919 Dataset with its publication pending (from iProX) Dataset title: Corosolic Acid inhibits bladder cancer Possible reference: Cui, A. et al. (2023) Quantitative transcriptomic and proteomic analysis reveals corosolic acid inhibiting bladder cancer via suppressing cell cycle and inducing mitophagy in vitro and in vivo., Toxicol Appl Pharmacol, PMID 37939859PXD026889 Dataset with its publication pending (from PRIDE) Dataset title: The bZIP transcription factor HapX is post-translationally regulated to control iron homeostasis in Aspergillus fumigatus Possible reference: Lpez-Berges, MS. et al. (2021) The bZIP Transcription Factor HapX Is Post-Translationally Regulated to Control Iron Homeostasis in Aspergillus fumigatus., Int J Mol Sci, PMID 34299357PXD026872 Dataset with its publication pending (from PRIDE) Dataset title: A YAP/TAZ-TEAD signaling module links endothelial nutrient acquisition to angiogenic growth Possible reference: Ong, YT. et al. (2022) A YAP/TAZ-TEAD signalling module links endothelial nutrient acquisition to angiogenic growth., Nat Metab, PMID 35726026PXD026859 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of filaggrin insufficient keratinocytes and secreted exosomes. Possible reference: Kobiela, A. et al. (2024) Keratinocyte-derived small extracellular vesicles supply antigens for CD1a-resticted T cells and promote their type 2 bias in the context of filaggrin insufficiency., Front Immunol, PMID 38585273PXD026857 Dataset with its publication pending (from PRIDE) Dataset title: IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy Possible reference: Jacob Berger, A. et al. (2021) IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy., Nat Cancer, PMID 35121883PXD026852 Dataset with its publication pending (from PRIDE) Dataset title: Targeting conserved N-glycosylation eradicates SARS-CoV-2 variants infection Possible reference: Huang, HC. et al. (2021) Targeting conserved N-glycosylation blocks SARS-CoV-2 variant infection in vitro., EBioMedicine, PMID 34839261PXD026846 Dataset with its publication pending (from iProX) Dataset title: N-terminomic Analysis of Mycobacterium tuberculosis H37Rv Possible reference: Shi, J. et al. (2022) Deep N-terminomics of Mycobacterium tuberculosis H37Rv extensively correct annotated encoding genes., Genomics, PMID 34915127PXD026845 no publication (from MassIVE) Dataset title: Protein interaction studies in human induced neurons indicate convergent biology underlying autism spectrum disorders Possible reference: Pintacuda, G. et al. (2023) Protein interaction studies in human induced neurons indicate convergent biology underlying autism spectrum disorders., Cell Genom, PMID 36950384PXD026843 Dataset with its publication pending (from PRIDE) Dataset title: The E3 ubiquitin ligase RNF115 regulates phagosome maturation and host response to infection Possible reference: Bilkei-Gorzo, O. et al. (2022) The E3 ubiquitin ligase RNF115 regulates phagosome maturation and host response to bacterial infection., EMBO J, PMID 36281581PXD026842 Dataset with its publication pending (from PRIDE) Dataset title: IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy Possible reference: Jacob Berger, A. et al. (2021) IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy., Nat Cancer, PMID 35121883PXD026828 Dataset with its publication pending (from PRIDE) Dataset title: Nascent Ribo-Seq measures ribosomal loading time and reveals kinetic impact on ribosome density Possible reference: Schott, J. et al. (2021) Nascent Ribo-Seq measures ribosomal loading time and reveals kinetic impact on ribosome density., Nat Methods, PMID 34480152PXD026824 Dataset with its publication pending (from PRIDE) Dataset title: IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy Possible reference: Jacob Berger, A. et al. (2021) IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy., Nat Cancer, PMID 35121883PXD026821 Dataset with its publication pending (from PRIDE) Dataset title: Integrated liver and plasma proteomics in obese mice reveals complex metabolic and immune regulation Possible reference: Stocks, B. et al. (2022) Integrated Liver and Plasma Proteomics in Obese Mice Reveals Complex Metabolic Regulation., Mol Cell Proteomics, PMID 35093608PXD026810 no publication (from MassIVE) Dataset title: Hemileia_vastatrix_descriptive analysis Possible reference: Cristancho, MA. et al. (2014) Annotation of a hybrid partial genome of the coffee rust (Hemileia vastatrix) contributes to the gene repertoire catalog of the Pucciniales., Front Plant Sci, PMID 25400655PXD026809 no publication (from MassIVE) Dataset title: Ulengin-Talkish_calcineurin_PI4KA_2021 Possible reference: Ulengin-Talkish, I. et al. (2021) Palmitoylation targets the calcineurin phosphatase to the phosphatidylinositol 4-kinase complex at the plasma membrane., Nat Commun, PMID 34663815PXD026805 Dataset with its publication pending (from PRIDE) Dataset title: IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy Possible reference: Jacob Berger, A. et al. (2021) IRS1 phosphorylation underlies the non-stochastic probability of cancer cells to persist during EGFR inhibition therapy., Nat Cancer, PMID 35121883PXD026790 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of mass spectrometry MS/MS spectra for the presence of isopeptide crosslinked peptides Possible reference: Schopfer, LM. et al. (2021) Evaluation of mass spectrometry MS/MS spectra for the presence of isopeptide crosslinked peptides., PLoS One, PMID 34242352PXD026776 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of glioma C6 and astrocytes rat cell lines before and after co-cultivation. Possible reference: Gerhartl, A. et al. (2020) The pivotal role of micro-environmental cells in a human blood-brain barrier in vitro model of cerebral ischemia: functional and transcriptomic analysis., Fluids Barriers CNS, PMID 32138745PXD026773 Dataset with its publication pending (from PRIDE) Dataset title: Integrated analysis of proteomics on rat hearts with aging and hypertension Possible reference: Shay, JW. et al. (2016) Abstracts from the 3rd International Genomic Medicine Conference (3rd IGMC 2015) : Jeddah, Kingdom of Saudi Arabia. 30 November - 3 December 2015., BMC Genomics, PMID 27454254PXD026763 Dataset with its publication pending (from PRIDE) Dataset title: Human MDA-MB-231 breast cancer cells overexpressing miR-183-5p and its isomiRs Possible reference: Telonis, AG. et al. (2015) Beyond the one-locus-one-miRNA paradigm: microRNA isoforms enable deeper insights into breast cancer heterogeneity., Nucleic Acids Res, PMID 26400174PXD026743 Dataset with its publication pending (from PRIDE) Dataset title: A systematic analysis of Trypanosoma brucei chromatin factors identifies novel protein interaction networks associated with sites of transcription initiation and termination Possible reference: Staneva, DP. et al. (2021) A systematic analysis of Trypanosoma brucei chromatin factors identifies novel protein interaction networks associated with sites of transcription initiation and termination., Genome Res, PMID 34407985PXD026730 Dataset with its publication pending (from PRIDE) Dataset title: Global profiling of phosphorylation-dependent changes in cysteine reactivity Possible reference: Kemper, EK. et al. (2022) Global profiling of phosphorylation-dependent changes in cysteine reactivity., Nat Methods, PMID 35228727PXD026725 Dataset with its publication pending (from PRIDE) Dataset title: RNA-bound PGC-1α controls gene expression in liquid-like nuclear condensates Possible reference: Pérez-Schindler, J. et al. (2021) RNA-bound PGC-1α controls gene expression in liquid-like nuclear condensates., Proc Natl Acad Sci U S A, PMID 34465622PXD026724 Dataset with its publication pending (from PRIDE) Dataset title: Cavin3 released from caveolae interacts with BRCA1 to regulate the cellular stress response Possible reference: McMahon, KA. et al. (2021) Cavin3 released from caveolae interacts with BRCA1 to regulate the cellular stress response., Elife, PMID 34142659PXD026715 Dataset with its publication pending (from PRIDE) Dataset title: COPI membrane interactome by ultraID-MS Possible reference: Vonderstein, K. et al. (2018) Viperin Targets Flavivirus Virulence by Inducing Assembly of Noninfectious Capsid Particles., J Virol, PMID 29046456PXD026704 Dataset with its publication pending (from PRIDE) Dataset title: Coating and corruption of human neutrophils by bacterial outer membrane vesicles Possible reference: du Teil Espina, M. et al. (2022) Coating and Corruption of Human Neutrophils by Bacterial Outer Membrane Vesicles., Microbiol Spectr, PMID 36000865PXD026700 no publication (from MassIVE) Dataset title: Growth Rate-Dependent Coordination of Catabolism and Anabolism in the Archaeon Methanococcus maripaludis under Phosphate Limitation Possible reference: Gu, W. et al. (2022) Growth rate-dependent coordination of catabolism and anabolism in the archaeon Methanococcus maripaludis under phosphate limitation., ISME J, PMID 35780255PXD026680 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic and Metabolomic Profiling of Acute and Chronic Stress Events Associated with Military Exercises Possible reference: McKetney, J. et al. (2022) Proteomic and metabolomic profiling of acute and chronic stress events associated with military exercises., Mol Omics, PMID 34860218PXD026674 Dataset with its publication pending (from PRIDE) Dataset title: Arabidopsis MORC proteins function in the efficient establishment of RNA directed DNA methylation Possible reference: Brabbs, TR. et al. (2013) The stochastic silencing phenotype of Arabidopsis morc6 mutants reveals a role in efficient RNA-directed DNA methylation., Plant J, PMID 23675613PXD026671 Dataset with its publication pending (from PRIDE) Dataset title: Integrated transcriptomic and proteomic analysis of Tritipyrum provides insights into the molecular basis of salt tolerance Possible reference: Yang, R. et al. (2021) Integrated transcriptomic and proteomic analysis of Tritipyrum provides insights into the molecular basis of salt tolerance., PeerJ, PMID 35036157PXD026656 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis identified age-associated prognostic biomarkers in pneumonia-derived pediatric sepsis Possible reference: Luo, T. et al. (2022) Proteomic analysis identified potential age-associated prognostic biomarkers in pneumonia-derived paediatric sepsis., Proteomics Clin Appl, PMID 34822739PXD026645 Dataset with its publication pending (from PRIDE) Dataset title: Targeting DDR1 and DDR2 overcomes matrix-mediated melanoma cell adaptation to BRAF-targeted therapy Possible reference: Berestjuk, I. et al. (2022) Targeting Discoidin Domain Receptors DDR1 and DDR2 overcomes matrix-mediated tumor cell adaptation and tolerance to BRAF-targeted therapy in melanoma., EMBO Mol Med, PMID 34957688PXD026633 Dataset with its publication pending (from PRIDE) Dataset title: A small RNA regulatespprM, a modulator of pleiotropic proteins promoting DNA repair, inDeinococcus radioduransunder ionizing radiation Possible reference: Villa, JK. et al. (2021) A small RNA regulates pprM, a modulator of pleiotropic proteins promoting DNA repair, in Deinococcus radiodurans under ionizing radiation., Sci Rep, PMID 34155239PXD026630 Dataset with its publication pending (from PRIDE) Dataset title: Mapping proteome changes in recurrent colon cancer reveals a significant immune system signature Possible reference: Berle, M. et al. (2022) Mapping Proteome Changes in Microsatellite Stable, Recurrent Colon Cancer Reveals a Significant Immune System Signature., Cancer Genomics Proteomics, PMID 35181583PXD026626 no publication (from MassIVE) Dataset title: Pathogenic BRCA1 variants disrupt PLK1-regulation of mitotic spindle orientation and luminal differentiation Possible reference: He, Z. et al. (2022) Pathogenic BRCA1 variants disrupt PLK1-regulation of mitotic spindle orientation., Nat Commun, PMID 35459234PXD026622 Dataset with its publication pending (from PRIDE) Dataset title: The RNA-binding protein RBP42 regulates cellular energy metabolism in mammalian-infective Trypanosoma brucei Possible reference: Das, A. et al. (2023) The RNA-binding protein RBP42 regulates cellular energy metabolism in mammalian-infective Trypanosoma brucei., mSphere, PMID 37581443PXD026620 no publication (from MassIVE) Dataset title: Cardiolipin remodeling enables protein crowding in the inner mitochondrial membrane Possible reference: Xu, Y. et al. (2021) Cardiolipin remodeling enables protein crowding in the inner mitochondrial membrane., EMBO J, PMID 34661298PXD026619 Dataset with its publication pending (from PRIDE) Dataset title: Dynamic character displacement among a pair of bacterial phyllosphere commensals in situ Possible reference: Hemmerle, L. et al. (2022) Dynamic character displacement among a pair of bacterial phyllosphere commensals in situ., Nat Commun, PMID 35595740PXD026605 Dataset with its publication pending (from PRIDE) Dataset title: Listeria monocytogenes utilizes the ClpP1/2 proteolytic machinery for fine-tuned substrate degradation at elevated temperatures Possible reference: Balogh, D. et al. (2022) Listeria monocytogenes utilizes the ClpP1/2 proteolytic machinery for fine-tuned substrate degradation at elevated temperatures., RSC Chem Biol, PMID 35866172PXD026602 Dataset with its publication pending (from iProX) Dataset title: Proteome of Pugionium cornutum Possible reference: Wang, P. et al. (2023) Understanding the response in Pugionium cornutum (L.) Gaertn. seedling leaves under drought stress using transcriptome and proteome integrated analysis., PeerJ, PMID 37033724PXD026599 Dataset with its publication pending (from PRIDE) Dataset title: A phosphoproteomic approach reveals that PKD3 controls PKA-mediated glucose and tyrosine metabolism Possible reference: Loza-Valdes, A. et al. (2021) A phosphoproteomic approach reveals that PKD3 controls PKA-mediated glucose and tyrosine metabolism., Life Sci Alliance, PMID 34145024PXD026572 no publication (from MassIVE) Dataset title: Mouse Intestinal HMGCR complex Possible reference: Zhang, L. et al. (2023) High-Carbohydrate Diet Consumption Poses a More Severe Liver Cholesterol Deposition than a High-Fat and High-Calorie Diet in Mice., Int J Mol Sci, PMID 37834148PXD026570 Dataset with its publication pending (from PRIDE) Dataset title: Extensive Three-Dimensional Intratumor Proteomic Heterogeneity Revealed by Multiregion Sampling in High-Grade Serous Ovarian Tumor Specimens Possible reference: Hunt, AL. et al. (2021) Extensive three-dimensional intratumor proteomic heterogeneity revealed by multiregion sampling in high-grade serous ovarian tumor specimens., iScience, PMID 34278265PXD026541 Dataset with its publication pending (from PRIDE) Dataset title: Chromatin enrichment for Proteomics in Plants (ChEP-P) implicates the histone reader ALFIN-LIKE 6 in Jasmonate signaling Possible reference: Vlez-Bermdez, IC. et al. (2021) Chromatin enrichment for proteomics in plants (ChEP-P) implicates the histone reader ALFIN-LIKE 6 in jasmonate signalling., BMC Genomics, PMID 34809577PXD026539 Dataset with its publication pending (from PRIDE) Dataset title: CDK4/6 inhibition promotes anti-tumor immunity Possible reference: Goel, S. et al. (2017) CDK4/6 inhibition triggers anti-tumour immunity., Nature, PMID 28813415PXD026513 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic study of Desulfovibrio ferrophilus IS5 reveals overexpressed extracellular multi-heme cytochrome associated with severe microbiologically influenced corrosion Possible reference: Chatterjee, M. et al. (2021) Proteomic study of Desulfovibrio ferrophilus IS5 reveals overexpressed extracellular multi-heme cytochrome associated with severe microbiologically influenced corrosion., Sci Rep, PMID 34326431PXD026504 Dataset with its publication pending (from iProX) Dataset title: Proteome of pig uterine luminal fluid Possible reference: He, Y. et al. (2022) iTRAQ-based quantitative proteomic analysis of porcine uterine fluid during pre-implantation period of pregnancy., J Proteomics, PMID 35354084PXD026484 Dataset with its publication pending (from PRIDE) Dataset title: Acute depletion of CTCF rewires genome-wide chromatin accessibility Possible reference: Xu, B. et al. (2021) Acute depletion of CTCF rewires genome-wide chromatin accessibility., Genome Biol, PMID 34429148PXD026467 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of the effect of Bacillus velezensis culture filtrate on the growth and proteome of Cladobotryum mycophilum Possible reference: Clarke, J. et al. (2022) Analysis of the effect of Bacillus velezensis culture filtrate on the growth and proteome of Cladobotryum mycophilum., Fungal Biol, PMID 34930555PXD026465 Dataset with its publication pending (from PRIDE) Dataset title: Inositol signaling in the basidiomycete fungus Schizophyllum commune Possible reference: Murry, R. et al. (2019) Crosstalk between Ras and inositol phosphate signaling revealed by lithium action on inositol monophosphatase in Schizophyllum commune., Adv Biol Regul, PMID 30639095PXD026459 Dataset with its publication pending (from PRIDE) Dataset title: Tryptic peptide imaging of an urothelial cancer tissue cohort Possible reference: Fll, MC. et al. (2022) Moving translational mass spectrometry imaging towards transparent and reproducible data analyses: a case study of an urothelial cancer cohort analyzed in the Galaxy framework., Clin Proteomics, PMID 35439943PXD026450 Dataset with its publication pending (from PRIDE) Dataset title: SARS-CoV-2 spike protein glycosylation enriched by HILIC and Ti-IMAC Possible reference: Huang, J. et al. (2021) Simultaneous enrichment and separation of neutral and sialyl glycopeptides of SARS-CoV-2 spike protein enabled by dual-functionalized Ti-IMAC material., Anal Bioanal Chem, PMID 34155551PXD026424 Dataset with its publication pending (from PRIDE) Dataset title: Mouse 129SV submandibular salivary gland. -Male vs Female- and -Wildtype vs ERdj5 knockout- Possible reference: Moustardas, P. et al. (2021) Deregulation of the Kallikrein Protease Family in the Salivary Glands of the Sjgren's Syndrome ERdj5 Knockout Mouse Model., Front Immunol, PMID 34305928PXD026407 Dataset with its publication pending (from PRIDE) Dataset title: Loss of full-length hnRNP R isoform impairs DNA damage response in motoneurons by inhibiting Yb1 recruitment to chromatin Possible reference: Ghanawi, H. et al. (2021) Loss of full-length hnRNP R isoform impairs DNA damage response in motoneurons by inhibiting Yb1 recruitment to chromatin., Nucleic Acids Res, PMID 34850154PXD026393 no publication (from MassIVE) Dataset title: Photoredox-catalyzed decarboxylative C-terminal differentiation for bulk and single molecule proteomics Possible reference: Zhang, L. et al. (2021) Photoredox-Catalyzed Decarboxylative C-Terminal Differentiation for Bulk- and Single-Molecule Proteomics., ACS Chem Biol, PMID 34734691PXD026378 Dataset with its publication pending (from PRIDE) Dataset title: Variation in upstream open reading frames contributes to allelic diversity in protein abundance Possible reference: Gage, JL. et al. (2022) Variation in upstream open reading frames contributes to allelic diversity in maize protein abundance., Proc Natl Acad Sci U S A, PMID 35349347PXD026373 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-Wide Analysis of Lysine 2-Hydroxyisobutyrylation in the Aspergillus niger in Peanuts Possible reference: Xu, M. et al. (2021) Proteome-Wide Analysis of Lysine 2-Hydroxyisobutyrylation in Aspergillus niger in Peanuts., Front Microbiol, PMID 34489910PXD026367 Dataset with its publication pending (from PRIDE) Dataset title: Structural basis for the specificity of PPM1H phosphatase for Rab GTPases Possible reference: Waschbsch, D. et al. (2021) Structural basis for the specificity of PPM1H phosphatase for Rab GTPases., EMBO Rep, PMID 34580980PXD026356 Dataset with its publication pending (from iProX) Dataset title: Dynamic FMR1 granule phase switch instructed by m6A modification contributes to maternal RNA decay Possible reference: Zhang, G. et al. (2022) Dynamic FMR1 granule phase switch instructed by m6A modification contributes to maternal RNA decay., Nat Commun, PMID 35165263PXD026355 no publication (from MassIVE) Dataset title: Pervasive Translation in Mycobacterium tuberculosis Possible reference: Smith, C. et al. (2022) Pervasive translation in Mycobacterium tuberculosis., Elife, PMID 35343439PXD026354 Dataset with its publication pending (from jPOST) Dataset title: Heart and skeletal muscle of young adult and early aging mice Possible reference: Wei, B. et al. (2015) Dysferlin deficiency blunts β-adrenergic-dependent lusitropic function of mouse heart., J Physiol, PMID 26415898PXD026343 Dataset with its publication pending (from PRIDE) Dataset title: Tensin3 interaction with talin drives formation of fibronectin-associated fibrillar adhesions Possible reference: Atherton, P. et al. (2022) Tensin3 interaction with talin drives the formation of fibronectin-associated fibrillar adhesions., J Cell Biol, PMID 36074065PXD026322 Dataset with its publication pending (from PRIDE) Dataset title: Activated interleukin-7 receptor signaling drives B-cell acute lymphoblastic leukemia in mice Possible reference: Thomas, KR. et al. (2022) Activated interleukin-7 receptor signaling drives B-cell acute lymphoblastic leukemia in mice., Leukemia, PMID 34193976PXD026301 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomics reveal elevated CCN2 in NGLY1 deficient cells Possible reference: Hetz, R. et al. (2022) Comparative proteomics reveals elevated CCN2 in NGLY1-deficient cells., Biochem Biophys Res Commun, PMID 36209585PXD026291 no publication (from MassIVE) Dataset title: Synergistic PIM kinase and proteasome inhibition in MYC-overexpressing triple-negative breast cancer Possible reference: Kunder, R. et al. (2022) Synergistic PIM kinase and proteasome inhibition as a therapeutic strategy for MYC-overexpressing triple-negative breast cancer., Cell Chem Biol, PMID 34525344PXD026289 Dataset with its publication pending (from PRIDE) Dataset title: Sorting nexin-27 regulates AMPA receptor trafficking through the synaptic adhesion protein LRFN2 Possible reference: McMillan, KJ. et al. (2021) Sorting nexin-27 regulates AMPA receptor trafficking through the synaptic adhesion protein LRFN2., Elife, PMID 34251337PXD026288 Dataset with its publication pending (from PRIDE) Dataset title: Tumor temporal proteome profiling reveals the immunological triple offensive induced by synthetic anti-cancer Salmonella Possible reference: Yang, S. et al. (2021) Tumor Temporal Proteome Profiling Reveals the Immunological Triple Offensive Induced by Synthetic Anti-Cancer Salmonella., Front Immunol, PMID 34489962PXD026271 Dataset with its publication pending (from jPOST) Dataset title: Deep proteomics of HEK293 cells by DIA-MS with FAIMS Possible reference: Kawashima, Y. et al. (2022) Single-Shot 10K Proteome Approach: Over 10,000 Protein Identifications by Data-Independent Acquisition-Based Single-Shot Proteomics with Ion Mobility Spectrometry., J Proteome Res, PMID 35522919PXD026263 Dataset with its publication pending (from PRIDE) Dataset title: Multiple regulatory intrinsically disordered motifs control FOXO4 transcription factor binding and function Possible reference: Bourgeois, B. et al. (2021) Multiple regulatory intrinsically disordered motifs control FOXO4 transcription factor binding and function., Cell Rep, PMID 34320339PXD026253 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of the Putative Nucleoporin POM33 in the Filamentous Fungus Sordaria macrospora Possible reference: Groth, A. et al. (2021) Analysis of the Putative Nucleoporin POM33 in the Filamentous Fungus Sordaria macrospora., J Fungi (Basel), PMID 34575720PXD026250 no publication (from MassIVE) Dataset title: Data Independent Acquisition Mass Spectrometry of the Human Lens Enhances Spatiotemporal Measurement of Fiber Cell Aging Possible reference: Cantrell, LS. et al. (2021) Data-Independent Acquisition Mass Spectrometry of the Human Lens Enhances Spatiotemporal Measurement of Fiber Cell Aging., J Am Soc Mass Spectrom, PMID 34705440PXD026244 Dataset with its publication pending (from PRIDE) Dataset title: Structural probing of Hsp26 activation and client binding by quantitative cross-linking mass spectrometry Possible reference: Frsch, J. et al. (2021) Structural Probing of Hsp26 Activation and Client Binding by Quantitative Cross-Linking Mass Spectrometry., Anal Chem, PMID 34542282PXD026241 Dataset with its publication pending (from iProX) Dataset title: Proteomic Profiles of Extracellular Vesicles from Miscarriage Placentae Possible reference: Jena, SR. et al. (2023) Comparative proteome profiling of seminal components reveal impaired immune cell signalling as paternal contributors in recurrent pregnancy loss patients., Am J Reprod Immunol, PMID 35998016PXD026237 Dataset with its publication pending (from PRIDE) Dataset title: PfAP2-O Influences Virulence Gene Transcription and Sexual Development in Plasmodium falciparum Possible reference: Cubillos, EFG. et al. (2021) The Transcription Factor PfAP2-O Influences Virulence Gene Transcription and Sexual Development in Plasmodium falciparum., Front Cell Infect Microbiol, PMID 34268135PXD026120 Dataset with its publication pending (from PRIDE) Dataset title: The EDS1-PAD4-ADR1 node mediates Arabidopsis pattern-triggered immunity Possible reference: Pruitt, RN. et al. (2021) The EDS1-PAD4-ADR1 node mediates Arabidopsis pattern-triggered immunity., Nature, PMID 34497423PXD026110 Dataset with its publication pending (from PRIDE) Dataset title: FASN-dependent de novo lipogenesis is required for brain development Possible reference: Gonzalez-Bohorquez, D. et al. (2022) FASN-dependent de novo lipogenesis is required for brain development., Proc Natl Acad Sci U S A, PMID 34996870PXD026103 Dataset with its publication pending (from PRIDE) Dataset title: Targeted mass spectrometry enables quantification of novel pharmacodynamic biomarkers of ATM kinase inhibitors Possible reference: Whiteaker, JR. et al. (2021) Targeted Mass Spectrometry Enables Quantification of Novel Pharmacodynamic Biomarkers of ATM Kinase Inhibition., Cancers (Basel), PMID 34359745PXD026086 Dataset with its publication pending (from PRIDE) Dataset title: The Human Melanoma Proteome Atlas – Defining the Molecular Pathology & Complementing the Melanoma Transcriptome Possible reference: Betancourt, LH. et al. (2021) The Human Melanoma Proteome Atlas-Complementing the melanoma transcriptome., Clin Transl Med, PMID 34323402PXD026067 Dataset with its publication pending (from PRIDE) Dataset title: Identification of Actin Filament Interactors in Giardia lamblia Possible reference: Steele-Ogus, MC. et al. (2021) Identification of Actin Filament-Associated Proteins in Giardia lamblia., Microbiol Spectr, PMID 34287056PXD026060 Dataset with its publication pending (from PRIDE) Dataset title: Reversible amyloids of pyruvate kinase couple cell metabolism and stress granule disassembly Possible reference: Cereghetti, G. et al. (2021) Reversible amyloids of pyruvate kinase couple cell metabolism and stress granule disassembly., Nat Cell Biol, PMID 34616026PXD026032 Dataset with its publication pending (from iProX) Dataset title: Phosphoproteome of mouse testis at postnatal days 30 Possible reference: Couto-Santos, F. et al. (2021) Prepubertal arsenic exposure alters phosphoproteins profile, quality, and fertility of epididymal spermatozoa in sexually mature rats., Toxicology, PMID 34352348PXD026031 Dataset with its publication pending (from iProX) Dataset title: Proteome of mouse testis at postnatal days 30 Possible reference: Couto-Santos, F. et al. (2021) Prepubertal arsenic exposure alters phosphoproteins profile, quality, and fertility of epididymal spermatozoa in sexually mature rats., Toxicology, PMID 34352348PXD026025 no publication (from MassIVE) Dataset title: bound proteins of DNA nanomaterials exposed to human serum Possible reference: Cai, Z. et al. (2016) 111In-labeled trastuzumab-modified gold nanoparticles are cytotoxic in vitro to HER2-positive breast cancer cells and arrest tumor growth in vivo in athymic mice after intratumoral injection., Nucl Med Biol, PMID 27788375PXD026012 Dataset with its publication pending (from PRIDE) Dataset title: Polyglutamine-mediated ribotoxicity disrupts proteostasis and stress responses in Huntington’s Disease Possible reference: Aviner, R. et al. (2024) Polyglutamine-mediated ribotoxicity disrupts proteostasis and stress responses in Huntington's disease., Nat Cell Biol, PMID 38741019PXD026008 Dataset with its publication pending (from jPOST) Dataset title: Facile one-pot nanoproteomics for label-free proteome profiling of 50-1000 mammalian cells Possible reference: Martin, K. et al. (2021) Facile One-Pot Nanoproteomics for Label-Free Proteome Profiling of 50-1000 Mammalian Cells., J Proteome Res, PMID 34351778PXD025997 Dataset with its publication pending (from PRIDE) Dataset title: Genome-wide identification and characterization of small peptides in maize Possible reference: Liang, Y. et al. (2021) Genome-Wide Identification and Characterization of Small Peptides in Maize., Front Plant Sci, PMID 34220917PXD025990 no publication (from MassIVE) Dataset title: An ultrasensitive method for analysis of viral spike N-glycoforms Possible reference: Baboo, S. et al. (2021) DeGlyPHER: An Ultrasensitive Method for the Analysis of Viral Spike N-Glycoforms., Anal Chem, PMID 34597027PXD025943 no publication (from MassIVE) Dataset title: Temporal dynamics of protein and post-translational modification abundances in Populus leaf across a diurnal period Possible reference: Shrestha, HK. et al. (2021) Temporal dynamics of protein and post-translational modification abundances in Populus leaf across a diurnal period., Proteomics, PMID 34482644PXD025942 no publication (from MassIVE) Dataset title: Structural basis of the interaction between SETD2 methyltransferase and hnRNP L paralogs for governing co-transcriptional splicing Possible reference: Bhattacharya, S. et al. (2021) Structural basis of the interaction between SETD2 methyltransferase and hnRNP L paralogs for governing co-transcriptional splicing., Nat Commun, PMID 34750379PXD025939 Dataset with its publication pending (from PRIDE) Dataset title: Unravelling subcellular and ultrastructural changes during vitrification of human spermatozoa: effect of mitochondria-targeted antioxidant and permeable cryoprotectant Possible reference: Kumar, P. et al. (2021) Unraveling Subcellular and Ultrastructural Changes During Vitrification of Human Spermatozoa: Effect of a Mitochondria-Targeted Antioxidant and a Permeable Cryoprotectant., Front Cell Dev Biol, PMID 34277615PXD025936 Dataset with its publication pending (from PRIDE) Dataset title: The termite fungal cultivar Termitomyces combines diverse enzymes and oxidative reactions for plant biomass conversion Possible reference: Schalk, F. et al. (2021) The Termite Fungal Cultivar Termitomyces Combines Diverse Enzymes and Oxidative Reactions for Plant Biomass Conversion., mBio, PMID 34126770PXD025934 Dataset with its publication pending (from PRIDE) Dataset title: Detecting mistranslation in yeast expressing tRNA variants Possible reference: Berg, MD. et al. (2017) Evolving Mistranslating tRNAs Through a Phenotypically Ambivalent Intermediate in Saccharomyces cerevisiae., Genetics, PMID 28576863PXD025923 Dataset with its publication pending (from PRIDE) Dataset title: Human Cell Lines Interactomics Comparison Possible reference: Jia, X. et al. (2014) Grouping annotations on the subcellular layered interactome demonstrates enhanced autophagy activity in a recurrent experimental autoimmune uveitis T cell line., PLoS One, PMID 25116327PXD025918 Dataset with its publication pending (from jPOST) Dataset title: Facile one-pot nanoproteomics for label-free proteome profiling of 50-1000 mammalian cells Possible reference: Martin, K. et al. (2021) Facile One-Pot Nanoproteomics for Label-Free Proteome Profiling of 50-1000 Mammalian Cells., J Proteome Res, PMID 34351778PXD025902 Dataset with its publication pending (from PRIDE) Dataset title: SEVERE CONSEQUENCES OF A HIGH-LIPID DIET INCLUDE HYDROGEN SULFIDE DYSFUNCTION AND DISEASE AGGRESSION IN GLIOBLASTOMA Possible reference: Silver, DJ. et al. (2021) Severe consequences of a high-lipid diet include hydrogen sulfide dysfunction and enhanced aggression in glioblastoma., J Clin Invest, PMID 34255747PXD025876 Dataset with its publication pending (from PRIDE) Dataset title: BEMAP analysis of glycosylated YghJ Possible reference: Riaz, S. et al. (2021) Characterization of Glycosylation-Specific Systemic and Mucosal IgA Antibody Responses to Escherichia coli Mucinase YghJ (SslE)., Front Immunol, PMID 34975849PXD025870 Dataset with its publication pending (from PRIDE) Dataset title: Characterisation of a nucleo-adhesome Possible reference: Byron, A. et al. (2022) Characterisation of a nucleo-adhesome., Nat Commun, PMID 35650196PXD025869 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of Simulium damnosum salivary antigens Possible reference: Willen, L. et al. (2021) Human immune response against salivary antigens of Simulium damnosum s.l.: A new epidemiological marker for exposure to blackfly bites in onchocerciasis endemic areas., PLoS Negl Trop Dis, PMID 34157020PXD025857 Dataset with its publication pending (from jPOST) Dataset title: Blood plasma proteome of Japanese medaka fish exposed to humic acid Possible reference: Yurchenko, VV. et al. (2022) Proteomics Analysis in Japanese Medaka Oryzias latipes Exposed to Humic Acid Revealed Suppression of Innate Immunity and Coagulation Proteins., Biology (Basel), PMID 35625410PXD025849 Dataset with its publication pending (from PRIDE) Dataset title: Molecular characterization of hematopoietic stem cells after in vitro amplification on biomimetic 3D PDMS cell culture scaffoldsMolecular characterization of hematopoietic stem cells after in vitro amplification on biomimetic 3D PDMS cell culture scaffold Possible reference: Marx-Blmel, L. et al. (2021) Molecular characterization of hematopoietic stem cells after in vitro amplification on biomimetic 3D PDMS cell culture scaffolds., Sci Rep, PMID 34707135PXD025842 Dataset with its publication pending (from PRIDE) Dataset title: Comparison of extracellular matrix enrichment protocols for the improved characterization of the skin matrisome by mass spectrometry Possible reference: Dussoyer, M. et al. (2022) Comparison of extracellular matrix enrichment protocols for the improved characterization of the skin matrisome by mass spectrometry., J Proteomics, PMID 34678517PXD025832 Dataset with its publication pending (from PRIDE) Dataset title: The interactome of site-specifically acetylated linker histone H1 Possible reference: Hllmller, E. et al. (2021) Interactome of Site-Specifically Acetylated Linker Histone H1., J Proteome Res, PMID 34351766PXD025828 Dataset with its publication pending (from PRIDE) Dataset title: Allergenicity Assessment and Allergen Profile Analysis of Different Chinese Wheat Cultivars Possible reference: Wang, Y. et al. (2021) Allergenicity assessment and allergen profile analysis of different Chinese wheat cultivars., World Allergy Organ J, PMID 34257797PXD025811 Dataset with its publication pending (from jPOST) Dataset title: IMTACT - mitochondrial enrichment Possible reference: Boussardon, C. et al. (2022) Cell Type-Specific Isolation of Mitochondria in Arabidopsis., Methods Mol Biol, PMID 34545482PXD025782 Dataset with its publication pending (from PRIDE) Dataset title: The RNA-binding proteins SRP14 and HMGB3 control HIV-1 Tat mRNA processing and translation during HIV-1 latency Possible reference: Khoury, G. et al. (2021) The RNA-Binding Proteins SRP14 and HMGB3 Control HIV-1 Tat mRNA Processing and Translation During HIV-1 Latency., Front Genet, PMID 34194479PXD025771 Dataset with its publication pending (from PRIDE) Dataset title: Identification of differential phosphoproteins reveled complex responses of soybean to phosphate starvation through reversible protein phosphorylation Possible reference: Jiang, W. et al. (2021) Soybean responds to phosphate starvation through reversible protein phosphorylation., Plant Physiol Biochem, PMID 34371392PXD025767 Dataset with its publication pending (from PRIDE) Dataset title: A quantitative map of human primary microRNA processing sites Possible reference: Pai, AA. et al. (2012) The contribution of RNA decay quantitative trait loci to inter-individual variation in steady-state gene expression levels., PLoS Genet, PMID 23071454PXD025766 Dataset with its publication pending (from PRIDE) Dataset title: The use of linear ion traps in data independent acquisition methods benefits low-input proteomics Possible reference: Borrs, E. et al. (2021) Use of Linear Ion Traps in Data-Independent Acquisition Methods Benefits Low-Input Proteomics., Anal Chem, PMID 34404205PXD025754 Dataset with its publication pending (from PRIDE) Dataset title: DDX21 is a p38-MAPK sensitive nucleolar protein necessary for mouse preimplantation embryo development and cell-fate specification Possible reference: Bora, P. et al. (2021) DDX21 is a p38-MAPK-sensitive nucleolar protein necessary for mouse preimplantation embryo development and cell-fate specification., Open Biol, PMID 34255976PXD025747 no publication (from MassIVE) Dataset title: Metaproteomics reveals insights into microbial structure, interactions, and dynamic regulation in defined communities as they respond to environmental disturbance Possible reference: Shrestha, HK. et al. (2021) Metaproteomics reveals insights into microbial structure, interactions, and dynamic regulation in defined communities as they respond to environmental disturbance., BMC Microbiol, PMID 34749649PXD025744 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic-based research strategy identified laminin subunit alpha 2 as a potential urinary-specific biomarker for the medullary sponge kidney disease Possible reference: Fabris, A. et al. (2017) Proteomic-based research strategy identified laminin subunit alpha 2 as a potential urinary-specific biomarker for the medullary sponge kidney disease., Kidney Int, PMID 27914711PXD025742 no publication (from MassIVE) Dataset title: In utero pulse-injection of isotopic amino acids quantifies protein turnover rates during murine fetal development Possible reference: Baeza, J. et al. (2023) In utero pulse injection of isotopic amino acids quantifies protein turnover rates during murine fetal development., bioRxiv, PMID 37293076PXD025738 Dataset with its publication pending (from PRIDE) Dataset title: Pumilio2 and Staufen2 selectively balance the synaptic proteome Possible reference: Schieweck, R. et al. (2021) Pumilio2 and Staufen2 selectively balance the synaptic proteome., Cell Rep, PMID 34161769PXD025732 Dataset with its publication pending (from PRIDE) Dataset title: Absolute proteome quantification in the gas-fermenting acetogen Clostridium autoethanogenum Possible reference: Valgepea, K. et al. (2022) Absolute Proteome Quantification in the Gas-Fermenting Acetogen Clostridium autoethanogenum., mSystems, PMID 35384696PXD025725 Dataset with its publication pending (from PRIDE) Dataset title: POGLUT2 and POGLUT3 O-glucosylate multiple EGF repeats in fibrillin-1, -2, and LTBP1 and promote secretion of FBN1 Possible reference: Williamson, DB. et al. (2021) POGLUT2 and POGLUT3 O-glucosylate multiple EGF repeats in fibrillin-1, -2, and LTBP1 and promote secretion of fibrillin-1., J Biol Chem, PMID 34411563PXD025714 no publication (from MassIVE) Dataset title: Palaeoproteomic analyses of dog palaeofaeces reveal a preserved dietary and host digestive proteome Possible reference: Runge, AKW. et al. (2021) Palaeoproteomic analyses of dog palaeofaeces reveal a preserved dietary and host digestive proteome., Proc Biol Sci, PMID 34229485PXD025704 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic response to drought and Phytophthora cinnamomi in Quercus ilex. Possible reference: Sghaier-Hammami, B. et al. (2013) Physiological and proteomics analyses of Holm oak (Quercus ilex subsp. ballota [Desf.] Samp.) responses to Phytophthora cinnamomi., Plant Physiol Biochem, PMID 23962806PXD025683 Dataset with its publication pending (from PRIDE) Dataset title: Allergenicity Assessment and Allergen Profile Analysis of Different Chinese Wheat Cultivars Possible reference: Wang, Y. et al. (2021) Allergenicity assessment and allergen profile analysis of different Chinese wheat cultivars., World Allergy Organ J, PMID 34257797PXD025677 no publication (from MassIVE) Dataset title: EZH2-dependent transcriptional complex promotes aberrant epithelial remodelling after injury Possible reference: Le, HQ. et al. (2021) An EZH2-dependent transcriptional complex promotes aberrant epithelial remodelling afterinjury., EMBO Rep, PMID 34224201PXD025676 Dataset with its publication pending (from PRIDE) Dataset title: Suv4-20h2 protects from influenza virus infection through suppression of chromatin loop formation Possible reference: Shiimori, M. et al. (2021) Suv4-20h2 protects against influenza virus infection by suppression of chromatin loop formation., iScience, PMID 34169237PXD025675 Dataset with its publication pending (from PRIDE) Dataset title: Genomic locus proteomic screening identifies the NF-kB signaling pathway components NFkB1 and IKBKG as transcriptional regulators of Ripk3 in endothelial cells Possible reference: Gao, S. et al. (2021) Genomic locus proteomic screening identifies the NF-κB signaling pathway components NFκB1 and IKBKG as transcriptional regulators of Ripk3 in endothelial cells., PLoS One, PMID 34153072PXD025674 Dataset with its publication pending (from PRIDE) Dataset title: Rne-HupB interaction fosters mycobacterial single-cell homeostasis and fitness during drug treatment and infection Possible reference: Griego, A. et al. (2022) RNase E and HupB dynamics foster mycobacterial cell homeostasis and fitness., iScience, PMID 35521527PXD025652 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of fully functionalized diazirine tags for chemical proteomic applications Possible reference: Conway, LP. et al. (2021) Evaluation of fully-functionalized diazirine tags for chemical proteomic applications., Chem Sci, PMID 34168837PXD025643 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic characterization of neuromelanin granules and substantia nigra in health and disease Possible reference: Wulf, M. et al. (2021) Laser Microdissection-Based Protocol for the LC-MS/MS Analysis of the Proteomic Profile of Neuromelanin Granules., J Vis Exp, PMID 34978295PXD025627 (from jPOST) Dataset title: MALDI spectra of Cutibacterium and Staphylococcus species Possible reference: Dekio, I. et al. (2021) What Do We See in Spectra?: Assignment of High-Intensity Peaks of Cutibacterium and Staphylococcus Spectra of MALDI-TOF Mass Spectrometry by Interspecies Comparative Proteogenomics., Microorganisms, PMID 34201063PXD025621 Dataset with its publication pending (from PRIDE) Dataset title: Succinylation profiles of brain injury after intracerebral hemorrhage Possible reference: Deng, YH. et al. (2021) Succinylation profiles of brain injury after intracerebral hemorrhage., PLoS One, PMID 34780519PXD025618 Dataset with its publication pending (from PRIDE) Dataset title: Disruption of nucleocytoplasmic trafficking as a cellular senescence driver Possible reference: Park, JH. et al. (2021) Disruption of nucleocytoplasmic trafficking as a cellular senescence driver., Exp Mol Med, PMID 34188179PXD025603 no publication (from MassIVE) Dataset title: The acyl-proteome of Syntrophus aciditrophicus reveals metabolic relationship with benzoate degradation Possible reference: Muroski, JM. et al. (2022) The Acyl-Proteome of Syntrophus aciditrophicus Reveals Metabolic Relationships in Benzoate Degradation., Mol Cell Proteomics, PMID 35189333PXD025593 Dataset with its publication pending (from PRIDE) Dataset title: Heart extracellular vesicle proteome mechanical Possible reference: Simonson, OE. et al. (2015) In Vivo Effects of Mesenchymal Stromal Cells in Two Patients With Severe Acute Respiratory Distress Syndrome., Stem Cells Transl Med, PMID 26285659PXD025586 Dataset with its publication pending (from PRIDE) Dataset title: Proteome analysis of Renibacterium salmoninarum reveals putative role of membrane vesicles in virulence Possible reference: Kroniger, T. et al. (2022) Proteome analysis of the Gram-positive fish pathogen Renibacterium salmoninarum reveals putative role of membrane vesicles in virulence., Sci Rep, PMID 35194033PXD025574 Dataset with its publication pending (from PRIDE) Dataset title: Click-enabled analogues reveal pregnenolone interactomes in cancer and immune cells Possible reference: Roy, S. et al. (2021) CLICK-enabled analogues reveal pregnenolone interactomes in cancer and immune cells., iScience, PMID 34036248PXD025564 Dataset with its publication pending (from iProX) Dataset title: hepatic proteomics of transition dairy cows Possible reference: Weitzel, JM. et al. (2017) Hepatic thyroid signaling of heat-stressed late pregnant and early lactating cows., J Endocrinol, PMID 28500083PXD025562 Dataset with its publication pending (from PRIDE) Dataset title: In-cell structures of a conserved supramolecular array at the mitochondria-cytoskeleton interface in mammalian sperm Possible reference: Leung, MR. et al. (2021) In-cell structures of conserved supramolecular protein arrays at the mitochondria-cytoskeleton interface in mammalian sperm., Proc Natl Acad Sci U S A, PMID 34737233PXD025547 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Analysis of Urinary Extracellular Vesicles Reveals a Role for the Complement System in Medullary Sponge Kidney Disease Possible reference: Bruschi, M. et al. (2019) Proteomic Analysis of Urinary Extracellular Vesicles Reveals a Role for the Complement System in Medullary Sponge Kidney Disease., Int J Mol Sci, PMID 31694344PXD025537 Dataset with its publication pending (from PRIDE) Dataset title: On-tissue spatially-resolved glycoproteomics guided by N-glycan imaging reveal global dysregulation of canine glioma glycoproteomic landscape Possible reference: Malaker, SA. et al. (2022) On-tissue spatially resolved glycoproteomics guided by N-glycan imaging reveal global dysregulation of canine glioma glycoproteomic landscape., Cell Chem Biol, PMID 34102146PXD025512 Dataset with its publication pending (from PRIDE) Dataset title: The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues Possible reference: Schendel, V. et al. (2024) The venom and telopodal defence systems of the centipede Lithobius forficatus are functionally convergent serial homologues., BMC Biol, PMID 38867210PXD025507 Dataset with its publication pending (from PRIDE) Dataset title: Actinomycin targets NPM1c-primed mitochondria in AML Possible reference: Wu, HC. et al. (2021) Actinomycin D Targets NPM1c-Primed Mitochondria to Restore PML-Driven Senescence in AML Therapy., Cancer Discov, PMID 34301789PXD025490 Dataset with its publication pending (from PRIDE) Dataset title: Isonicotinylation is Isonicotinylation is a histone mark induced by the anti-tuberculosis first-line drug isoniazida histone mark induced by the anti-tuberculosis first-line drug isoniazid Possible reference: Jiang, Y. et al. (2021) Isonicotinylation is a histone mark induced by the anti-tuberculosis first-line drug isoniazid., Nat Commun, PMID 34545082PXD025485 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic study of fig fruit latex Possible reference: Cui, Y. et al. (2019) Proteome and transcriptome analyses reveal key molecular differences between quality parameters of commercial-ripe and tree-ripe fig (Ficus carica L.)., BMC Plant Biol, PMID 30991947PXD025481 Dataset with its publication pending (from PRIDE) Dataset title: Single cell chemical proteomics (SCCP) interrogates the timing and heterogeneity of cancer cell commitment to death Possible reference: Vgvri, . et al. (2022) Single-Cell Chemical Proteomics (SCCP) Interrogates the Timing and Heterogeneity of Cancer Cell Commitment to Death., Anal Chem, PMID 35731985PXD025459 Dataset with its publication pending (from PRIDE) Dataset title: Automated Phosphopeptide Enrichment for Gram Positive Bacteria Possible reference: Birk, MS. et al. (2021) Automated Phosphopeptide Enrichment for Gram-Positive Bacteria., J Proteome Res, PMID 34473931PXD025455 Dataset with its publication pending (from PRIDE) Dataset title: A Panel of Glycopeptides as Candidate Biomarkers for Early Diagnosis of NASH Hepatocellular Carcinoma Using a Stepped HCD Method and PRM Evaluation Possible reference: Lin, Y. et al. (2021) A Panel of Glycopeptides as Candidate Biomarkers for Early Diagnosis of NASH Hepatocellular Carcinoma Using a Stepped HCD Method and PRM Evaluation., J Proteome Res, PMID 33929864PXD025449 no publication (from MassIVE) Dataset title: Profiling SARS-CoV-2 HLA-I peptidome reveals T cell epitopes from out-of-frame ORFs Possible reference: Weingarten-Gabbay, S. et al. (2021) Profiling SARS-CoV-2 HLA-I peptidome reveals Tcell epitopes from out-of-frame ORFs., Cell, PMID 34171305PXD025444 no publication (from MassIVE) Dataset title: The Histone H1-Like Protein AlgP Facilitates Even Spacing of Polyphosphate Granules in Pseudomonas aeruginosa Possible reference: Chawla, R. et al. (2022) The Histone H1-Like Protein AlgP Facilitates Even Spacing of Polyphosphate Granules in Pseudomonas aeruginosa., mBio, PMID 35435704PXD025443 Dataset with its publication pending (from PRIDE) Dataset title: A proteomic approach for systematic mapping of human deubiquitinating enzymes substrates Possible reference: Ramirez, J. et al. (2021) A Proteomic Approach for Systematic Mapping of Substrates of Human Deubiquitinating Enzymes., Int J Mol Sci, PMID 34063716PXD025413 Dataset with its publication pending (from PRIDE) Dataset title: The E3 ubiquitin ligase adaptor cereblon targets the C-terminal cyclic imide degron Possible reference: Ichikawa, S. et al. (2024) The cyclimids: Degron-inspired cereblon binders for targeted protein degradation., Cell Chem Biol, PMID 38320555PXD025407 Dataset with its publication pending (from PRIDE) Dataset title: A systematic evaluation of fragmentation methods for unlabeled and isobaric mass tag-labeled O-glycopeptides Possible reference: Mao, Y. et al. (2021) Systematic Evaluation of Fragmentation Methods for Unlabeled and Isobaric Mass Tag-Labeled O-Glycopeptides., Anal Chem, PMID 34347445PXD025400 Dataset with its publication pending (from PRIDE) Dataset title: Translational activators and mitoribosomal isoforms cooperate to mediate mRNA-specific translation in Schizosaccharomyces pombe mitochondria Possible reference: Herbert, CJ. et al. (2021) Translational activators and mitoribosomal isoforms cooperate to mediate mRNA-specific translation in Schizosaccharomyces pombe mitochondria., Nucleic Acids Res, PMID 34634819PXD025394 Dataset with its publication pending (from PRIDE) Dataset title: Proteome and (ox)PTP profile analysis of diabetic NOD mouse under single (anti-CD3) or combined (anti-CD3 + IL1RA) treatment Possible reference: Ablamunits, V. et al. (2012) Synergistic reversal of type 1 diabetes in NOD mice with anti-CD3 and interleukin-1 blockade: evidence of improved immune regulation., Diabetes, PMID 22043003PXD025385 Dataset with its publication pending (from PRIDE) Dataset title: DIAmeter: Matching peptides to data-independent acquisition mass spectrometry data Possible reference: Lu, YY. et al. (2021) DIAmeter: matching peptides to data-independent acquisition mass spectrometry data., Bioinformatics, PMID 34252924PXD025383 Dataset with its publication pending (from PRIDE) Dataset title: The chimeric GaaR::XlnR transcription factor induces pectinolytic activities in the presence of D-xylose in Aspergillus niger Possible reference: Kun, RS. et al. (2021) The chimeric GaaR-XlnR transcription factor induces pectinolytic activities in the presence of D-xylose in Aspergillus niger., Appl Microbiol Biotechnol, PMID 34236481PXD025368 Dataset with its publication pending (from jPOST) Dataset title: olfactory proteomics in mixed dementia Possible reference: Zelaya, MV. et al. (2015) Olfactory bulb proteome dynamics during the progression of sporadic Alzheimer's disease: identification of common and distinct olfactory targets across Alzheimer-related co-pathologies., Oncotarget, PMID 26517091PXD025367 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic profiling reveals specific adaptation of Vibrio anguillarum to oxidative stress, iron deprivation and humoral components of innate immunity Possible reference: Skne, A. et al. (2022) Comparative proteomic profiling reveals specific adaption of Vibrio anguillarum to oxidative stress, iron deprivation and humoral components of innate immunity., J Proteomics, PMID 34737109PXD025361 Dataset with its publication pending (from PRIDE) Dataset title: PTPN23 ubiquitination by WDR4 suppresses EGFR and c-MET degradation to define a lung cancer therapeutic target Possible reference: Singh, S. et al. (2023) PTPN23 ubiquitination by WDR4 suppresses EGFR and c-MET degradation to define a lung cancer therapeutic target., Cell Death Dis, PMID 37821451PXD025359 Dataset with its publication pending (from PRIDE) Dataset title: Advanced fiber type-specific protein profiles derived from adult murine skeletal muscle Possible reference: Eggers, B. et al. (2021) Advanced Fiber Type-Specific Protein Profiles Derived from Adult Murine Skeletal Muscle., Proteomes, PMID 34201234PXD025356 Dataset with its publication pending (from PRIDE) Dataset title: Secretory autophagy mediates mitochondria clearance in the absence of the mATG8-conjugation machinery Possible reference: Tan, HWS. et al. (2022) A degradative to secretory autophagy switch mediates mitochondria clearance in the absence of the mATG8-conjugation machinery., Nat Commun, PMID 35764633PXD025349 Dataset with its publication pending (from PRIDE) Dataset title: Engineered yeast strains expressing human glycolytic enzymes Possible reference: Kuijpers, NG. et al. (2016) Pathway swapping: Toward modular engineering of essential cellular processes., Proc Natl Acad Sci U S A, PMID 27956602PXD025344 Dataset with its publication pending (from PRIDE) Dataset title: Fruit fly O-GlcNAc glycoproteomics Possible reference: Akan, I. et al. (2021) Drosophila O-GlcNAcase Mutants Reveal an Expanded Glycoproteome and Novel Growth and Longevity Phenotypes., Cells, PMID 33925313PXD025339 Dataset with its publication pending (from PRIDE) Dataset title: Adenovirus remodeling of the host proteome and of host factors associating with viral genomes Possible reference: Dybas, JM. et al. (2021) Adenovirus Remodeling of the Host Proteome and Host Factors Associated with Viral Genomes., mSystems, PMID 34463575PXD025319 Dataset with its publication pending (from PRIDE) Dataset title: Redox regulation of PTPN22 affects the severity of T cell dependent autoimmune inflammation Possible reference: James, J. et al. (2022) Redox regulation of PTPN22 affects the severity of T-cell-dependent autoimmune inflammation., Elife, PMID 35587260PXD025304 Dataset with its publication pending (from PRIDE) Dataset title: Elongation factor ELOF1 drives transcription-coupled repair and prevents genome instability Possible reference: Geijer, ME. et al. (2021) Elongation factor ELOF1 drives transcription-coupled repair and prevents genome instability., Nat Cell Biol, PMID 34108662PXD025301 Dataset with its publication pending (from PRIDE) Dataset title: TBK1 interacts with tau and enhances neurodegeneration in tauopathy Possible reference: Abreha, MH. et al. (2021) TBK1 interacts with tau and enhances neurodegeneration in tauopathy., J Biol Chem, PMID 33965374PXD025297 Dataset with its publication pending (from PRIDE) Dataset title: Small protein enrichment improves proteomics detection of sORF encoded peptides. Possible reference: Cassidy, L. et al. (2021) Multidimensional separation schemes enhance the identification and molecular characterization of low molecular weight proteomes and short open reading frame-encoded peptides in top-down proteomics., J Proteomics, PMID 32949814PXD025295 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of S-nitrosylation in HUVECs Possible reference: Xu, X. et al. (2019) The protein S-nitrosylation of splicing and translational machinery in vascular endothelial cells is susceptible to oxidative stress induced by oxidized low-density lipoprotein., J Proteomics, PMID 30630120PXD025286 Dataset with its publication pending (from PRIDE) Dataset title: Synaptic protein S-palmitoylation as a novel mechanism underlying sex-dependent differences in neuronal plasticity Possible reference: Zaręba-Kozioł, M. et al. (2021) S-Palmitoylation of Synaptic Proteins as a Novel Mechanism Underlying Sex-Dependent Differences in Neuronal Plasticity., Int J Mol Sci, PMID 34200797PXD025285 Dataset with its publication pending (from PRIDE) Dataset title: Endolysosomal processing of N-glycans on acid alpha-glucosidase is critical to attain the most active enzyme for hydrolyzing glycogen Possible reference: Selvan, N. et al. (2021) Endolysosomal N-glycan processing is critical to attain the most active form of the enzyme acid alpha-glucosidase., J Biol Chem, PMID 33971197PXD025279 Dataset with its publication pending (from PRIDE) Dataset title: The molecular appearance of native TRPM7 channel complexes identified by high-resolution proteomics Possible reference: Kollewe, A. et al. (2021) The molecular appearance of native TRPM7 channel complexes identified by high-resolution proteomics., Elife, PMID 34766907PXD025272 Dataset with its publication pending (from PRIDE) Dataset title: IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia Possible reference: Aubrey, BJ. et al. (2022) IKAROS and MENIN coordinate therapeutically actionable leukemogenic gene expression in MLL-r acute myeloid leukemia., Nat Cancer, PMID 35534777PXD025271 Dataset with its publication pending (from PRIDE) Dataset title: IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia Possible reference: Aubrey, BJ. et al. (2022) IKAROS and MENIN coordinate therapeutically actionable leukemogenic gene expression in MLL-r acute myeloid leukemia., Nat Cancer, PMID 35534777PXD025267 Dataset with its publication pending (from PRIDE) Dataset title: A vast pool of microproteins encoded by long non-coding RNAs in plants Possible reference: Fesenko, I. et al. (2021) A vast pool of lineage-specific microproteins encoded by long non-coding RNAs in plants., Nucleic Acids Res, PMID 34570232PXD025265 Dataset with its publication pending (from PRIDE) Dataset title: Drivers genes in severe forms of COVID-19 Possible reference: Carapito, R. et al. (2022) Identification of driver genes for critical forms of COVID-19 in a deeply phenotyped young patient cohort., Sci Transl Med, PMID 34698500PXD025258 Dataset with its publication pending (from PRIDE) Dataset title: Site-specific ubiquitylation acts as a regulator of linker histone H1 Possible reference: Hllmller, E. et al. (2021) Site-specific ubiquitylation acts as a regulator of linker histone H1., Nat Commun, PMID 34108453PXD025243 Dataset with its publication pending (from PRIDE) Dataset title: RNA Polymerase II interactome in presence or absence of SPT6 in U2OS cells Possible reference: Nandan, D. et al. (2017) Comprehensive Identification of mRNA-Binding Proteins of Leishmania donovani by Interactome Capture., PLoS One, PMID 28135300PXD025240 Dataset with its publication pending (from PRIDE) Dataset title: Hippocampal disruptions of synaptic and astrocyte metabolism during early amyloid pathology in the 5xFAD mouse model of Alzheimer’s disease Possible reference: Andersen, JV. et al. (2021) Hippocampal disruptions of synaptic and astrocyte metabolism are primary events of early amyloid pathology in the 5xFAD mouse model of Alzheimer's disease., Cell Death Dis, PMID 34657143PXD025236 Dataset with its publication pending (from PRIDE) Dataset title: Temperature influences the composition and cytotoxicity of extracellular vesicles in Staphylococcus aureus Possible reference: Briaud, P. et al. (2021) Temperature Influences the Composition and Cytotoxicity of Extracellular Vesicles in Staphylococcus aureus., mSphere, PMID 34612674PXD025232 Dataset with its publication pending (from PRIDE) Dataset title: IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia Possible reference: Aubrey, BJ. et al. (2022) IKAROS and MENIN coordinate therapeutically actionable leukemogenic gene expression in MLL-r acute myeloid leukemia., Nat Cancer, PMID 35534777PXD025231 Dataset with its publication pending (from PRIDE) Dataset title: IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia Possible reference: Aubrey, BJ. et al. (2022) IKAROS and MENIN coordinate therapeutically actionable leukemogenic gene expression in MLL-r acute myeloid leukemia., Nat Cancer, PMID 35534777PXD025230 Dataset with its publication pending (from PRIDE) Dataset title: IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia Possible reference: Aubrey, BJ. et al. (2022) IKAROS and MENIN coordinate therapeutically actionable leukemogenic gene expression in MLL-r acute myeloid leukemia., Nat Cancer, PMID 35534777PXD025229 Dataset with its publication pending (from PRIDE) Dataset title: IKAROS and MENIN are Functionally Cooperative Therapeutic Targets in Acute Myeloid Leukemia Possible reference: Aubrey, BJ. et al. (2022) IKAROS and MENIN coordinate therapeutically actionable leukemogenic gene expression in MLL-r acute myeloid leukemia., Nat Cancer, PMID 35534777PXD025220 Dataset with its publication pending (from PRIDE) Dataset title: Crosslinking mass spectrometry of the unconventional kinetoplastid kinetochore proteins KKT16-KKT17-KKT18 Possible reference: Ludzia, P. et al. (2021) Structural characterization of KKT4, an unconventional microtubule-binding kinetochore protein., Structure, PMID 33915106PXD025219 Dataset with its publication pending (from PRIDE) Dataset title: Bacterial RF3 Senses Chaperone Function in Co-translational Folding Possible reference: Zhao, L. et al. (2021) Bacterial RF3 senses chaperone function in co-translational folding., Mol Cell, PMID 34107307PXD025218 Dataset with its publication pending (from PRIDE) Dataset title: N-linked glycoproteins from exosome-depleted excretory-secretory products of fourth-stage larval Angiostrongylus cantonensis promotes alternative activation of macrophages through metabolic reprogramming by the PI3K-Akt pathway Possible reference: Wan, S. et al. (2021) Exosome-Depleted Excretory-Secretory Products of the Fourth-Stage Larval Angiostrongylus cantonensis Promotes Alternative Activation of Macrophages Through Metabolic Reprogramming by the PI3K-Akt Pathway., Front Immunol, PMID 34367145PXD025217 Dataset with its publication pending (from PRIDE) Dataset title: Topology of the redox network during induction of photosynthesis as revealed by time-resolved proteomics in tobacco Possible reference: Zimmer, D. et al. (2021) Topology of the redox network during induction of photosynthesis as revealed by time-resolved proteomics in tobacco., Sci Adv, PMID 34919428PXD025213 Dataset with its publication pending (from PRIDE) Dataset title: Supermeres, a new functional extracellular nanoparticle replete with disease biomarkers and therapeutic target Possible reference: Zhang, Q. et al. (2021) Supermeres are functional extracellular nanoparticles replete with disease biomarkers and therapeutic targets., Nat Cell Biol, PMID 34887515PXD025196 Dataset with its publication pending (from PRIDE) Dataset title: Embryonic developmental arrest in the annual killifish Austrolebias charrua: a proteomic approach to diapause III. Possible reference: Chalar, C. et al. (2021) Embryonic developmental arrest in the annual killifish Austrolebias charrua: A proteomic approach to diapause III., PLoS One, PMID 34086690PXD025180 Dataset with its publication pending (from PRIDE) Dataset title: White matter integrity requires continuous myelin synthesis at the inner tongue Possible reference: Meschkat, M. et al. (2022) White matter integrity in micerequires continuous myelin synthesis at the inner tongue., Nat Commun, PMID 35246535PXD025163 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of serial isolates of Trichosporon asahii Possible reference: Yang, X. et al. (2021) Proteomic analysis of serial isolates of Trichosporon asahii identifies host-specific adaptations using the TMT/MRM approach., J Proteomics, PMID 34153541PXD025146 Dataset with its publication pending (from PRIDE) Dataset title: The global Proteome and Ubiquitinome of bacterial and viral co-infected Bronchial Epithelial Cells Possible reference: Sura, T. et al. (2022) The global proteome and ubiquitinome of bacterial and viral co-infected bronchial epithelial cells., J Proteomics, PMID 34600154PXD025138 Dataset with its publication pending (from PRIDE) Dataset title: Prognostic accuracy of MALDI-TOF mass spectrometric analysis of plasma in COVID-19 Possible reference: Lazari, LC. et al. (2021) Prognostic accuracy of MALDI-TOF mass spectrometric analysis of plasma in COVID-19., Life Sci Alliance, PMID 34168074PXD025137 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of liver tissues in chicken embryo Possible reference: Soulet, F. et al. (2013) Mapping the extracellular and membrane proteome associated with the vasculature and the stroma in the embryo., Mol Cell Proteomics, PMID 23674615PXD025136 no publication (from MassIVE) Dataset title: JAK2-CHK2 signaling safeguards the integrity of the mitotic spindle assembly checkpoint and genome stability Possible reference: Chowdhury, MAN. et al. (2022) JAK2-CHK2 signaling safeguards the integrity of the mitotic spindle assembly checkpoint and genome stability., Cell Death Dis, PMID 35851582PXD025125 Dataset with its publication pending (from PRIDE) Dataset title: Pathophysiological pathway differences in children who present with COVID-19 ARDS compared to COVID -19 induced MIS-C Possible reference: McCafferty, C. et al. (2022) Pathophysiological pathway differences in children who present with COVID-19 ARDS compared to COVID -19 induced MIS-C., Nat Commun, PMID 35501302PXD025123 Dataset with its publication pending (from PRIDE) Dataset title: Dual roles of HSP70 chaperone HSPA1 in quality control of nascent and newly synthesized proteins Possible reference: Tian, G. et al. (2021) Dual roles of HSP70 chaperone HSPA1 in quality control of nascent and newly synthesized proteins., EMBO J, PMID 34010456PXD025102 Dataset with its publication pending (from PRIDE) Dataset title: Molecular characterization of a complex of Apoptosis Inducing Factor 1 (AIFM1) with cytochrome c oxidase of the mitochondrial respiratory chain Possible reference: Hevler, JF. et al. (2021) Molecular characterization of a complex of apoptosis-inducing factor 1 with cytochrome c oxidase of the mitochondrial respiratory chain., Proc Natl Acad Sci U S A, PMID 34548399PXD025101 Dataset with its publication pending (from PRIDE) Dataset title: Contribution of IFIX to nuclear and cytoplasmic proteome changes during immune signaling Possible reference: Howard, TR. et al. (2021) The DNA Sensor IFIX Drives Proteome Alterations To Mobilize Nuclear and Cytoplasmic Antiviral Responses, with Its Acetylation Acting as a Localization Toggle., mSystems, PMID 34156286PXD025096 Dataset with its publication pending (from PRIDE) Dataset title: Integration of functional imaging, cytometry and unbiased proteomics reveals new features of endothelial-to-mesenchymal transition in ischemic mitral valve regurgitation in human patients Possible reference: Lupieri, A. et al. (2021) Integration of Functional Imaging, Cytometry, and Unbiased Proteomics Reveals New Features of Endothelial-to-Mesenchymal Transition in Ischemic Mitral Valve Regurgitation in Human Patients., Front Cardiovasc Med, PMID 34458332PXD025095 Dataset with its publication pending (from PRIDE) Dataset title: Epulorhiza-responsive proteins found in tubers of Dactylorhiza Possible reference: Ghorbani, A. et al. (2017) DNA barcoding of tuberous Orchidoideae: a resource for identification of orchids used in Salep., Mol Ecol Resour, PMID 27768252PXD025087 Dataset with its publication pending (from PRIDE) Dataset title: Genomic and proteomic study of Andreprevotia ripae isolated from an anthill reveals an extensive repertoire of chitinolytic enzymes Possible reference: Lorentzen, SB. et al. (2021) Genomic and Proteomic Study of Andreprevotia ripae Isolated from an Anthill Reveals an Extensive Repertoire of Chitinolytic Enzymes., J Proteome Res, PMID 34191517PXD025078 Dataset with its publication pending (from PRIDE) Dataset title: Sequential N/O-glycosylation analysis of heavily glycosylated HIV-1 gp120 by combination of electron-transfer/higher-energy collisional dissociation and stepped collision energy/higher-energy collisional dissociation (EThcD-sceHCD) Possible reference: Zhang, Y. et al. (2021) Sequential Analysis of the N/O-Glycosylation of Heavily Glycosylated HIV-1 gp120 Using EThcD-sceHCD-MS/MS., Front Immunol, PMID 34745128PXD025066 Dataset with its publication pending (from PRIDE) Dataset title: Furan warheads for covalent trapping of weak protein-protein interactions: specific cross-linking of thymosin β4 to actin Possible reference: Miret-Casals, L. et al. (2021) Furan warheads for covalent trapping of weak protein-protein interactions: cross-linking of thymosin β4 to actin., Chem Commun (Camb), PMID 34036992PXD025044 Dataset with its publication pending (from jPOST) Dataset title: proteogenomics, human sarcoma cell line Possible reference: Lt, C. et al. (2012) Proteomic characterization of bovine herpesvirus 4 extracellular virions., J Virol, PMID 22896609PXD025043 Dataset with its publication pending (from jPOST) Dataset title: proteogenomics sarcoma cell line Possible reference: Lt, C. et al. (2012) Proteomic characterization of bovine herpesvirus 4 extracellular virions., J Virol, PMID 22896609PXD025039 Dataset with its publication pending (from jPOST) Dataset title: Matrix thermal shift assay for fast construction of multidimensional ligand targets space Possible reference: Ruan, C. et al. (2022) Matrix Thermal Shift Assay for Fast Construction of Multidimensional Ligand-Target Space., Anal Chem, PMID 35442643PXD025035 no publication (from MassIVE) Dataset title: Divergent and self-reactive immune responses in the CNS of COVID-19 patients with neurological symptoms Possible reference: Song, E. et al. (2020) Exploratory neuroimmune profiling identifies CNS-specific alterations in COVID-19 patients with neurological involvement., bioRxiv, PMID 32935102PXD025031 no publication (from MassIVE) Dataset title: Selective inhibition reveals the regulatory function of DYRK2 in protein synthesis and calcium entry Possible reference: Wei, T. et al. (2022) Selective inhibition reveals the regulatory function of DYRK2 in protein synthesis and calcium entry., Elife, PMID 35439114PXD025029 Dataset with its publication pending (from PRIDE) Dataset title: A disease-linked lncRNA mutation in RNase MRP inhibits ribosome synthesis Possible reference: Robertson, N. et al. (2022) A disease-linked lncRNA mutation in RNase MRP inhibits ribosome synthesis., Nat Commun, PMID 35115551PXD025017 Dataset with its publication pending (from iProX) Dataset title: Comprehensive iTRAQ based proteomic Characterization of Coronary Artery Diseases Possible reference: Sharma, P. et al. (2024) A comprehensive proteomic profiling of urinary exosomes and the identification of early non-invasive biomarker in patients with coronary artery disease., J Proteomics, PMID 38151158PXD025016 no publication (from MassIVE) Dataset title: Divergent and self-reactive immune responses in the CNS of COVID-19 patients with neurological symptoms Possible reference: Song, E. et al. (2020) Exploratory neuroimmune profiling identifies CNS-specific alterations in COVID-19 patients with neurological involvement., bioRxiv, PMID 32935102PXD025014 no publication (from MassIVE) Dataset title: A CANCER UBIQUITOME LANDSCAPE IDENTIFIES METABOLIC REPROGRAMMING AS TARGET OF PARKIN TUMOR SUPPRESSION Possible reference: Agarwal, E. et al. (2021) A cancer ubiquitome landscape identifies metabolic reprogramming as target of Parkin tumor suppression., Sci Adv, PMID 34433563PXD025011 Dataset with its publication pending (from PRIDE) Dataset title: Integrative cell type-specific multi-omics approaches reveal impaired programs of glial cell differentiation in mouse culture models of DM1 Possible reference: Gonzlez-Barriga, A. et al. (2021) Integrative Cell Type-Specific Multi-Omics Approaches Reveal Impaired Programs of Glial Cell Differentiation in Mouse Culture Models of DM1., Front Cell Neurosci, PMID 34025359PXD025005 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative Urinary Proteomics of UCPPS Possible reference: Froehlich, JW. et al. (2022) The Urinary Proteomic Profile Implicates Key Regulators for Urologic Chronic Pelvic Pain Syndrome (UCPPS): A MAPP Research NetworkStudy., Mol Cell Proteomics, PMID 34774759PXD025002 Dataset with its publication pending (from PRIDE) Dataset title: The extracellular matrix landscape identifies different etiologies behind bicuspid and tricuspid aortic valve degeneration Possible reference: Beusch, CM. et al. (2023) Analysis of local extracellular matrix identifies different aetiologies behind bicuspid and tricuspid aortic valve degeneration and suggests therapies., Cell Mol Life Sci, PMID 37632572PXD024997 Dataset with its publication pending (from PRIDE) Dataset title: Clinical Assay for the Early Detection of Colorectal Cancer Using Mass Spectrometric Wheat Germ Agglutinin Multiple Reaction Monitoring Possible reference: Tsai, IJ. et al. (2021) Clinical Assay for the Early Detection of Colorectal Cancer Using Mass Spectrometric Wheat Germ Agglutinin Multiple Reaction Monitoring., Cancers (Basel), PMID 34063271PXD024972 Dataset with its publication pending (from jPOST) Dataset title: Comprehensive transcriptome sequencing of Tanaidacea with proteomic evidences for their silk Possible reference: Kakui, K. et al. (2021) Comprehensive Transcriptome Sequencing of Tanaidacea with Proteomic Evidences for Their Silk., Genome Biol Evol, PMID 34904645PXD024952 Dataset with its publication pending (from PRIDE) Dataset title: The distinctive flagellar proteome of Euglena gracilis Possible reference: Hammond, M. et al. (2021) The distinctive flagellar proteome of Euglena gracilis illuminates the complexities of protistan flagella adaptation., New Phytol, PMID 34292600PXD024949 Dataset with its publication pending (from PRIDE) Dataset title: Fast and global reorganization of the chloroplast protein biogenesis network during heat acclimation Possible reference: Trsch, R. et al. (2022) Fast and global reorganization of the chloroplast protein biogenesis network during heat acclimation., Plant Cell, PMID 34958373PXD024934 Dataset with its publication pending (from PRIDE) Dataset title: C. albicans mtEXO mutant mitochondria Possible reference: Łabędzka-Dmoch, K. et al. (2021) Pervasive transcription of the mitochondrial genome in Candida albicans is revealed in mutants lacking the mtEXO RNase complex., RNA Biol, PMID 34229573PXD024933 Dataset with its publication pending (from PRIDE) Dataset title: Examining pathways of iron and sulfur acquisition, trafficking, deployment, and storage in mineral-grown methanogen cells Possible reference: Payne, D. et al. (2021) Examining Pathways of Iron and Sulfur Acquisition, Trafficking, Deployment, and Storage in Mineral-Grown Methanogen Cells., J Bacteriol, PMID 34251867PXD024925 Dataset with its publication pending (from iProX) Dataset title: Discovery of metal-binding proteins by thermal proteome profiling. Possible reference: Zeng, X. et al. (2024) Discovery of metal-binding proteins by thermal proteome profiling., Nat Chem Biol, PMID 38409364PXD024891 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic and lipidomic profiling of demyelinating lesions identifies fatty acids as modulators in inflammation resolution Possible reference: Penkert, H. et al. (2021) Proteomic and lipidomic profiling of demyelinating lesions identifies fatty acids as modulators in lesion recovery., Cell Rep, PMID 34706241PXD024873 Dataset with its publication pending (from PRIDE) Dataset title: Synechocystis sp. PCC 6803(iron and/or copper starvation)-LC MS/MS Possible reference: Huokko, T. et al. (2019) Thylakoid Localized Type 2 NAD(P)H Dehydrogenase NdbA Optimizes Light-Activated Heterotrophic Growth of Synechocystis sp. PCC 6803., Plant Cell Physiol, PMID 30847494PXD024852 Dataset with its publication pending (from PRIDE) Dataset title: Melanoma-derived small extracellular vesicles induce lymphangiogenesis and metastasis through a NGFR-dependent mechanism Possible reference: Garca-Silva, S. et al. (2021) Melanoma-derived small extracellular vesicles induce lymphangiogenesis and metastasis through an NGFR-dependent mechanism., Nat Cancer, PMID 34957415PXD024842 no publication (from MassIVE) Dataset title: Central nervous system immune response in postinfectious hydrocephalus Possible reference: Robert, SM. et al. (2023) The choroid plexus links innate immunity to CSF dysregulation in hydrocephalus., Cell, PMID 36803604PXD024830 Dataset with its publication pending (from PRIDE) Dataset title: Proteogenomic Landscape of Uterine Leiomyomas from Hereditary Leiomyomatosis and Renal Cell Cancer Patients Possible reference: Bateman, NW. et al. (2021) Proteogenomic landscape of uterine leiomyomas from hereditary leiomyomatosis and renal cell cancer patients., Sci Rep, PMID 33931688PXD024829 Dataset with its publication pending (from PRIDE) Dataset title: The proteome and phosphoproteome of acute stress in the mouse hippocampus Possible reference: von Ziegler, LM. et al. (2022) Multiomic profiling of the acute stress response in the mouse hippocampus., Nat Commun, PMID 35383160PXD024822 Dataset with its publication pending (from PRIDE) Dataset title: The human GID complex engages two independent modules for substrate recruitment Possible reference: Mohamed, WI. et al. (2021) The human GID complex engages two independent modules for substrate recruitment., EMBO Rep, PMID 34647674PXD024816 Dataset with its publication pending (from PRIDE) Dataset title: Mutation of Arabidopsis SME1 improves oxidative stress resilience Possible reference: Willems, P. et al. (2023) Mutation of Arabidopsis SME1 and Sm core assembly improves oxidative stress resilience., Free Radic Biol Med, PMID 36870374PXD024813 Dataset with its publication pending (from PRIDE) Dataset title: Nasal septum deviation as the consequence of BMP-controlled changes to cartilage properties Possible reference: Baddam, P. et al. (2021) Nasal Septum Deviation as the Consequence of BMP-Controlled Changes to Cartilage Properties., Front Cell Dev Biol, PMID 34249945PXD024810 Dataset with its publication pending (from iProX) Dataset title: Integrated multiomic analysis reveals comprehensive tumor heterogeneity in primary and recurrent hepatocellular carcinomas Possible reference: Zhou, C. et al. (2023) Whole-exome sequencing reveals the metastatic potential of hepatocellular carcinoma from the perspective of tumor and circulating tumor DNA., Hepatol Int, PMID 37217808PXD024808 Dataset with its publication pending (from PRIDE) Dataset title: Profile of the SARS-CoV-2 RNA interactome Possible reference: Ray, PR. et al. (2020) A pharmacological interactome between COVID-19 patient samples and human sensory neurons reveals potential drivers of neurogenic pulmonary dysfunction., Brain Behav Immun, PMID 32497778PXD024807 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomic Profiling of T-Cell Acute Lymphoblastic Leukemia Identifies Targetable Kinases and Combination Treatments Possible reference: Degryse, S. et al. (2018) Mutant JAK3 phosphoproteomic profiling predicts synergism between JAK3 inhibitors and MEK/BCL2 inhibitors for the treatment of T-cell acute lymphoblastic leukemia., Leukemia, PMID 28852199PXD024789 Dataset with its publication pending (from PRIDE) Dataset title: Wells Lab Primary T Cell Surfaceomics Possible reference: Byrnes, JR. et al. (2022) Hypoxia Is a Dominant Remodeler of the Effector TCell Surface Proteome Relative to Activation and Regulatory T Cell Suppression., Mol Cell Proteomics, PMID 35217172PXD024778 no publication (from MassIVE) Dataset title: Tenrec ecaudatus liver proteome Possible reference: Khudyakov, JI. et al. (2021) Liver proteome response to torpor in a basoendothermic mammal, Tenrec ecaudatus, provides insights into the evolution of homeothermy., Am J Physiol Regul Integr Comp Physiol, PMID 34431404PXD024771 Dataset with its publication pending (from PRIDE) Dataset title: Gefitinib results in robust host-directed immunity against Salmonella infection through proteo-metabolomic reprogramming. Possible reference: Sadhu, S. et al. (2021) Gefitinib Results in Robust Host-Directed Immunity Against Salmonella Infection Through Proteo-Metabolomic Reprogramming., Front Immunol, PMID 33868285PXD024764 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics of Hsp90 inhibition in Leishmania mexicana Possible reference: Kalesh, K. et al. (2021) Quantitative Proteomics Reveals that Hsp90 Inhibition Dynamically Regulates Global Protein Synthesis in Leishmania mexicana., mSystems, PMID 33975965PXD024750 no publication (from MassIVE) Dataset title: The ancient Salicoid genome duplication event: A platform for reconstruction of de novo gene evolution in Populus trichocarp Possible reference: Yates, TB. et al. (2021) The Ancient Salicoid Genome Duplication Event: A Platform for Reconstruction of De Novo Gene Evolution in Populus trichocarpa., Genome Biol Evol, PMID 34469536PXD024733 Dataset with its publication pending (from PRIDE) Dataset title: culture media formulations on extracellular vesicle production by amniotic epithelial cells Possible reference: Zhu, D. et al. (2021) Impact of chemically defined culture media formulations on extracellular vesicle production by amniotic epithelial cells., Proteomics, PMID 34081834PXD024730 Dataset with its publication pending (from PRIDE) Dataset title: Global analysis of lysine 2-hydroxyisobutyrylation in Rheum palmatum Possible reference: Qi, T. et al. (2021) Global analysis of protein lysine 2-hydroxyisobutyrylation (Khib) profiles in Chinese herb rhubarb (Dahuang)., BMC Genomics, PMID 34266380PXD024728 Dataset with its publication pending (from PRIDE) Dataset title: SOD1 is a possible predictor of COVID-19 progression as revealed by plasma proteomics Possible reference: Xu, B. et al. (2021) SOD1 is a Possible Predictor of COVID-19 Progression as Revealed by Plasma Proteomics., ACS Omega, PMID 34250342PXD024721 Dataset with its publication pending (from PRIDE) Dataset title: Tetrahydrocurcumin ameliorates Alzheimer's pathological phenotypes by inhibition of microglial cell cycle arrest and apoptosis via Ras/ERK signaling Possible reference: Xiao, Y. et al. (2021) Tetrahydrocurcumin ameliorates Alzheimer's pathological phenotypes by inhibition of microglial cell cycle arrest and apoptosis via Ras/ERK signaling., Biomed Pharmacother, PMID 34243602PXD024715 Dataset with its publication pending (from PRIDE) Dataset title: Sox9 determines translational capacity during early chondrogenic differentiation of ATDC5 cells by regulating expression of ribosome biogenesis factors and ribosomal proteins Possible reference: Caron, MMJ. et al. (2021) Sox9 Determines Translational Capacity During Early Chondrogenic Differentiation of ATDC5 Cells by Regulating Expression of Ribosome Biogenesis Factors and Ribosomal Proteins., Front Cell Dev Biol, PMID 34235151PXD024701 Dataset with its publication pending (from PRIDE) Dataset title: TMT-based quantitative proteomics analysis reveals the function of ester cyclase in the rice false smut fungus Ustilaginoidea virens Possible reference: Chen, X. et al. (2021) Quantitative Proteomics Analysis Reveals the Function of the Putative Ester Cyclase UvEC1 in the Pathogenicity of the Rice False Smut Fungus Ustilaginoidea virens., Int J Mol Sci, PMID 33920773PXD024700 Dataset with its publication pending (from PRIDE) Dataset title: 1,2-Propanediol utilization mediated by bacterial microcompartments in Propionibacterium freudenreichii DSM 20271 Possible reference: Dank, A. et al. (2021) Bacterial Microcompartment-Dependent 1,2-Propanediol Utilization of Propionibacterium freudenreichii., Front Microbiol, PMID 34054787PXD024683 Dataset with its publication pending (from PRIDE) Dataset title: Rational correction of pathogenic conformational defects in HTRA1 Possible reference: Beaufort, N. et al. (2024) Rational correction of pathogenic conformational defects in HTRA1., Nat Commun, PMID 39013852PXD024679 Dataset with its publication pending (from PRIDE) Dataset title: An ERK5-KLF2 signalling module regulates early embryonic gene expression dynamics and stem cell rejuvenation Possible reference: Brown, HA. et al. (2021) An ERK5-KLF2 signalling module regulates early embryonic gene expression and telomere rejuvenation in stem cells., Biochem J, PMID 34780645PXD024676 no publication (from MassIVE) Dataset title: A systematic evaluation of semispecific peptide search parameter enables identification of previously undescribed N-terminal peptides and conserved proteolytic processing in cancer cell lines Possible reference: Fahrner, M. et al. (2021) A Systematic Evaluation of Semispecific Peptide Search Parameter Enables Identification of Previously Undescribed N-Terminal Peptides and Conserved Proteolytic Processing in Cancer Cell Lines., Proteomes, PMID 34070654PXD024652 no publication (from MassIVE) Dataset title: Detectability of biotin tags in LC-MS/MS Possible reference: Thompson, JW. et al. (2013) Solid-phase capture for the detection and relative quantification of S-nitrosoproteins by mass spectrometry., Methods, PMID 23064468PXD024638 Dataset with its publication pending (from PRIDE) Dataset title: Venom proteomic analysis of two medically important Nigerian viperidae (Echis ocellatus and Bitis arietans) snake species Possible reference: Dingwoke, EJ. et al. (2021) Venom proteomic analysis of medically important Nigerian viper Echis ocellatus and Bitis arietans snake species., Biochem Biophys Rep, PMID 34765747PXD024625 Dataset with its publication pending (from PRIDE) Dataset title: The biochemical basis of mitochondrial dysfunction in Zellweger Spectrum Disorder Possible reference: Berendse, K. et al. (2019) Liver disease predominates in a mouse model for mild human Zellweger spectrum disorder., Biochim Biophys Acta Mol Basis Dis, PMID 31207289PXD024605 Dataset with its publication pending (from PRIDE) Dataset title: Too Hot to Handle: Antibacterial Peptides Identified in Ghost Pepper Possible reference: Culver, KD. et al. (2021) Too Hot to Handle: Antibacterial Peptides Identified in Ghost Pepper., J Nat Prod, PMID 34445876PXD024603 Dataset with its publication pending (from PRIDE) Dataset title: ArfGAP1 inhibits mTORC1 lysosomal localization and activation Possible reference: Meng, D. et al. (2021) ArfGAP1 inhibits mTORC1 lysosomal localization and activation., EMBO J, PMID 33988249PXD024592 Dataset with its publication pending (from PRIDE) Dataset title: Effects of thermal acclimation on the proteome of the planarian Crenobia alpina from an alpine freshwater spring Possible reference: Ebner, JN. et al. (2022) Effects of thermal acclimation on the proteome of the planarian Crenobia alpina from an alpine freshwater spring., J Exp Biol, PMID 35875852PXD024591 Dataset with its publication pending (from PRIDE) Dataset title: PGC-1alpha mediates a metabolic host defense response in human airway epithelium during rhinovirus infections Possible reference: Michi, AN. et al. (2021) PGC-1α mediates a metabolic host defense response in human airway epithelium during rhinovirus infections., Nat Commun, PMID 34135327PXD024590 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of the substrate specificities and reaction kinetics of the yeast oligosaccharyltransferase isoforms Possible reference: Eyring, J. et al. (2021) Substrate specificities and reaction kinetics of the yeast oligosaccharyltransferase isoforms., J Biol Chem, PMID 34023382PXD024588 Dataset with its publication pending (from PRIDE) Dataset title: Protein identification of spermatozoa and seminal plasma in bottlenose dolphin (Tursiops truncatus) Possible reference: Fuentes-Albero, MC. et al. (2021) Protein Identification of Spermatozoa and Seminal Plasma in Bottlenose Dolphin (Tursiops truncatus)., Front Cell Dev Biol, PMID 34336830PXD024586 no publication (from MassIVE) Dataset title: Listeria exploits IFITM3 to suppress antibacterial activity in phagocytes Possible reference: Tan, JMJ. et al. (2021) Listeria exploits IFITM3 to suppress antibacterial activity in phagocytes., Nat Commun, PMID 34404769PXD024579 Dataset with its publication pending (from PRIDE) Dataset title: Ovalbumin antigen-specific activation of T cell receptor closely resembles antibody stimulation as revealed by BOOST phosphotyrosine proteomics Possible reference: Chua, XY. et al. (2021) Ovalbumin Antigen-Specific Activation of Human T Cell Receptor Closely Resembles Soluble Antibody Stimulation as Revealed by BOOST Phosphotyrosine Proteomics., J Proteome Res, PMID 34018748PXD024540 Dataset with its publication pending (from PRIDE) Dataset title: IGDQ motogenic peptide gradient induces directional cell migration through integrin (αv)β3 activation in metastatic breast cancer Possible reference: Ayama-Canden, S. et al. (2022) IGDQ motogenic peptide gradient induces directional cell migration through integrin (αv)β3 activation in MDA-MB-231 metastatic breast cancer cells., Neoplasia, PMID 35763908PXD024537 no publication (from MassIVE) Dataset title: Gut microbial communities enriched with quaternary amines Possible reference: Yang, C. et al. (2020) Protective Effect of Saponins-Enriched Fraction of Gynostemma pentaphyllum against High Choline-Induced Vascular Endothelial Dysfunction and Hepatic Damage in Mice., Biol Pharm Bull, PMID 32115504PXD024532 no publication (from MassIVE) Dataset title: A highly conserved pocket on PP2A-B56 is required for hSgo1 binding and cohesion protection during mitosis Possible reference: Ueki, Y. et al. (2021) A highly conserved pocket on PP2A-B56 is required for hSgo1 binding and cohesion protection during mitosis., EMBO Rep, PMID 33973335PXD024531 no publication (from MassIVE) Dataset title: Alternative polyadenylation quantitative trait loci contributing to complex trait and disease heritability Possible reference: Li, L. et al. (2021) An atlas of alternative polyadenylation quantitative trait loci contributing to complex trait and disease heritability., Nat Genet, PMID 33986536PXD024521 Dataset with its publication pending (from PRIDE) Dataset title: Targeting Pancreatic Cancer by TAK-981, a SUMOylation Inhibitor that Activates the Immune System and Blocks Tumor Cell Cycle Progression Possible reference: Kumar, S. et al. (2022) Targeting pancreatic cancer by TAK-981: a SUMOylation inhibitor that activates the immune system and blocks cancer cell cycle progression in a preclinical model., Gut, PMID 35074907PXD024513 Dataset with its publication pending (from PRIDE) Dataset title: Global mapping of short-lived proteins in human cells Possible reference: Rogers, S. et al. (2015) Dataset from the global phosphoproteomic mapping of early mitotic exit in human cells., Data Brief, PMID 26425664PXD024504 no publication (from MassIVE) Dataset title: Global coordination of metabolic pathways in Escherichia coli by active and passive regulation Possible reference: Kochanowski, K. et al. (2021) Global coordination of metabolic pathways in Escherichia coli by active and passive regulation., Mol Syst Biol, PMID 33852189PXD024502 Dataset with its publication pending (from PRIDE) Dataset title: Loss of enteric neuronal Ndrg4 promotes colorectal cancer via increased release of Nid1 and Fbln2 Possible reference: Vaes, N. et al. (2021) Loss of enteric neuronal Ndrg4 promotes colorectal cancer via increased release of Nid1 and Fbln2., EMBO Rep, PMID 33890711PXD024490 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics and transcriptomics analysis of fruit development and ripening in watermelon Possible reference: Yu, Y. et al. (2022) Quantitative Transcriptomic and Proteomic Analysis of Fruit Development and Ripening in Watermelon (Citrullus lanatus)., Front Plant Sci, PMID 35392508PXD024482 Dataset with its publication pending (from PRIDE) Dataset title: Visualization and identification of bioorthogonally-labeled exosome proteins following systemic administration in mice Possible reference: Zhang, E. et al. (2021) Visualization and Identification of Bioorthogonally Labeled Exosome Proteins Following Systemic Administration in Mice., Front Cell Dev Biol, PMID 33898459PXD024470 no publication (from MassIVE) Dataset title: Succinylome-controlled antibiotic resistance in MRSA - Succinylome Possible reference: Campbell, C. et al. (2021) Accumulation of Succinyl Coenzyme A Perturbs the Methicillin-Resistant Staphylococcus aureus (MRSA) Succinylome and Is Associated with Increased Susceptibility to Beta-Lactam Antibiotics., mBio, PMID 34182779PXD024462 Dataset with its publication pending (from PRIDE) Dataset title: GID E3 ligase supramolecular chelate assembly configures multipronged ubiquitin targeting of an oligomeric metabolic enzyme Possible reference: Sherpa, D. et al. (2021) GID E3 ligase supramolecular chelate assembly configures multipronged ubiquitin targeting of an oligomeric metabolic enzyme., Mol Cell, PMID 33905682PXD024426 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vimentin mimics VEGF and is a target for anti-angiogenic immunotherapy Possible reference: van Beijnum, JR. et al. (2022) Extracellular vimentin mimics VEGF and is a target for anti-angiogenic immunotherapy., Nat Commun, PMID 35606362PXD024419 Dataset with its publication pending (from PRIDE) Dataset title: Cargo and lipid profiling of isolated autophagosomes upon basal autophagy, starvation, and proteasome inhibition Possible reference: Schmitt, D. et al. (2022) Lipid and protein content profiling of isolated native autophagic vesicles., EMBO Rep, PMID 36215690PXD024412 Dataset with its publication pending (from PRIDE) Dataset title: KRAS Epitope Identification Immunopeptidomics Possible reference: Ade, CM. et al. (2023) Identification of neoepitope reactive T-cell receptors guided by HLA-A*03:01 and HLA-A*11:01 immunopeptidomics., J Immunother Cancer, PMID 37758652PXD024388 Dataset with its publication pending (from PRIDE) Dataset title: A KRAS-responsive long non-coding RNA controls microRNA Possible reference: Shi, L. et al. (2021) A KRAS-responsive long non-coding RNA controls microRNA processing., Nat Commun, PMID 33795683PXD024381 Dataset with its publication pending (from PRIDE) Dataset title: Corynebacterium diphtheriae proteome adaptation to cell culture medium and serum Possible reference: Mller, J. et al. (2021) Corynebacterium diphtheriae Proteome Adaptation to Cell Culture Medium and Serum., Proteomes, PMID 33805816PXD024379 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis of YAP knockdown in mouse skeletal muscle Possible reference: Sun, C. et al. (2017) Common and Distinctive Functions of the Hippo Effectors Taz and Yap in Skeletal Muscle Stem Cell Function., Stem Cells, PMID 28589555PXD024370 no publication (from MassIVE) Dataset title: Plasma proteomic profile associated with platelet dysfunction after trauma Possible reference: Bateman, RM. et al. (2016) 36th International Symposium on Intensive Care and Emergency Medicine : Brussels, Belgium. 15-18 March 2016., Crit Care, PMID 27885969PXD024359 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Clustering Reveals the Kinetics of Disease Biomarkers in Bovine and Human Models of Post-Traumatic Osteoarthritis Possible reference: Black, RM. et al. (2021) Proteomic Clustering Reveals the Kinetics of Disease Biomarkers in Bovine and Human Models of Post-Traumatic Osteoarthritis., Osteoarthr Cartil Open, PMID 36313736PXD024356 Dataset with its publication pending (from PRIDE) Dataset title: Organ-specific inflammaging in mice Possible reference: Mogilenko, DA. et al. (2021) Comprehensive Profiling of an Aging Immune System Reveals Clonal GZMK+ CD8+ T Cells as Conserved Hallmark of Inflammaging., Immunity, PMID 33271118PXD024352 Dataset with its publication pending (from PRIDE) Dataset title: Deletion of the transcription factors Hsf1, Msn2 and Msn4 in yeast uncovers transcriptional reprogramming in response to proteotoxic stress Possible reference: Mhlhofer, M. et al. (2024) Deletion of the transcription factors Hsf1, Msn2 and Msn4 in yeast uncovers transcriptional reprogramming in response to proteotoxic stress., FEBS Lett, PMID 38366111PXD024346 Dataset with its publication pending (from PRIDE) Dataset title: Genomic ancestry, diet and microbiomes of Upper Palaeolithic hunter-gatherers from San Teodoro cave (Sicily, Italy) Possible reference: Scorrano, G. et al. (2022) Genomic ancestry, diet and microbiomes of Upper Palaeolithic hunter-gatherers from San Teodoro cave., Commun Biol, PMID 36400919PXD024343 Dataset with its publication pending (from PRIDE) Dataset title: Coiled-Coil Domain-Containing 68 Downregulation Promotes Colorectal Cancer Cell Growth by Inhibiting ITCH-Mediated CDK4 Degradation Possible reference: Wang, C. et al. (2021) Coiled-Coil Domain-Containing 68 Downregulation Promotes Colorectal Cancer Cell Growth by Inhibiting ITCH-Mediated CDK4 Degradation., Front Oncol, PMID 33968776PXD024342 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic analysis of the defense response to Gibberella stalk rot in maize Possible reference: Bai, H. et al. (2021) Comparative Proteomic Analysis of the Defense Response to Gibberella Stalk Rot in Maize and Reveals That ZmWRKY83 Is Involved in Plant Disease Resistance., Front Plant Sci, PMID 34489999PXD024322 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of archival breast cancer clinical specimens identifies biological subtypes with distinct survival outcomes Possible reference: Asleh, K. et al. (2022) Proteomic analysis of archival breast cancer clinical specimens identifies biological subtypes with distinct survival outcomes., Nat Commun, PMID 35173148PXD024321 Dataset with its publication pending (from PRIDE) Dataset title: A SUPERFAMILY-WIDE ACTIVITY ATLAS OF SERINE HYDROLASES IN DROSOPHILA MELANOGASTER Possible reference: Kumar, K. et al. (2021) A Superfamily-wide Activity Atlas of Serine Hydrolases in Drosophila melanogaster., Biochemistry, PMID 33827210PXD024320 Dataset with its publication pending (from PRIDE) Dataset title: SILAC-based quantitative proteomics of cancer cells treated with the anti-tumor antibody 14F7 Possible reference: Bousquet, PA. et al. (2022) SILAC-based quantitative proteomics and microscopy analysis of cancer cells treated with the N-glycolyl GM3-specific anti-tumor antibody 14F7., Front Immunol, PMID 36439103PXD024310 no publication (from MassIVE) Dataset title: Proteomics - LCWE Kawasaki Model Possible reference: Porritt, RA. et al. (2021) Inhibition of IL-6 in the LCWE Mouse Model of Kawasaki Disease Inhibits Acute Phase Reactant Serum Amyloid A but Fails to Attenuate Vasculitis., Front Immunol, PMID 33897686PXD024301 Dataset with its publication pending (from PRIDE) Dataset title: Molecular basis of F-actin regulation and sarcomere assembly via myotilin Possible reference: Kostan, J. et al. (2021) Molecular basis of F-actin regulation and sarcomere assembly via myotilin., PLoS Biol, PMID 33844684PXD024294 Dataset with its publication pending (from PRIDE) Dataset title: miR-146 modulation in ALS astrocytes Possible reference: Gomes, C. et al. (2022) Neurotoxic Astrocytes Directly Converted from Sporadic and Familial ALS Patient Fibroblasts Reveal Signature Diversities and miR-146a Theragnostic Potential in Specific Subtypes., Cells, PMID 35406750PXD024281 Dataset with its publication pending (from PRIDE) Dataset title: Lactate Dehydrogenase B and Pyruvate Oxidation Pathway associated with Carfilzomib-Related Cardiotoxicity in Multiple Myeloma Patients: Result of a Multi-Omics Integrative Analysis Possible reference: Tantawy, M. et al. (2021) Lactate Dehydrogenase B and Pyruvate Oxidation Pathway Associated With Carfilzomib-Related Cardiotoxicity in Multiple Myeloma Patients: Result of a Multi-Omics Integrative Analysis., Front Cardiovasc Med, PMID 33996940PXD024262 no publication (from MassIVE) Dataset title: Resource allocation in the archaeon Methanococcus maripaludis during slow growth Possible reference: Mller, AL. et al. (2021) An alternative resource allocation strategy in the chemolithoautotrophic archaeon Methanococcus maripaludis., Proc Natl Acad Sci U S A, PMID 33879571PXD024245 no publication (from MassIVE) Dataset title: Coupling of Cdc20 inhibition and activation by BubR1 Possible reference: Hein, JB. et al. (2021) Coupling of Cdc20 inhibition and activation by BubR1., J Cell Biol, PMID 33819340PXD024243 Dataset with its publication pending (from PRIDE) Dataset title: Cellular proteomic changes in the immediate early phase of HIV-1 and 2 transduction Possible reference: Linkner, TR. et al. (2021) Cellular Proteo-Transcriptomic Changes in the Immediate Early-Phase of Lentiviral Transduction., Microorganisms, PMID 34835333PXD024219 Dataset with its publication pending (from PRIDE) Dataset title: Network analysis of the CSF proteome characterises convergent pathways of cellular dysfunction in ALS Possible reference: Thompson, AG. et al. (2021) Network Analysis of the CSF Proteome Characterizes Convergent Pathways of Cellular Dysfunction in ALS., Front Neurosci, PMID 33815045PXD024203 Dataset with its publication pending (from PRIDE) Dataset title: Potential, Properties and Sources of Plant Derived Extracellular Vesicles and Nanovesicles Possible reference: Woith, E. et al. (2021) Plant Extracellular Vesicles and Nanovesicles: Focus on Secondary Metabolites, Proteins and Lipids with Perspectives on Their Potential and Sources., Int J Mol Sci, PMID 33918442PXD024200 Dataset with its publication pending (from PRIDE) Dataset title: TWIST1 expression is associated with high-risk Neuroblastoma and promotes Primary and Metastatic Tumor Growth Possible reference: Sepporta, MV. et al. (2022) TWIST1 expression is associated with high-risk neuroblastoma and promotes primary and metastatic tumor growth., Commun Biol, PMID 35022561PXD024185 no publication (from MassIVE) Dataset title: GTPBP8 is required for mitoribosomal biogenesis and mitochondrial translation Possible reference: Wang, L. et al. (2023) GTPBP8 is required for mitoribosomal biogenesis and mitochondrial translation., Cell Mol Life Sci, PMID 37971521PXD024177 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative profiling of axonal guidance proteins during the differentiation of human neurospheres Possible reference: Goto-Silva, L. et al. (2021) Quantitative profiling of axonal guidance proteins during the differentiation of human neurospheres., Biochim Biophys Acta Proteins Proteom, PMID 33857633PXD024165 no publication (from MassIVE) Dataset title: Skeletal Muscle Metabolism of the Astyanax mexicanus Possible reference: Olsen, L. et al. (2023) Metabolic reprogramming underlies cavefish muscular endurance despite loss of muscle mass and contractility., Proc Natl Acad Sci U S A, PMID 36693105PXD024163 no publication (from MassIVE) Dataset title: Liceaga / Aguilar-Toala chia seed protein hydrolysate antimicrobial peptides Possible reference: Aguilar-Toal, JE. et al. (2020) New Insights into the Antimicrobial Properties of Hydrolysates and Peptide Fractions Derived from Chia Seed (Salvia hispanica L.)., Probiotics Antimicrob Proteins, PMID 32385579PXD024160 Dataset with its publication pending (from PRIDE) Dataset title: Nse5/6 inhibits the Smc5/6 ATPase and modulates DNA substrate binding Possible reference: Taschner, M. et al. (2021) Nse5/6 inhibits the Smc5/6 ATPase and modulates DNA substrate binding., EMBO J, PMID 34191293PXD024134 Dataset with its publication pending (from PRIDE) Dataset title: Optimized Sample Preparation Workflow for Improved Identification of Ghost Proteins Possible reference: Cardon, T. et al. (2020) Optimized Sample Preparation Workflow for Improved Identification of Ghost Proteins., Anal Chem, PMID 31829555PXD024108 Dataset with its publication pending (from PRIDE) Dataset title: Melanoma-derived small extracellular vesicles induce lymphangiogenesis and metastasis by a NGFR-dependent mechanism Possible reference: Garca-Silva, S. et al. (2021) Melanoma-derived small extracellular vesicles induce lymphangiogenesis and metastasis through an NGFR-dependent mechanism., Nat Cancer, PMID 34957415PXD024101 Dataset with its publication pending (from PRIDE) Dataset title: Community Evaluation of Glycoproteomics Informatics Solutions Reveals High-Performance Search Strategies for Glycopeptide Analysis Possible reference: Kawahara, R. et al. (2021) Community evaluation of glycoproteomics informatics solutions reveals high-performance search strategies for serum glycopeptide analysis., Nat Methods, PMID 34725484PXD024088 Dataset with its publication pending (from PRIDE) Dataset title: Neddylation modification on cGAS of human and mouse Possible reference: Li, C. et al. (2021) RNF111-facilitated neddylation potentiates cGAS-mediated antiviral innate immune response., PLoS Pathog, PMID 33720974PXD024085 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Streptomyces coelicolor vesicles Possible reference: Faddetta, T. et al. (2022) Streptomyces coelicolor Vesicles: Many Molecules To Be Delivered., Appl Environ Microbiol, PMID 34669446PXD024084 Dataset with its publication pending (from PRIDE) Dataset title: Autocatalytic activation of a malarial egress protease is druggable and requires a protein cofactor Possible reference: Tan, MSY. et al. (2021) Autocatalytic activation of a malarial egress protease is druggable and requires a protein cofactor., EMBO J, PMID 33932049PXD024075 Dataset with its publication pending (from PRIDE) Dataset title: Synaptic accumulation of FUS triggers early misregulation of synaptic RNAs in ALS-FUS mice Possible reference: Sahadevan, S. et al. (2021) Synaptic FUS accumulation triggers early misregulation of synaptic RNAs in a mouse model of ALS., Nat Commun, PMID 34021139PXD024060 Dataset with its publication pending (from PRIDE) Dataset title: Alteration of microbiota antibody-mediated immune selection contributes to dysbiosis in IBD Possible reference: Michaud, E. et al. (2022) Alteration of microbiota antibody-mediated immune selection contributes to dysbiosis in inflammatory bowel diseases., EMBO Mol Med, PMID 35785473PXD024051 Dataset with its publication pending (from PRIDE) Dataset title: ELOF1 is a transcription-coupled DNA repair factor that directs RNA polymerase II ubiquitylation Possible reference: van der Weegen, Y. et al. (2021) ELOF1 is a transcription-coupled DNA repair factor that directs RNA polymerase II ubiquitylation., Nat Cell Biol, PMID 34108663PXD024043 Dataset with its publication pending (from PRIDE) Dataset title: Ultra-high sensitivity mass spectrometry quantifies single-cell proteome changes upon perturbation Possible reference: Brunner, AD. et al. (2022) Ultra-high sensitivity mass spectrometry quantifies single-cell proteome changes upon perturbation., Mol Syst Biol, PMID 35226415PXD024035 Dataset with its publication pending (from PRIDE) Dataset title: Orphan nuclear receptor COUP-TFII enhances myofibroblasts glycolysis leading to kidney fibrosis Possible reference: Li, L. et al. (2021) Orphan nuclear receptor COUP-TFII enhances myofibroblast glycolysis leading to kidney fibrosis., EMBO Rep, PMID 34031962PXD024021 Dataset with its publication pending (from PRIDE) Dataset title: Comparative phosphoproteomic analysis of tomato genotypes with contrasting cadmium tolerance Possible reference: Marques, DN. et al. (2021) Comparative phosphoproteomic analysis of tomato genotypes with contrasting cadmium tolerance., Plant Cell Rep, PMID 34410462PXD024009 Dataset with its publication pending (from PRIDE) Dataset title: Effects of the IDH1 R132H mutation on the energy metabolism: a comparison between tissue and corresponding primary glioma cell cultures Possible reference: Dekker, LJM. et al. (2022) Effects of the IDH1 R132H Mutation on the Energy Metabolism: A Comparison between Tissue and Corresponding Primary Glioma Cell Cultures., ACS Omega, PMID 35128264PXD023998 Dataset with its publication pending (from PRIDE) Dataset title: Uropathogenic Escherichia coli biofilm proteomics Possible reference: Floyd, KA. et al. (2015) Adhesive fiber stratification in uropathogenic Escherichia coli biofilms unveils oxygen-mediated control of type 1 pili., PLoS Pathog, PMID 25738819PXD023980 Dataset with its publication pending (from iProX) Dataset title: GproDIA enables intact glycopeptide characterization using data‐independent acquisition glycoproteomics with comprehensive statistical control Possible reference: Yang, Y. et al. (2021) GproDIA enables data-independent acquisition glycoproteomics with comprehensive statistical control., Nat Commun, PMID 34663801PXD023978 Dataset with its publication pending (from PRIDE) Dataset title: Unresolved stalled ribosome complexes restrict cycle progression after genotoxic stress Possible reference: Stoneley, M. et al. (2022) Unresolved stalled ribosome complexes restrict cell-cycle progression after genotoxic stress., Mol Cell, PMID 35180429PXD023966 Dataset with its publication pending (from PRIDE) Dataset title: A cis-acting mechanism mediates transcriptional memory at Polycomb target genes in mammals Possible reference: Holoch, D. et al. (2021) A cis-acting mechanism mediates transcriptional memory at Polycomb target genes in mammals., Nat Genet, PMID 34782763PXD023965 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Laodelphax striatellus in response to rice stripe virus infection Possible reference: Huang, HJ. et al. (2021) Proteomic analysis of Laodelphax striatellus in response to Rice stripe virus infection reveal a potential role of ZFP36L1 in restriction of viral proliferation., J Proteomics, PMID 33711487PXD023951 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation and Optimization of High-Field Asymmetric Waveform Ion Mobility Spectrometry for Multiplexed Quantitative Site-specific N-glycoproteomics Possible reference: Fang, P. et al. (2021) Evaluation and Optimization of High-Field Asymmetric Waveform Ion-Mobility Spectrometry for Multiplexed Quantitative Site-Specific N-Glycoproteomics., Anal Chem, PMID 34133129PXD023947 no publication (from MassIVE) Dataset title: The Ubiquitin Interacting Motif Like Domain of Met4 is a K48 Polyubiquitin Chain Selective Binding Domain Possible reference: Villamil, M. et al. (2022) The Ubiquitin Interacting Motif-Like Domain of Met4 Selectively Binds K48 Polyubiquitin Chains., Mol Cell Proteomics, PMID 34763062PXD023943 Dataset with its publication pending (from PRIDE) Dataset title: Glycoproteomic and phenotypic elucidation of B4GALNT2 expression variants in the SID histo-blood group system Possible reference: Stenfelt, L. et al. (2022) Glycoproteomic and Phenotypic Elucidation of B4GALNT2 Expression Variants in the SID Histo-Blood Group System., Int J Mol Sci, PMID 35409292PXD023939 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial membrane proteins and VPS35 orchestrate selective removal of mtDNA Possible reference: Sen, A. et al. (2022) Mitochondrial membrane proteins and VPS35 orchestrate selective removal of mtDNA., Nat Commun, PMID 36344526PXD023936 Dataset with its publication pending (from PRIDE) Dataset title: Exploring the glycosylation state of the Cryptosporidium parvum CpTSP protein family-HILIC glycopeptide enrichment Possible reference: John, A. et al. (2023) Conservation, abundance, glycosylation profile, and localization of the TSP protein family in Cryptosporidium parvum., J Biol Chem, PMID 36775128PXD023935 Dataset with its publication pending (from PRIDE) Dataset title: Exploring the glycosylation state of the Cryptosporidium parvum CpTSP protein family-FAIMS proteome Possible reference: John, A. et al. (2023) Conservation, abundance, glycosylation profile, and localization of the TSP protein family in Cryptosporidium parvum., J Biol Chem, PMID 36775128PXD023920 Dataset with its publication pending (from PRIDE) Dataset title: Triple SILAC identified progesterone-independent and dependent PRA and PRB interacting partners in human breast cancer cells Possible reference: Pateetin, P. et al. (2021) Triple SILAC identified progestin-independent and dependent PRA and PRB interacting partners in breast cancer., Sci Data, PMID 33846359PXD023910 Dataset with its publication pending (from PRIDE) Dataset title: Nonsense-mediated decay in Plasmodium falciparum Possible reference: McHugh, E. et al. (2023) Nonsense-mediated decay machinery in Plasmodium falciparum is inefficient and non-essential., mSphere, PMID 37366629PXD023878 Dataset with its publication pending (from PRIDE) Dataset title: Unresolved stalled ribosome complexes restrict cycle progression after genotoxic stress Possible reference: Stoneley, M. et al. (2022) Unresolved stalled ribosome complexes restrict cell-cycle progression after genotoxic stress., Mol Cell, PMID 35180429PXD023873 Dataset with its publication pending (from PRIDE) Dataset title: AMPylation profiling during neuronal differentiation reveals extensive variation on lysosomal proteins Possible reference: Becker, T. et al. (2021) AMPylation profiling during neuronal differentiation reveals extensive variation on lysosomal proteins., iScience, PMID 34917898PXD023861 Dataset with its publication pending (from PRIDE) Dataset title: Unresolved stalled ribosome complexes restrict cycle progression after genotoxic stress Possible reference: Stoneley, M. et al. (2022) Unresolved stalled ribosome complexes restrict cell-cycle progression after genotoxic stress., Mol Cell, PMID 35180429PXD023859 Dataset with its publication pending (from PRIDE) Dataset title: Sex differences in the ventral tegmental area and nucleus accumbens proteome at baseline and following nicotine exposure Possible reference: Lee, AM. et al. (2021) Sex Differences in the Ventral Tegmental Area and Nucleus Accumbens Proteome at Baseline and Following Nicotine Exposure., Front Mol Neurosci, PMID 34335180PXD023855 Dataset with its publication pending (from PanoramaPublic) Dataset title: RGI-GOLVEN signalling promotes FLS2 abundance to regulate plant immunity Possible reference: Stegmann, M. et al. (2022) RGI-GOLVEN signaling promotes cell surface immune receptor abundance to regulate plant immunity., EMBO Rep, PMID 35229426PXD023854 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic analysis of Toxoplasma gondii mutants of the mitochondrial and plastidic Iron sulfur cluster synthesis pathways. Possible reference: Pamukcu, S. et al. (2021) Differential contribution of two organelles of endosymbiotic origin to iron-sulfur cluster synthesis and overall fitness in Toxoplasma., PLoS Pathog, PMID 34793583PXD023853 Dataset with its publication pending (from PRIDE) Dataset title: OXI1 coordinates programmed cell death by promoting salicylic acid, N-hydroxypipecolic acid and reactive oxygen species accumulation in Arabidopsis Possible reference: Rawat, AA. et al. (2023) OXIDATIVE SIGNAL-INDUCIBLE1 induces immunity by coordinating N-hydroxypipecolic acid, salicylic acid, and camalexin synthesis., New Phytol, PMID 36319610PXD023851 Dataset with its publication pending (from PRIDE) Dataset title: IgE antibodies increase honeybee venom responsiveness and detoxification efficiency of mast cells Possible reference: Starkl, P. et al. (2022) IgE antibodies increase honeybee venom responsiveness and detoxification efficiency of mast cells., Allergy, PMID 33840121PXD023834 Dataset with its publication pending (from PRIDE) Dataset title: A type I IFN, prothrombotic hyperinflammatory neutrophil signature is distinct for COVID-19 ARDS Possible reference: Reyes, L. et al. (2021) -------A type I IFN, prothrombotic hyperinflammatory neutrophil signature is distinct for COVID-19 ARDS--., Wellcome Open Res, PMID 33997298PXD023822 Dataset with its publication pending (from PRIDE) Dataset title: Impact of sulfamethoxazole on a riverine microbiome Possible reference: Borsetto, C. et al. (2021) Impact of sulfamethoxazole on a riverine microbiome., Water Res, PMID 34225233PXD023811 Dataset with its publication pending (from PRIDE) Dataset title: Staphylococcus aureus Trigger factor is involved in biofilm formation and cooperates with the chaperone PpiB Possible reference: Keogh, RA. et al. (2021) Staphylococcus aureus Trigger Factor Is Involved in Biofilm Formation and Cooperates with the Chaperone PpiB., J Bacteriol, PMID 33468596PXD023803 no publication (from MassIVE) Dataset title: Phosphoproteomics of ATR Signaling in Prophase I of Mouse Meiosis Possible reference: Sims, JR. et al. (2022) Phosphoproteomics of ATR signaling in mouse testes., Elife, PMID 35133275PXD023802 Dataset with its publication pending (from PRIDE) Dataset title: Heading towards a dead end: the role of DND1 in germ line differentiation of human iPSCs Possible reference: Mall, EM. et al. (2021) Heading towards a dead end: The role of DND1 in germ line differentiation of human iPSCs., PLoS One, PMID 34653201PXD023794 no publication (from MassIVE) Dataset title: Triazine pyridine chemistry for selective tyrosine labelling of proteins Possible reference: Sequist, LV. et al. (2020) Osimertinib plus savolitinib in patients with EGFR mutation-positive, MET-amplified, non-small-cell lung cancer after progression on EGFR tyrosine kinase inhibitors: interim results from a multicentre, open-label, phase 1b study., Lancet Oncol, PMID 32027846PXD023786 Dataset with its publication pending (from PRIDE) Dataset title: SNAPIN regulates β cell cycle progression to promote pancreatic β cell growth Possible reference: Jiang, M. et al. (2021) SNAPIN Regulates Cell Cycle Progression to Promote Pancreatic β Cell Growth., Front Endocrinol (Lausanne), PMID 34194388PXD023756 Dataset with its publication pending (from PRIDE) Dataset title: Comparative Proteomic Analysis of Fucosylated Glycoproteins in Bacteroides thetaiotaomicron under Different Polysaccharide Nutrition Conditions Possible reference: Tian, X. et al. (2022) Comparative Proteomic Analysis of Fucosylated Glycoproteins Produced by Bacteroides thetaiotaomicron Under Different Polysaccharide Nutrition Conditions., Front Microbiol, PMID 35308349PXD023754 Dataset with its publication pending (from PRIDE) Dataset title: ACE2 independent SARS-CoV-2 infection of a human lung cell line Possible reference: Yamamoto, M. et al. (2020) The Anticoagulant Nafamostat Potently Inhibits SARS-CoV-2 S Protein-Mediated Fusion in a Cell Fusion Assay System and Viral Infection In Vitro in a Cell-Type-Dependent Manner., Viruses, PMID 32532094PXD023751 Dataset with its publication pending (from PRIDE) Dataset title: Covalent histone modification by an electrophilic derivative of the anti-HIV drug nevirapine Possible reference: Harjivan, SG. et al. (2021) Covalent Histone Modification by an Electrophilic Derivative of the Anti-HIV Drug Nevirapine., Molecules, PMID 33802579PXD023745 no publication (from MassIVE) Dataset title: A BLOOD BANK STANDARDIZED PRODUCTION OF HUMAN PLATELET LYSATE FOR MESENCHYMAL STROMAL CELLS EXPANSION: PROTEOMIC CHARACTERIZATION AND BIOLOGICAL EFFECTS Possible reference: Bianchetti, A. et al. (2021) A Blood Bank Standardized Production of Human Platelet Lysate for Mesenchymal Stromal Cell Expansion: Proteomic Characterization and Biological Effects., Front Cell Dev Biol, PMID 34055779PXD023743 no publication (from MassIVE) Dataset title: Selective inhibition reveals the regulatory function of DYRK2 in protein synthesis and calcium entry Possible reference: Wei, T. et al. (2022) Selective inhibition reveals the regulatory function of DYRK2 in protein synthesis and calcium entry., Elife, PMID 35439114PXD023732 Dataset with its publication pending (from PRIDE) Dataset title: PROBER Identifies Proteins Associated with Sequence- Specific DNA in Living Cells Possible reference: Mondal, S. et al. (2022) PROBER identifies proteins associated with programmable sequence-specific DNA in living cells., Nat Methods, PMID 35927480PXD023729 Dataset with its publication pending (from PRIDE) Dataset title: Escherichia coli proteome during outgrowth from stationary phase Possible reference: Hoch, PG. et al. (2015) Phenotypic characterization and complementation analysis of Bacillus subtilis 6S RNA single and double deletion mutants., Biochimie, PMID 25576829PXD023720 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative Proteomic Analysis in Alveolar Type II Cells Reveals the Different Capacities of RAS and TGF-β to Induce EpithelialâMesenchymal Transition Possible reference: Zhou, Y. et al. (2021) Quantitative Proteomic Analysis in Alveolar Type II Cells Reveals the Different Capacities of RAS and TGF-β to Induce Epithelial-Mesenchymal Transition., Front Mol Biosci, PMID 33869273PXD023712 Dataset with its publication pending (from PRIDE) Dataset title: The esterase PfeE, Achilles heel in the battle for iron between Pseudomonas aeruginosa and Escherichia coli Possible reference: Gasser, V. et al. (2021) The Esterase PfeE, the Achilles' Heel in the Battle for Iron between Pseudomonas aeruginosa and Escherichia coli., Int J Mol Sci, PMID 33802163PXD023707 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of the human Fallopian tube matrisome Possible reference: Renner, C. et al. (2022) Multi-modal Profiling of the Extracellular Matrix of Human Fallopian Tubes and Serous Tubal Intraepithelial Carcinomas., J Histochem Cytochem, PMID 34866441PXD023705 Dataset with its publication pending (from PRIDE) Dataset title: Tissue extracellular matrix hydrogels as alternative to Matrigel for culturing gastrointestinal organoid Possible reference: Cherne, MD. et al. (2021) A Synthetic Hydrogel, VitroGel ORGANOID-3, Improves Immune Cell-Epithelial Interactions in a Tissue Chip Co-Culture Model of Human Gastric Organoids and Dendritic Cells., Front Pharmacol, PMID 34552484PXD023701 Dataset with its publication pending (from PRIDE) Dataset title: Scaffold-free 3D cell culture of primary skin fibroblasts induces profound changes of the matrisome Possible reference: Vu, B. et al. (2021) Scaffold-free 3D cell culture of primary skin fibroblasts induces profound changes of the matrisome., Matrix Biol Plus, PMID 34435183PXD023694 Dataset with its publication pending (from PRIDE) Dataset title: Tissue extracellular matrix hydrogels as alternative to Matrigel for culturing gastrointestinal organoids Possible reference: Cherne, MD. et al. (2021) A Synthetic Hydrogel, VitroGel ORGANOID-3, Improves Immune Cell-Epithelial Interactions in a Tissue Chip Co-Culture Model of Human Gastric Organoids and Dendritic Cells., Front Pharmacol, PMID 34552484PXD023685 Dataset with its publication pending (from PRIDE) Dataset title: SEVERE CONSEQUENCES OF A HIGH-LIPID DIET INCLUDE HYDROGEN SULFIDE DYSFUNCTION AND DISEASE AGGRESSION IN GLIOBLASTOMA Possible reference: Silver, DJ. et al. (2021) Severe consequences of a high-lipid diet include hydrogen sulfide dysfunction and enhanced aggression in glioblastoma., J Clin Invest, PMID 34255747PXD023653 Dataset with its publication pending (from PRIDE) Dataset title: Elp2 mutations perturb the epitranscriptome and lead to a complex neurodevelopmental phenotype Possible reference: Kojic, M. et al. (2021) Elp2 mutations perturb the epitranscriptome and lead to a complex neurodevelopmental phenotype., Nat Commun, PMID 33976153PXD023649 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Flavobacterium johnsoniae Possible reference: Fang, X. et al. (2015) [Construction and application of bioinformatic analysis platform for aquatic pathogen based on the MilkyWay-2 supercomputer]., Yi Chuan, PMID 26351170PXD023645 Dataset with its publication pending (from PRIDE) Dataset title: The strategy of a novel way to enhance bacterial motility Possible reference: Orrskog, S. et al. (2012) Pilus adhesin RrgA interacts with complement receptor 3, thereby affecting macrophage function and systemic pneumococcal disease., mBio, PMID 23269830PXD023641 no publication (from MassIVE) Dataset title: Atase1 and Atase2 differentially regulate reticulophagy and cellular acetyl-CoA metabolism Possible reference: Rigby, MJ. et al. (2021) Endoplasmic reticulum acetyltransferases Atase1 and Atase2 differentially regulate reticulophagy, macroautophagy and cellular acetyl-CoA metabolism., Commun Biol, PMID 33846551PXD023639 no publication (from MassIVE) Dataset title: The tumor suppressor kinase DAPK3 drives tumor-intrinsic immunity through the STING-IFNb pathway Proteome Possible reference: Takahashi, M. et al. (2021) The tumor suppressor kinase DAPK3 drives tumor-intrinsic immunity through the STING-IFN-β pathway., Nat Immunol, PMID 33767426PXD023637 no publication (from MassIVE) Dataset title: The tumor suppressor kinase DAPK3 drives tumor-intrinsic immunity through the STING-IFNb pathway Phospho Possible reference: Takahashi, M. et al. (2021) The tumor suppressor kinase DAPK3 drives tumor-intrinsic immunity through the STING-IFN-β pathway., Nat Immunol, PMID 33767426PXD023630 Dataset with its publication pending (from PRIDE) Dataset title: Chemo-proteomics exploration of HDAC degradability by small molecule degraders Possible reference: Xiong, Y. et al. (2021) Chemo-proteomics exploration of HDAC degradability by small molecule degraders., Cell Chem Biol, PMID 34314730PXD023612 Dataset with its publication pending (from PRIDE) Dataset title: Allergenicity Assessment and Allergen Profile Analysis of Different Chinese Wheat Cultivars Possible reference: Wang, Y. et al. (2021) Allergenicity assessment and allergen profile analysis of different Chinese wheat cultivars., World Allergy Organ J, PMID 34257797PXD023608 Dataset with its publication pending (from PRIDE) Dataset title: Time-resolved proteome analysis of Listeria monocytogenes during infection reveals the role of the AAA+ chaperone ClpC for host cell adaptation Possible reference: Birk, MS. et al. (2021) Time-Resolved Proteome Analysis of Listeria monocytogenes during Infection Reveals the Role of the AAA+ Chaperone ClpC for Host Cell Adaptation., mSystems, PMID 34342529PXD023601 Dataset with its publication pending (from PRIDE) Dataset title: Nitric Oxide Is Associated with Heterosis of Salinity Tolerance in Brassica napus L. Possible reference: Zhang, Y. et al. (2021) Nitric Oxide Is Associated With Heterosis of Salinity Tolerance in Brassica napus L., Front Plant Sci, PMID 34122475PXD023591 Dataset with its publication pending (from PRIDE) Dataset title: Orthogonal degron system for controlled protein degradation in cyanobacteria Possible reference: Sakkos, JK. et al. (2021) Orthogonal Degron System for Controlled Protein Degradation in Cyanobacteria., ACS Synth Biol, PMID 34232633PXD023579 Dataset with its publication pending (from PRIDE) Dataset title: K27-linked ubiquitylation promotes p97 substrate processing and is essential for cell proliferation Possible reference: Shearer, RF. et al. (2022) K27-linked ubiquitylation promotes p97 substrate processing and is essential for cell proliferation., EMBO J, PMID 35349166PXD023553 Dataset with its publication pending (from PRIDE) Dataset title: Discovery and evaluation of protein biomarkers as a signature of wellness in late stage cancer patients in early phase clinical trials Possible reference: Geary, B. et al. (2021) Discovery and Evaluation of Protein Biomarkers as a Signature of Wellness in Late-Stage Cancer Patients in Early Phase Clinical Trials., Cancers (Basel), PMID 34069985PXD023547 Dataset with its publication pending (from PRIDE) Dataset title: Defining Essential Regulators of Nave Human Pluripotent Cell Reprogramming Possible reference: Collier, AJ. et al. (2022) Genome-wide screening identifies Polycomb repressive complex 1.3 as an essential regulator of human nave pluripotent cell reprogramming., Sci Adv, PMID 35333572PXD023543 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomic analysis of different parts of Taenia hydatigena Possible reference: Cai, M. et al. (2021) Comparative Proteomic Analysis of Different Parts of Taenia Hydatigena., Front Vet Sci, PMID 33981740PXD023542 Dataset with its publication pending (from PRIDE) Dataset title: Targeted in situ cross-linking for determination of structure and interactions of SARS-CoV-2 proteins in the cellular context Possible reference: Slavin, M. et al. (2021) Targeted in situ cross-linking mass spectrometry and integrative modeling reveal the architectures of three proteins from SARS-CoV-2., Proc Natl Acad Sci U S A, PMID 34373319PXD023534 no publication (from MassIVE) Dataset title: Cardiac proteome of Western painted turtle Possible reference: Alderman, SL. et al. (2021) Cold acclimation induces life stage-specific responses in the cardiac proteome of western painted turtles (Chrysemys picta bellii): implications for anoxia tolerance., J Exp Biol, PMID 34328184PXD023530 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic characterization of bacteriophage peptides from mastitis producer Staphylococcus aureus by LC-ESI-MS/MS and their bacteriophage phylogenomic analysis Possible reference: Abril, AG. et al. (2021) Proteomic Characterization of Bacteriophage Peptides from the Mastitis Producer Staphylococcus aureus by LC-ESI-MS/MS and the Bacteriophage Phylogenomic Analysis., Foods, PMID 33917943PXD023506 Dataset with its publication pending (from PRIDE) Dataset title: Sexual dimorphism in zebrafish heart associated proteins Possible reference: Frints, SGM. et al. (2019) Deleterious de novo variants of X-linked ZC4H2 in females cause a variable phenotype with neurogenic arthrogryposis multiplex congenita., Hum Mutat, PMID 31206972PXD023491 Dataset with its publication pending (from PRIDE) Dataset title: A long-term 3D organoid (tubuloid) model of the adult mouse kidney Possible reference: Myszczyszyn, A. et al. (2024) Mice with renal-specific alterations of stem cell-associated signaling develop symptoms of chronic kidney disease but surprisingly no tumors., PLoS One, PMID 38512983PXD023450 Dataset with its publication pending (from PRIDE) Dataset title: Type-I interferon signatures in SARS-CoV-2 infected Huh7 cells Possible reference: Chen, X. et al. (2021) Type-I interferon signatures in SARS-CoV-2 infected Huh7 cells., Cell Death Discov, PMID 34006825PXD023446 no publication (from MassIVE) Dataset title: Elucidation of Familial Relationships Using Hair Shaft Proteomics Possible reference: Karim, N. et al. (2021) Elucidation of familial relationships using hair shaft proteomics., Forensic Sci Int Genet, PMID 34315035PXD023431 Dataset with its publication pending (from PRIDE) Dataset title: Secretomic analysis of a novel strain SM1988 Possible reference: Li, J. et al. (2021) Taxonomic and Enzymatic Characterization of Flocculibacter collagenilyticus gen. nov., sp. nov., a Novel Gammaproteobacterium With High Collagenase Production., Front Microbiol, PMID 33786038PXD023422 Dataset with its publication pending (from PRIDE) Dataset title: Fluvastatin mitigates SARS-CoV-2 infection in human lung cells Possible reference: Zapatero-Belinchn, FJ. et al. (2021) Fluvastatin mitigates SARS-CoV-2 infection in human lung cells., iScience, PMID 34812415PXD023421 no publication (from MassIVE) Dataset title: The Campylobacter jejuni CiaD effector co-opts the host cell protein IQGAP1 to promote cell entry Possible reference: Negretti, NM. et al. (2021) The Campylobacter jejuni CiaD effector co-opts the host cell protein IQGAP1 to promote cell entry., Nat Commun, PMID 33637714PXD023389 Dataset with its publication pending (from PRIDE) Dataset title: GCN5 associated complex in human malaria Plasmodium falciparum Possible reference: Hoeijmakers, WAM. et al. (2019) Epigenetic reader complexes of the human malaria parasite, Plasmodium falciparum., Nucleic Acids Res, PMID 31728527PXD023361 Dataset with its publication pending (from PRIDE) Dataset title: The Cdk8 kinase module regulates Mediator-RNA polymerase II interaction Possible reference: Tsai, KL. et al. (2013) A conserved Mediator-CDK8 kinase module association regulates Mediator-RNA polymerase II interaction., Nat Struct Mol Biol, PMID 23563140PXD023357 Dataset with its publication pending (from PRIDE) Dataset title: Metaproteogenomic profiling of chemosynthetic microbial biofilms reveals metabolic flexibility during colonization of a shallow-water gas vent Possible reference: Patwardhan, S. et al. (2021) Metaproteogenomic Profiling of Chemosynthetic Microbial Biofilms Reveals Metabolic Flexibility During Colonization of a Shallow-Water Gas Vent., Front Microbiol, PMID 33889140PXD023355 Dataset with its publication pending (from PRIDE) Dataset title: Tolerogenic effect elicited by protein fraction derived from different formulas for dietary treatment of cow’s milk allergy in human cells Possible reference: Paparo, L. et al. (2020) Tolerogenic Effect Elicited by Protein Fraction Derived From Different Formulas for Dietary Treatment of Cow's Milk Allergy in Human Cells., Front Immunol, PMID 33679694PXD023333 Dataset with its publication pending (from jPOST) Dataset title: Proteome analysis of high affinity mouse C3H/HeN saliva-1proteins to hydroxyapatite Possible reference: Ohshima, K. et al. (2022) Proteome analysis of high affinity mouse saliva proteins to hydroxyapatite., Heliyon, PMID 36033281PXD023332 Dataset with its publication pending (from jPOST) Dataset title: Proteome analysis of high affinity mouse BALB/cA saliva-1proteins to hydroxyapatite Possible reference: Ohshima, K. et al. (2022) Proteome analysis of high affinity mouse saliva proteins to hydroxyapatite., Heliyon, PMID 36033281PXD023325 Dataset with its publication pending (from jPOST) Dataset title: Streamlined Single-cell Proteomics by an Integrated Microfluidic Chip and Data-independent Acquisition Mass Spectrometry Possible reference: Gebreyesus, ST. et al. (2022) Streamlined single-cell proteomics by an integrated microfluidic chip and data-independent acquisition mass spectrometry., Nat Commun, PMID 35013269PXD023314 Dataset with its publication pending (from PRIDE) Dataset title: TMT-based quantitative proteomic analysis reveals defense mechanism of wheat against the crown rot pathogen Fusarium pseudograminearum Possible reference: Qiao, F. et al. (2021) TMT-based quantitative proteomic analysis reveals defense mechanism of wheat against the crown rot pathogen Fusarium pseudograminearum., BMC Plant Biol, PMID 33557748PXD023311 Dataset with its publication pending (from PRIDE) Dataset title: Novel Proteome and N-glycoproteome of the Thermophilic Fungus Chaetomium thermophilugm in Response to High Temperature Possible reference: Gao, J. et al. (2021) Novel Proteome and N-Glycoproteome of the Thermophilic Fungus Chaetomium thermophilum in Response to High Temperature., Front Microbiol, PMID 34163440PXD023289 Dataset with its publication pending (from PRIDE) Dataset title: The GORKY Glycoalkaloid Transporter is Indispensable for Preventing Tomato Bitterness Possible reference: Kazachkova, Y. et al. (2021) The GORKY glycoalkaloid transporter is indispensable for preventing tomato bitterness., Nat Plants, PMID 33707737PXD023255 no publication (from MassIVE) Dataset title: Genetic inactivation of RIP1 kinase activity in rats protects against ischemic brain injury Possible reference: Stark, K. et al. (2021) Genetic inactivation of RIP1 kinase activity in rats protects against ischemic brain injury., Cell Death Dis, PMID 33828080PXD023244 Dataset with its publication pending (from PRIDE) Dataset title: Bioinformatic analysis of the wound peptidome reveals potential biomarkers and antimicrobial peptides Possible reference: Hartman, E. et al. (2020) Bioinformatic Analysis of the Wound Peptidome Reveals Potential Biomarkers and Antimicrobial Peptides., Front Immunol, PMID 33613550PXD023228 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of the secretome of seven Leishmania species Possible reference: Pissarra, J. et al. (2022) Proteomic Analysis of the Promastigote Secretome of Seven Leishmania Species., J Proteome Res, PMID 34806897PXD023218 Dataset with its publication pending (from PRIDE) Dataset title: Linking post-translational modifications and protein turnover by site-resolved protein turnover (SPOT) profiling Possible reference: Zecha, J. et al. (2022) Linking post-translational modifications and protein turnover by site-resolved protein turnover profiling., Nat Commun, PMID 35013197PXD023209 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive analysis of the host-virus interactome of SARS-CoV-2 Possible reference: Kamel, W. et al. (2021) Global analysis of protein-RNA interactions in SARS-CoV-2-infected cells reveals key regulators of infection., Mol Cell, PMID 34118193PXD023208 Dataset with its publication pending (from jPOST) Dataset title: Peptides with phosphorylation sites found in human DDHD1 Possible reference: Matsumoto, N. et al. (2021) Phosphorylation of human phospholipase A1 DDHD1 at newly identified phosphosites affects its subcellular localization., J Biol Chem, PMID 34089703PXD023190 Dataset with its publication pending (from PRIDE) Dataset title: Human blood microRNAs and their potential effect on mosquitoes Possible reference: Shahen, M. et al. (2018) Dengue virus causes changes of MicroRNA-genes regulatory network revealing potential targets for antiviral drugs., BMC Syst Biol, PMID 29301573PXD023175 Dataset with its publication pending (from PRIDE) Dataset title: COMBAT – Covid-19 Multi-omics Blood ATlas Possible reference: Downes, DJ. et al. (2021) Identification of LZTFL1 as a candidate effector gene at a COVID-19 risk locus., Nat Genet, PMID 34737427PXD023143 Dataset with its publication pending (from PRIDE) Dataset title: Immunopeptidome of isolated patient- derived hepatocytes in Hepatitis B viral infection and hepatocellular carcinoma Possible reference: de Beijer, MTA. et al. (2022) Immunopeptidome of hepatocytes isolated from patients with HBV infection and hepatocellular carcinoma., JHEP Rep, PMID 36185575PXD023142 Dataset with its publication pending (from PRIDE) Dataset title: Serine biosynthesis is a metabolic vulnerability in IDH2-driven breast cancer progression Possible reference: Barnabas, GD. et al. (2021) Serine Biosynthesis Is a Metabolic Vulnerability in IDH2-Driven Breast Cancer Progression., Cancer Res, PMID 33500247PXD023138 Dataset with its publication pending (from PRIDE) Dataset title: SARS-CoV-2 S protein ACE2 interaction reveals novel allosteric targets Possible reference: Meirson, T. et al. (2021) Structural basis of SARS-CoV-2 spike protein induced by ACE2., Bioinformatics, PMID 32818261PXD023136 Dataset with its publication pending (from PRIDE) Dataset title: Optic Atrophy-associated TMEM126A is an assembly factor for the ND4-module of Mitochondrial Complex I Possible reference: Formosa, LE. et al. (2021) Optic atrophy-associated TMEM126A is an assembly factor for the ND4-module of mitochondrial complex I., Proc Natl Acad Sci U S A, PMID 33879611PXD023135 Dataset with its publication pending (from PRIDE) Dataset title: Dysregulation of the cGAS/STING axis due to COPI-deficiency Possible reference: Mathavarajah, S. et al. (2019) An emerging role for calcium signalling in innate and autoimmunity via the cGAS-STING axis., Cytokine Growth Factor Rev, PMID 30955997PXD023126 Dataset with its publication pending (from PRIDE) Dataset title: The type III secretion system effector EspO of enterohemorrhagic Escherichia coli inhibits apoptosis through an interaction with HAX-1 Possible reference: Chatterjee, S. et al. (2021) The type III secretion system effector EspO of enterohaemorrhagic Escherichia coli inhibits apoptosis through an interaction with HAX-1., Cell Microbiol, PMID 34021690PXD023124 Dataset with its publication pending (from PRIDE) Dataset title: Nucleotide sugar biosynthesis occurs in the glycosomes of procyclic and bloodstream form Trypanosoma brucei Possible reference: Sampaio Guther, ML. et al. (2021) Nucleotide sugar biosynthesis occurs in the glycosomes of procyclic and bloodstream form Trypanosoma brucei., PLoS Negl Trop Dis, PMID 33592041PXD023122 Dataset with its publication pending (from PRIDE) Dataset title: Pseudouridine-modified tRNA fragments repress malignant protein synthesis and predict leukemic progression in myelodysplastic syndrome Possible reference: Guzzi, N. et al. (2022) Pseudouridine-modified tRNA fragments repress aberrant protein synthesis and predict leukaemic progression in myelodysplastic syndrome., Nat Cell Biol, PMID 35292784PXD023121 Dataset with its publication pending (from PRIDE) Dataset title: FAM83F regulates canonical Wnt signalling through an interaction with CK1α Possible reference: Dunbar, K. et al. (2021) FAM83F regulates canonical Wnt signalling through an interaction with CK1α., Life Sci Alliance, PMID 33361109PXD023116 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative Beer SWATH-MS Proteomics Possible reference: Schulz, BL. et al. (2018) Process Proteomics of Beer Reveals a Dynamic Proteome with Extensive Modifications., J Proteome Res, PMID 29457908PXD023109 Dataset with its publication pending (from PRIDE) Dataset title: Protein-based vaccine protect against Piscirickettsia salmonis in Atlantic salmon (Salmo salar) Possible reference: Pontigo, JP. et al. (2021) Protein-Based Vaccine Protect Against Piscirickettsia salmonis in Atlantic Salmon (Salmo salar)., Front Immunol, PMID 33679740PXD023096 Dataset with its publication pending (from PRIDE) Dataset title: : The effects of chronic morphine on the endogenous cannabinoid system in the ventral tegmental area Possible reference: Zhang, H. et al. (2021) The Effects of Repeated Morphine Treatment on the Endogenous Cannabinoid System in the Ventral Tegmental Area., Front Pharmacol, PMID 33953672PXD023092 Dataset with its publication pending (from PRIDE) Dataset title: Galactolipid and Phospholipid Profile and Proteome Alterations in Soybean Leaves at the Onset of Salt Stress Possible reference: Liu, A. et al. (2021) Galactolipid and Phospholipid Profile and Proteome Alterations in Soybean Leaves at the Onset of Salt Stress., Front Plant Sci, PMID 33815451PXD023091 Dataset with its publication pending (from PRIDE) Dataset title: Glycosylation Limits Forward Trafficking of the Tetraspan Membrane Protein PMP22 Possible reference: Marinko, JT. et al. (2021) Glycosylation limits forward trafficking of the tetraspan membrane protein PMP22., J Biol Chem, PMID 33933451PXD023072 Dataset with its publication pending (from PRIDE) Dataset title: Notch-Jagged signaling complex defined by an interaction mosaic Possible reference: Zeronian, MR. et al. (2021) Notch-Jagged signaling complex defined by an interaction mosaic., Proc Natl Acad Sci U S A, PMID 34301900PXD023071 Dataset with its publication pending (from PRIDE) Dataset title: Protein composition in thylakoids of Arabidopsis without Lhcb3 and Lhcb6 Possible reference: Kouřil, R. et al. (2013) High-light vs. low-light: effect of light acclimation on photosystem II composition and organization in Arabidopsis thaliana., Biochim Biophys Acta, PMID 23274453PXD023064 Dataset with its publication pending (from PRIDE) Dataset title: Systematic HLA Epitope Ranking Pan Algorithm (SHERPA) Possible reference: Pyke, RM. et al. (2023) Precision Neoantigen Discovery Using Large-Scale Immunopeptidomes and Composite Modeling of MHC Peptide Presentation., Mol Cell Proteomics, PMID 36796642PXD023050 Dataset with its publication pending (from PRIDE) Dataset title: High levels of TFAM repress in vivo transcription of mitochondrial DNA Possible reference: Bonekamp, NA. et al. (2021) High levels of TFAM repress mammalian mitochondrial DNA transcription in vivo., Life Sci Alliance, PMID 34462320PXD023048 Dataset with its publication pending (from PRIDE) Dataset title: iTRAQ-based proteomic analysis of dentate gyrus in temporal lobe epilepsy with hippocampal sclerosis Possible reference: Xiao, W. et al. (2020) iTRAQ-Based Proteomic Analysis of Dentate Gyrus in Temporal Lobe Epilepsy With Hippocampal Sclerosis., Front Neurol, PMID 33569037PXD023047 Dataset with its publication pending (from PRIDE) Dataset title: Arabidopsis EARLY RESPONSIVE TO DEHYDRATION 7 associates with lipid droplets via its senescence domain Possible reference: Doner, NM. et al. (2021) Arabidopsis thaliana EARLY RESPONSIVE TO DEHYDRATION 7 Localizes to Lipid Droplets via Its Senescence Domain., Front Plant Sci, PMID 33936146PXD023039 Dataset with its publication pending (from PRIDE) Dataset title: Staphylococcus aureus responds to physiologically relevant temperature changes by altering its global transcript and protein profile Possible reference: Bastock, RA. et al. (2021) Staphylococcus aureus Responds to Physiologically Relevant Temperature Changes by Altering Its Global Transcript and Protein Profile., mSphere, PMID 33731473PXD023019 Dataset with its publication pending (from PRIDE) Dataset title: Isoginkgetin derivative IP2 enhances the adaptive immune response against tumor antigens Possible reference: Darrigrand, R. et al. (2021) Isoginkgetin derivative IP2 enhances the adaptive immune response against tumor antigens., Commun Biol, PMID 33649389PXD023013 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-wide analysis of Lysine 2-Hydroxyisobutyrylation in Candida albicans Possible reference: Zheng, H. et al. (2021) Proteome-Wide Analysis of Lysine 2-Hydroxyisobutyrylation in Candida albicans., mSystems, PMID 33531408PXD023011 Dataset with its publication pending (from PRIDE) Dataset title: Lysine lactylation critically regulated energy metabolism of the protozoan parasite Trypanosoma brucei Possible reference: Zhang, N. et al. (2021) Protein Lactylation Critically Regulates Energy Metabolism in the Protozoan Parasite Trypanosoma brucei., Front Cell Dev Biol, PMID 34722503PXD022992 Dataset with its publication pending (from PRIDE) Dataset title: Data-independent Acquisition-based Proteome and Phosphoproteome Profiling across Six Melanoma Cell Lines Possible reference: Gao, E. et al. (2021) Data-independent acquisition-based proteome and phosphoproteome profiling across six melanoma cell lines reveals determinants of proteotypes., Mol Omics, PMID 33728422PXD022988 Dataset with its publication pending (from PRIDE) Dataset title: Counterion Optimization Dramatically Improves Selectivity for Phosphopeptides and Glycopeptides in Electrostatic Repulsion-Hydrophilic Interaction Chromatography (ERLIC) Possible reference: Cui, Y. et al. (2021) Counterion Optimization Dramatically Improves Selectivity for Phosphopeptides and Glycopeptides in Electrostatic Repulsion-Hydrophilic Interaction Chromatography., Anal Chem, PMID 34042420PXD022985 Dataset with its publication pending (from PRIDE) Dataset title: PDGFR signaling in recessive dystrophic epidermolysis bullosa Possible reference: Iinuma, S. et al. (2015) Transplanted bone marrow-derived circulating PDGFRα+ cells restore type VII collagen in recessive dystrophic epidermolysis bullosa mouse skin graft., J Immunol, PMID 25601922PXD022979 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic identification of the UDP-GlcNAc : PI α1-6 GlcNAc-transferase subunits of the glycosylphosphatidylinositol biosynthetic pathway of Trypanosoma brucei. Possible reference: Ji, Z. et al. (2021) Proteomic identification of the UDP-GlcNAc: PI α1-6 GlcNAc-transferase subunits of the glycosylphosphatidylinositol biosynthetic pathway of Trypanosoma brucei., PLoS One, PMID 33735232PXD022969 Dataset with its publication pending (from PRIDE) Dataset title: Mycobacterium tuberculosis H2S functions as a sink to modulate central metabolism, bioenergetics, and drug susceptibility Possible reference: Kunota, TTR. et al. (2021) Mycobacterium tuberculosis H2S Functions as a Sink to Modulate Central Metabolism, Bioenergetics, and Drug Susceptibility., Antioxidants (Basel), PMID 34439535PXD022935 no publication (from MassIVE) Dataset title: Protein mimetic amyloid inhibitor potently abrogates cancer-associated mutant p53 aggregation and restores tumor suppressor function Possible reference: Palanikumar, L. et al. (2021) Protein mimetic amyloid inhibitor potently abrogates cancer-associated mutant p53 aggregation and restores tumor suppressor function., Nat Commun, PMID 34172723PXD022934 no publication (from MassIVE) Dataset title: PTEN DEFICIENCY LEADS TO PROTEASOME ADDICTION, A NOVEL VULNERABILITY IN GLIOBLASTOMA Possible reference: Benitez, JA. et al. (2021) PTEN deficiency leads to proteasome addiction: a novel vulnerability in glioblastoma., Neuro Oncol, PMID 33428749PXD022932 no publication (from MassIVE) Dataset title: Impaired phosphatidylethanolamine metabolism activates a reversible stress response that detects and resolves mutant mitochondrial precursors Possible reference: Sam, PN. et al. (2021) Impaired phosphatidylethanolamine metabolism activates a reversible stress response that detects and resolves mutant mitochondrial precursors., iScience, PMID 33718843PXD022913 Dataset with its publication pending (from PRIDE) Dataset title: TALEN-based HvMPK3 knockout attenuates proteome and phenotype responses to flg22 in barley Possible reference: Takáč, T. et al. (2021) TALEN-Based HvMPK3 Knock-Out Attenuates Proteome and Root Hair Phenotypic Responses to flg22 in Barley., Front Plant Sci, PMID 33995462PXD022900 Dataset with its publication pending (from iProX) Dataset title: Phosphoproteome of honeybee brain Possible reference: Bezabih, G. et al. (2017) Phosphoproteome Analysis Reveals Phosphorylation Underpinnings in the Brains of Nurse and Forager Honeybees (Apis mellifera)., Sci Rep, PMID 28512345PXD022889 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic signature of host response to SARS-CoV-2 infection in the nasopharynx Possible reference: Biji, A. et al. (2021) Identification of COVID-19 prognostic markers and therapeutic targets through meta-analysis and validation of Omics data from nasopharyngeal samples., EBioMedicine, PMID 34392148PXD022872 Dataset with its publication pending (from PRIDE) Dataset title: GENETIC SUBTYPE- AND CELL TYPE-SPECIFIC PROTEIN SIGNATURES IN FRONTOTEMPORAL DEMENTIA Possible reference: Miedema, SSM. et al. (2022) Distinct cell type-specific protein signatures in GRN and MAPT genetic subtypes of frontotemporal dementia., Acta Neuropathol Commun, PMID 35799292PXD022870 Dataset with its publication pending (from PRIDE) Dataset title: MALDI-IMS combined with shotgun proteomics identify and localize new factors in male infertility Possible reference: Lahiri, S. et al. (2021) MALDI-IMS combined with shotgun proteomics identify and localize new factors in male infertility., Life Sci Alliance, PMID 33408244PXD022852 Dataset with its publication pending (from PRIDE) Dataset title: Hologenome analysis reveals dual symbiosis in the deep-sea hydrothermal vent snail Gigantopelta aegis Possible reference: Lan, Y. et al. (2021) Hologenome analysis reveals dual symbiosis in the deep-sea hydrothermal vent snail Gigantopelta aegis., Nat Commun, PMID 33608555PXD022842 Dataset with its publication pending (from PRIDE) Dataset title: Patagonin - CRISP: Antimicrobial activity and source of antimicrobial molecules in Duvernoy's gland secretion - Philodryas patagoniensis snake Possible reference: Badari, JC. et al. (2020) Patagonin-CRISP: Antimicrobial Activity and Source of Antimicrobial Molecules in Duvernoy's Gland Secretion (Philodryas patagoniensis Snake)., Front Pharmacol, PMID 33603660PXD022828 no publication (from MassIVE) Dataset title: The neomycin resistance cassette in the targeted allele of Shank3B knock-out mice has potential off-target effects to produce an unusual Shank3 isoform Possible reference: Jin, C. et al. (2020) The Neomycin Resistance Cassette in the Targeted Allele of Shank3B Knock-Out Mice Has Potential Off-Target Effects to Produce an Unusual Shank3 Isoform., Front Mol Neurosci, PMID 33505245PXD022811 Dataset with its publication pending (from PRIDE) Dataset title: SOX4 AND SMARCA4 COOPERATIVELY REGULATE PI3K SIGNALING THROUGH TRANSCRIPTIONAL ACTIVATION OF TGFBR2 IN BASAL LIKE BREAST CANCER Possible reference: Mehta, GA. et al. (2021) SOX4 and SMARCA4 cooperatively regulate PI3k signaling through transcriptional activation of TGFBR2., NPJ Breast Cancer, PMID 33837205PXD022808 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic alterations in oral cancer patients delineated by tobacco using habits Possible reference: Bhat, FA. et al. (2021) Proteomic Alterations Associated with Oral Cancer Patients with Tobacco Using Habits., OMICS, PMID 33794113PXD022805 Dataset with its publication pending (from PRIDE) Dataset title: OXPHOS deficiency activates global adaptations to maintain mitochondrial membrane potential Possible reference: Liu, S. et al. (2021) OXPHOS deficiency activates global adaptation pathways to maintain mitochondrial membrane potential., EMBO Rep, PMID 33655635PXD022791 Dataset with its publication pending (from PRIDE) Dataset title: FAIMS single cellUltrasensitive single-cell proteomics workflow identifies >1000 protein groups per mammalian cell Possible reference: Cong, Y. et al. (2020) Ultrasensitive single-cell proteomics workflow identifies >1000 protein groups per mammalian cell., Chem Sci, PMID 34163866PXD022788 Dataset with its publication pending (from PRIDE) Dataset title: An environmental ecocorona influences the formation and evolution of the biological corona on the surface of single-walled carbon nanotubes - proteome Possible reference: Abdolahpur Monikh, F. et al. (2021) An environmental ecocorona influences the formation and evolution of the biological corona on the surface of single-walled carbon nanotubes., NanoImpact, PMID 35559972PXD022744 Dataset with its publication pending (from jPOST) Dataset title: Rapid enzyme-mediated biotinylation for cell surface proteome profiling Possible reference: Li, Y. et al. (2021) Rapid Enzyme-Mediated Biotinylation for Cell Surface Proteome Profiling., Anal Chem, PMID 33660993PXD022743 no publication (from MassIVE) Dataset title: Salmonella effector SopD promotes plasma membrane scission by inhibiting Rab10 Possible reference: Boddy, KC. et al. (2021) Salmonella effector SopD promotes plasma membrane scission by inhibiting Rab10., Nat Commun, PMID 34349110PXD022734 Dataset with its publication pending (from PRIDE) Dataset title: Oxygen sensitive regulation of TFAM linking the von Hippel-Lindau cancer syndrome to impaired mitochondrial biogenesis Possible reference: Li, S. et al. (2022) Impaired oxygen-sensitive regulation of mitochondrial biogenesis within the von Hippel-Lindau syndrome., Nat Metab, PMID 35760869PXD022726 Dataset with its publication pending (from PRIDE) Dataset title: Consequences of SF3B1 mutation on the proteome Possible reference: Oltean, S. et al. (2015) Modulators of alternative splicing as novel therapeutics in cancer., World J Clin Oncol, PMID 26468443PXD022722 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of REPLICANT Perfusate Detects Changes in the Metastatic Lymph Node Microenvironment Possible reference: Stevenson, J. et al. (2021) Proteomics of REPLICANT perfusate detects changes in the metastatic lymph node microenvironment., NPJ Breast Cancer, PMID 33674617PXD022713 Dataset with its publication pending (from PRIDE) Dataset title: An Alveolata secretory machinery adapted to parasite-host cell invasion Possible reference: Aquilini, E. et al. (2021) An Alveolata secretory machinery adapted to parasite host cell invasion., Nat Microbiol, PMID 33495622PXD022711 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-wide analysis of heat-stress in Pinus radiata somatic embryos reveals a combined response of sugar metabolism and translational regulation mechanisms Possible reference: Castander-Olarieta, A. et al. (2021) Proteome-Wide Analysis of Heat-Stress in Pinus radiata Somatic Embryos Reveals a Combined Response of Sugar Metabolism and Translational Regulation Mechanisms., Front Plant Sci, PMID 33912202PXD022708 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative chemical proteomics of Leishmania mexicana Possible reference: Kalesh, K. et al. (2019) A BONCAT-iTRAQ method enables temporally resolved quantitative profiling of newly synthesised proteins in Leishmania mexicana parasites during starvation., PLoS Negl Trop Dis, PMID 31856154PXD022703 Dataset with its publication pending (from PRIDE) Dataset title: The deubiquitinase TRABID stabilises the K29/K48-specific E3 ubiquitin ligase HECTD1 Possible reference: Harris, LD. et al. (2021) The deubiquitinase TRABID stabilizes the K29/K48-specific E3 ubiquitin ligase HECTD1., J Biol Chem, PMID 33853758PXD022701 Dataset with its publication pending (from PRIDE) Dataset title: The ubiquitin ligase Ariadne-1 regulates NSF for neurotransmitter release Possible reference: Ramrez, J. et al. (2021) The ubiquitin ligase Ariadne-1 regulates neurotransmitter release via ubiquitination of NSF., J Biol Chem, PMID 33581113PXD022689 Dataset with its publication pending (from PRIDE) Dataset title: Calpain-mediated Protein Targets in Cardiac Mitochondria following Ischemia-Reperfusion Possible reference: Li, L. et al. (2022) Calpain-mediated protein targets in cardiac mitochondria following ischemia-reperfusion., Sci Rep, PMID 34997008PXD022684 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of FPA interactors Possible reference: Zheng, YS. et al. (2017) Identification of interacting proteins of the TaFVE protein involved in spike development in bread wheat., Proteomics, PMID 28225203PXD022682 Dataset with its publication pending (from PRIDE) Dataset title: Lipocalin 13 enhances insulin secretion but is dispensable for systemic metabolic control Possible reference: Bhler, L. et al. (2021) Lipocalin 13 enhances insulin secretion but is dispensable for systemic metabolic control., Life Sci Alliance, PMID 33536239PXD022677 Dataset with its publication pending (from PRIDE) Dataset title: Another layer of complexity in Staphylococcus aureus methionine biosynthesis control: Unusual RNase III-driven T-box riboswitch cleavage determines met operon mRNA stability and decay Possible reference: Wencker, FDR. et al. (2021) Another layer of complexity in Staphylococcus aureus methionine biosynthesis control: unusual RNaseIII-driven T-box riboswitch cleavage determines met operon mRNA stability and decay., Nucleic Acids Res, PMID 33450025PXD022673 Dataset with its publication pending (from PRIDE) Dataset title: Chemotherapy-polarized macrophages from human breast cancer Possible reference: Liu, J. et al. (2021) The IRENA lncRNA converts chemotherapy-polarized tumor-suppressing macrophages to tumor-promoting phenotypes in breast cancer., Nat Cancer, PMID 35122000PXD022655 no publication (from MassIVE) Dataset title: Comparative Proteomic Analysis of English Walnut (Juglans regia L.) Pellicle Tissues Reveal the Regulation of Nut Quality Attributes Possible reference: Zaini, PA. et al. (2020) Comparative Proteomic Analysis of Walnut (Juglans regia L.) Pellicle Tissues Reveals the Regulation of Nut Quality Attributes., Life (Basel), PMID 33261033PXD022625 Dataset with its publication pending (from PRIDE) Dataset title: The RNA helicase Dbp7 promotes domain V/VI compaction and stabilization of inter-domain interactions during early 60S assembly Possible reference: Aquino, GRR. et al. (2021) The RNA helicase Dbp7 promotes domain V/VI compaction and stabilization of inter-domain interactions during early 60S assembly., Nat Commun, PMID 34686661PXD022612 no publication (from MassIVE) Dataset title: A comprehensive urine proteome database generated from patients with various renal conditions and prostate cancer Possible reference: Swensen, AC. et al. (2021) A Comprehensive Urine Proteome Database Generated From Patients With Various Renal Conditions and Prostate Cancer., Front Med (Lausanne), PMID 33928097PXD022596 Dataset with its publication pending (from PRIDE) Dataset title: SOX4 AND SMARCA4 COOPERATIVELY REGULATE PI3K SIGNALING THROUGH TRANSCRIPTIONAL ACTIVATION OF TGFBR2 IN TRIPLE NEGATIVE BREAST CANCER Possible reference: Mehta, GA. et al. (2021) SOX4 and SMARCA4 cooperatively regulate PI3k signaling through transcriptional activation of TGFBR2., NPJ Breast Cancer, PMID 33837205PXD022594 no publication (from MassIVE) Dataset title: Fully Integrated and Multiplexed Sample Preparation Technology for Sensitive Interactome Profiling Possible reference: Mao, Y. et al. (2021) Fully Integrated and Multiplexed Sample Preparation Technology for Sensitive Interactome Profiling., Anal Chem, PMID 33522225PXD022576 Dataset with its publication pending (from PRIDE) Dataset title: Comparative proteomics provides insights into diapause program of Bactrocera minax (Diptera: Tephritidae) Possible reference: Wang, J. et al. (2020) Comparative proteomics provides insights into diapause program of Bactrocera minax (Diptera: Tephritidae)., PLoS One, PMID 33382763PXD022562 Dataset with its publication pending (from PRIDE) Dataset title: Interaction of Chinese cabbage (Brassica rapa ssp. pekinensis) cell wall proteins with mustard leaf beetle (Phaedon cochleariae) polygalacturonase family members Possible reference: Haeger, W. et al. (2021) New Players in the Interaction Between Beetle Polygalacturonases and Plant Polygalacturonase-Inhibiting Proteins: Insights From Proteomics and Gene Expression Analyses., Front Plant Sci, PMID 34149758PXD022560 Dataset with its publication pending (from PRIDE) Dataset title: Protein import defects induce mitophagy without membrane depolarization Possible reference: De, R. et al. (2017) Acute mental stress induces mitochondrial bioenergetic crisis and hyper-fission along with aberrant mitophagy in the gut mucosa in rodent model of stress-related mucosal disease., Free Radic Biol Med, PMID 28993273PXD022557 Dataset with its publication pending (from PRIDE) Dataset title: Sex Impacts Cardiac Function and the Proteome Response to Thyroid Hormone in Aged Mice Possible reference: Zhu, WZ. et al. (2020) Sex impacts cardiac function and the proteome response to thyroid hormone in aged mice., Proteome Sci, PMID 33372611PXD022549 Dataset with its publication pending (from PRIDE) Dataset title: Multiparametric characterization of red blood cells physiology after hypotonic dialysis based drug encapsulation process. Possible reference: Robert, M. et al. (2022) Multiparametric characterization of red blood cell physiology after hypotonic dialysis based drug encapsulation process., Acta Pharm Sin B, PMID 35847505PXD022547 Dataset with its publication pending (from PRIDE) Dataset title: Reduced Nicotinamide Mononucleotide (NMNH) Potently Enhances NAD+, Suppresses Glycolysis and Cell Growth Possible reference: Liu, Y. et al. (2021) Reduced Nicotinamide Mononucleotide (NMNH) Potently Enhances NAD+ and Suppresses Glycolysis, the TCA Cycle, and Cell Growth., J Proteome Res, PMID 33793246PXD022543 Dataset with its publication pending (from PRIDE) Dataset title: lMoniliella spathulata an oil-degrading yeast, which promotes growth of barley in oil polluted soil Possible reference: Mikolasch, A. et al. (2021) Moniliella spathulata, an oil-degrading yeast, which promotes growth of barley in oil-polluted soil., Appl Microbiol Biotechnol, PMID 33219393PXD022540 Dataset with its publication pending (from iProX) Dataset title: RLR-MAVS signaling related proteins. Possible reference: Zhang, LK. et al. (2016) Activation of the RLR/MAVS Signaling Pathway by the L Protein of Mopeia Virus., J Virol, PMID 27605671PXD022515 Dataset with its publication pending (from PRIDE) Dataset title: Hexameric VCP/p97 reprograms transcription by organizing enhancers with the ASPSCR1-TFE3 fusion oncoprotein Possible reference: Pozner, A. et al. (2023) ASPSCR1-TFE3 reprograms transcription by organizing enhancer loops around hexameric VCP/p97., bioRxiv, PMID 37873234PXD022501 Dataset with its publication pending (from PRIDE) Dataset title: Human trophectoderm extracellular vesicle proteome Possible reference: Burns, G. et al. (2014) Extracellular vesicles in luminal fluid of the ovine uterus., PLoS One, PMID 24614226PXD022494 no publication (from MassIVE) Dataset title: Cathepsin B MSP-MS at pH 4.6 and 7.2 without inhibitor Possible reference: Yoon, MC. et al. (2021) Selective Neutral pH Inhibitor of Cathepsin B Designed Based on Cleavage Preferences at Cytosolic and Lysosomal pH Conditions., ACS Chem Biol, PMID 34416110PXD022493 no publication (from MassIVE) Dataset title: Cathepsin B MSP-MS at pH 4.6 and pH 7.2 Possible reference: Yoon, MC. et al. (2021) Selective Neutral pH Inhibitor of Cathepsin B Designed Based on Cleavage Preferences at Cytosolic and Lysosomal pH Conditions., ACS Chem Biol, PMID 34416110PXD022483 Dataset with its publication pending (from PRIDE) Dataset title: Global profiling of N-glycosylated proteins in the diatom Phaeodactylum tricornutum Possible reference: Xie, X. et al. (2021) Global Profiling of N-Glycoproteins and N-Glycans in the Diatom Phaeodactylum tricornutum., Front Plant Sci, PMID 34925422PXD022478 Dataset with its publication pending (from PRIDE) Dataset title: Chronic pain susceptibility is associated with anhedonic behavior and alterations in the accumbal ubiquitin-proteasome system Possible reference: Guimares, MR. et al. (2021) Chronic pain susceptibility is associated with anhedonic behavior and alterations in the accumbal ubiquitin-proteasome system., Pain, PMID 33449505PXD022475 Dataset with its publication pending (from PanoramaPublic) Dataset title: Validation of host proteins differentially expressed between COVID severe and non-severe plasma samples Possible reference: Suvarna, K. et al. (2021) Proteomics and Machine Learning Approaches Reveal a Set of Prognostic Markers for COVID-19 Severity With Drug Repurposing Potential., Front Physiol, PMID 33995121PXD022473 Dataset with its publication pending (from PRIDE) Dataset title: Exploring the molecular machinery of denitrification in Haloferax mediterranei through proteomics Possible reference: Torregrosa-Crespo, J. et al. (2020) Exploring the Molecular Machinery of Denitrification in Haloferax mediterranei Through Proteomics., Front Microbiol, PMID 33363526PXD022471 Dataset with its publication pending (from PRIDE) Dataset title: Molecular biomarkers of neovascular age-related macular degeneration with incomplete response to anti-vascular endothelial growth factor treatment Possible reference: Mantel, I. et al. (2020) Molecular Biomarkers of Neovascular Age-Related Macular Degeneration With Incomplete Response to Anti-Vascular Endothelial Growth Factor Treatment., Front Pharmacol, PMID 33447243PXD022467 Dataset with its publication pending (from PRIDE) Dataset title: Loss of full-length hnRNP R isoform impairs DNA damage response in motoneurons by inhibiting Yb1 recruitment to Chromatin Possible reference: Ghanawi, H. et al. (2021) Loss of full-length hnRNP R isoform impairs DNA damage response in motoneurons by inhibiting Yb1 recruitment to chromatin., Nucleic Acids Res, PMID 34850154PXD022435 Dataset with its publication pending (from PRIDE) Dataset title: Proteome and phosphoproteome of human bladder cancer tissue Possible reference: Lou, DY. et al. (2016) Neoadjuvant therapy for localized prostate cancer: Examining mechanism of action and efficacy within the tumor., Urol Oncol, PMID 24495446PXD022432 Dataset with its publication pending (from PRIDE) Dataset title: Nucleolin rescues TDP-43 toxicity in yeast and human cell models Possible reference: Peggion, C. et al. (2021) Nucleolin Rescues TDP-43 Toxicity in Yeast and Human Cell Models., Front Cell Neurosci, PMID 33912014PXD022425 Dataset with its publication pending (from PRIDE) Dataset title: Universal antimicrobial resistance detection from clinical bacterial isolates using proteomics Possible reference: Luna, BM. et al. (2019) Adjunctive transferrin to reduce the emergence of antibiotic resistance in Gram-negative bacteria., J Antimicrob Chemother, PMID 31170282PXD022419 Dataset with its publication pending (from PRIDE) Dataset title: Dissecting the molecular diversity and commonality of bovine and human treponemes identifies key survival and adhesion mechanisms Possible reference: Staton, GJ. et al. (2021) Dissecting the molecular diversity and commonality of bovine and human treponemes identifies key survival and adhesion mechanisms., PLoS Pathog, PMID 33780514PXD022417 no publication (from MassIVE) Dataset title: Dysregulation of the complement and coagulation cascade in treated schizophrenia and bipolar disorder patients Possible reference: Santa Cruz, EC. et al. (2021) A pilot study indicating the dysregulation of the complement and coagulation cascades in treated schizophrenia and bipolar disorder patients., Biochim Biophys Acta Proteins Proteom, PMID 33839315PXD022414 no publication (from MassIVE) Dataset title: Cardiomyocyte Contractile Impairment in Heart Failure Results from Reduced BAG3-mediated Sarcomeric Protein Turnover Possible reference: Martin, TG. et al. (2021) Cardiomyocyte contractile impairment in heart failure results from reduced BAG3-mediated sarcomeric protein turnover., Nat Commun, PMID 34011988PXD022410 Dataset with its publication pending (from PRIDE) Dataset title: Phosphorylation of Rif1 by Plk1 Possible reference: Benada, J. et al. (2015) Polo-like kinase 1 inhibits DNA damage response during mitosis., Cell Cycle, PMID 25607646PXD022409 Dataset with its publication pending (from PRIDE) Dataset title: Maternally inherited piRNAs silence transposons during Drosophila embryogenesis Possible reference: Gu, T. et al. (2013) Maternal depletion of Piwi, a component of the RNAi system, impacts heterochromatin formation in Drosophila., PLoS Genet, PMID 24068954PXD022408 Dataset with its publication pending (from PRIDE) Dataset title: Cryo-EM structural analysis of FADD: Caspase-8 complexes defines the catalytic dimer architecture for co-ordinated control of cell fate Possible reference: Fox, JL. et al. (2021) Cryo-EM structural analysis of FADD:Caspase-8 complexes defines the catalytic dimer architecture for co-ordinated control of cell fate., Nat Commun, PMID 33547302PXD022401 Dataset with its publication pending (from PRIDE) Dataset title: Nicotiana benthamiana AP-MS for TSWV NSs Possible reference: Zhai, Y. et al. (2021) Identification and Characterization of Plant-Interacting Targets of Tomato Spotted Wilt Virus Silencing Suppressor., Pathogens, PMID 33401462PXD022400 Dataset with its publication pending (from PRIDE) Dataset title: Venom proteome of the limacodid caterpillar Doratifera vulnerans Possible reference: Walker, AA. et al. (2021) Production, composition, and mode of action of the painful defensive venom produced by a limacodid caterpillar, Doratifera vulnerans., Proc Natl Acad Sci U S A, PMID 33893140PXD022397 Dataset with its publication pending (from PRIDE) Dataset title: TbSAP is a novel chromatin protein repressing metacyclic Variant Surface Glycoprotein expression sites in bloodstream form Trypanosoma brucei Possible reference: Davies, C. et al. (2021) TbSAP is a novel chromatin protein repressing metacyclic variant surface glycoprotein expression sites in bloodstream form Trypanosoma brucei., Nucleic Acids Res, PMID 33660774PXD022389 Dataset with its publication pending (from jPOST) Dataset title: O-GlcNAcylation suppresses the ion current IClswell by preventing the binding of the protein ICln to α-integrin Possible reference: Costa, R. et al. (2020) O-GlcNAcylation Suppresses the Ion Current IClswell by Preventing the Binding of the Protein ICln to α-Integrin., Front Cell Dev Biol, PMID 33330510PXD022372 Dataset with its publication pending (from PRIDE) Dataset title: A ciliopathy complex restrains centriolar length and builds distal appendages to initiate ciliogenesis. Possible reference: Kumar, D. et al. (2021) A ciliopathy complex builds distal appendages to initiate ciliogenesis., J Cell Biol, PMID 34241634PXD022371 Dataset with its publication pending (from PRIDE) Dataset title: Neuroserpin Is Strongly Expressed in the Developing and Adult Mouse Neocortex but Its Absence Does Not Perturb Cortical Lamination and Synaptic Proteome Possible reference: Kement, D. et al. (2021) Neuroserpin Is Strongly Expressed in the Developing and Adult Mouse Neocortex but Its Absence Does Not Perturb Cortical Lamination and Synaptic Proteome., Front Neuroanat, PMID 33708076PXD022330 Dataset with its publication pending (from PRIDE) Dataset title: Two-dimensional low-flow liquid-chromatography setup for shotgun proteomics Possible reference: Roca, LS. et al. (2021) Development of comprehensive two-dimensional low-flow liquid-chromatography setup coupled to high-resolution mass spectrometry for shotgun proteomics., Anal Chim Acta, PMID 33781465PXD022323 Dataset with its publication pending (from PRIDE) Dataset title: Deletion of Allele-Specific HLAs (DASH) Possible reference: Pyke, RM. et al. (2022) A machine learning algorithm with subclonal sensitivity reveals widespread pan-cancer human leukocyte antigen loss of heterozygosity., Nat Commun, PMID 35414054PXD022321 Dataset with its publication pending (from PRIDE) Dataset title: Disturbed intramitochondrial phosphatidic acid transport impairs cellular stress signaling Possible reference: Eiyama, A. et al. (2021) Disturbed intramitochondrial phosphatidic acid transport impairs cellular stress signaling., J Biol Chem, PMID 33497623PXD022307 Dataset with its publication pending (from jPOST) Dataset title: Arabidopsis membrane protein phosphoproteomics in early cold response Possible reference: Kamal, MM. et al. (2020) Large-Scale Phosphoproteomic Study of Arabidopsis Membrane Proteins Reveals Early Signaling Events in Response to Cold., Int J Mol Sci, PMID 33207747PXD022296 Dataset with its publication pending (from PRIDE) Dataset title: Mass-spectrometry based plasma proteomics identifies biomarkers for the detection of COVID-19 progression Possible reference: Suvarna, K. et al. (2021) Proteomics and Machine Learning Approaches Reveal a Set of Prognostic Markers for COVID-19 Severity With Drug Repurposing Potential., Front Physiol, PMID 33995121PXD022290 Dataset with its publication pending (from PRIDE) Dataset title: Epithelial to mesenchymal transition shed microvesicle proteome Possible reference: Carrasco-Ramrez, P. et al. (2016) Podoplanin is a component of extracellular vesicles that reprograms cell-derived exosomal proteins and modulates lymphatic vessel formation., Oncotarget, PMID 26893367PXD022257 Dataset with its publication pending (from PRIDE) Dataset title: Integrative analysis of proteomics and DNA methylation in orbital fibroblasts from Graves Possible reference: Virakul, S. et al. (2020) Integrative Analysis of Proteomics and DNA Methylation in Orbital Fibroblasts From Graves' Ophthalmopathy., Front Endocrinol (Lausanne), PMID 33658982PXD022250 Dataset with its publication pending (from PRIDE) Dataset title: Adaptive Laboratory Evolution of microbial co-cultures for improved metabolite secretion Possible reference: Konstantinidis, D. et al. (2021) Adaptive laboratory evolution of microbial co-cultures for improved metabolite secretion., Mol Syst Biol, PMID 34370382PXD022245 Dataset with its publication pending (from PRIDE) Dataset title: PTENε, a new isoform of PTEN, suppresses tumor metastasis through filopodia formation regulation. Possible reference: Zhang, Q. et al. (2021) PTENε suppresses tumor metastasis through regulation of filopodia formation., EMBO J, PMID 33755220PXD022239 Dataset with its publication pending (from PRIDE) Dataset title: Bacterial RF3 Senses Chaperone Function in Co-translational Folding Possible reference: Zhao, L. et al. (2021) Bacterial RF3 senses chaperone function in co-translational folding., Mol Cell, PMID 34107307PXD022225 Dataset with its publication pending (from PRIDE) Dataset title: Combining mass spectrometry and machine learning to discover bioactive peptides Possible reference: Madsen, CT. et al. (2022) Combining mass spectrometry and machine learning to discover bioactive peptides., Nat Commun, PMID 36266275PXD022215 Dataset with its publication pending (from PRIDE) Dataset title: Sequences in the cytoplasmic tail of SARS-CoV-2 Spike facilitate expression at the cell surface and syncytia formation Possible reference: Cattin-Ortol, J. et al. (2021) Sequences in the cytoplasmic tail of SARS-CoV-2 Spike facilitate expression at the cell surface and syncytia formation., Nat Commun, PMID 34504087PXD022202 Dataset with its publication pending (from PRIDE) Dataset title: Mannose and mannobiose specific responses of insect associated cellulolytic Streptomyces. Possible reference: Ohashi, K. et al. (2021) Mannose- and Mannobiose-Specific Responses of the Insect-Associated Cellulolytic Bacterium Streptomyces sp. Strain SirexAA-E., Appl Environ Microbiol, PMID 33990299PXD022190 Dataset with its publication pending (from PRIDE) Dataset title: Integrity of the short arm of nuclear pore Y-complex is required for mouse embryonic stem cell growth and differentiation Possible reference: Gonzalez-Estevez, A. et al. (2021) Integrity of the short arm of the nuclear pore Y-complex is required for mouse embryonic stem cell growth and differentiation., J Cell Sci, PMID 34037234PXD022189 Dataset with its publication pending (from PRIDE) Dataset title: Label-Free LC-MS/MS ProteomicAnalysis of Urinary Identification in Diabetic Vascular Dementia Possible reference: Chen, R. et al. (2021) Label-Free Liquid Chromatography-Mass Spectrometry Proteomic Analysis of Urinary Identification in Diabetic Vascular Dementia in a Han Chinese Population., Front Aging Neurosci, PMID 33597859PXD022186 Dataset with its publication pending (from PRIDE) Dataset title: Detection and Quantification of Novel C-terminal TDP-43 Fragments in ALS-TDP Possible reference: Feneberg, E. et al. (2021) Detection and quantification of novel C-terminal TDP-43 fragments in ALS-TDP., Brain Pathol, PMID 33300249PXD022181 Dataset with its publication pending (from PRIDE) Dataset title: Exosomal markers in secretome of Kamepferitrin-treated HepG2 cells Possible reference: Karaosmanoğlu, O. et al. (2018) Identification of biomarkers associated with partial epithelial to mesenchymal transition in the secretome of slug over-expressing hepatocellular carcinoma cells., Cell Oncol (Dordr), PMID 29858962PXD022165 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic insights into senescence of testicular peritubular cells from a nonhuman primate model Possible reference: Stckl, JB. et al. (2020) Proteomic Insights into Senescence of Testicular Peritubular Cells from a Nonhuman Primate Model., Cells, PMID 33213088PXD022149 Dataset with its publication pending (from PRIDE) Dataset title: Ceragenins and antimicrobial peptides kill bacteria through distinct mechanisms Possible reference: Mitchell, G. et al. (2022) Ceragenins and Antimicrobial Peptides Kill Bacteria through Distinct Mechanisms., mBio, PMID 35073755PXD022135 no publication (from MassIVE) Dataset title: USP13 interacts with cohesin and is required for its ubiquitination in human cells Possible reference: He, X. et al. (2021) USP13 interacts with cohesin and regulates its ubiquitination in human cells., J Biol Chem, PMID 33334891PXD022112 Dataset with its publication pending (from PRIDE) Dataset title: Harnessing machine learning to unravel protein degradation in Escherichia coli Possible reference: Nagar, N. et al. (2021) Harnessing Machine Learning To Unravel Protein Degradation in Escherichia coli., mSystems, PMID 33531410PXD022109 Dataset with its publication pending (from PRIDE) Dataset title: Parkin is an E3 ligase for the ubiquitin-like modifier Fat10 which inhibits Parkin activation and mitophagy Possible reference: Roverato, ND. et al. (2021) Parkin is an E3 ligase for the ubiquitin-like modifier FAT10, which inhibits Parkin activation and mitophagy., Cell Rep, PMID 33730565PXD022105 Dataset with its publication pending (from PRIDE) Dataset title: Dimerisation of the PICTS complex via LC8/Cut-up drives co-transcriptional transposon silencing in Drosophila Possible reference: Eastwood, EL. et al. (2021) Dimerisation of the PICTS complex via LC8/Cut-up drives co-transcriptional transposon silencing in Drosophila., Elife, PMID 33538693PXD022103 Dataset with its publication pending (from PRIDE) Dataset title: Dimerisation of the PICTS complex via LC8/Cut-up drives co-transcriptional transposon silencing in Drosophila Possible reference: Eastwood, EL. et al. (2021) Dimerisation of the PICTS complex via LC8/Cut-up drives co-transcriptional transposon silencing in Drosophila., Elife, PMID 33538693PXD022085 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of bronchoalveolar lavage fluid in COVID-19 patients Possible reference: Zeng, HL. et al. (2021) Proteomic characteristics of bronchoalveolar lavage fluid in critical COVID-19 patients., FEBS J, PMID 33098359PXD022071 Dataset with its publication pending (from jPOST) Dataset title: Damage-associated molecular patterns in S100 proteins are recognized by Signal Inhibitory Receptor on Leukocytes-1 Possible reference: Rumpret, M. et al. (2021) Recognition of S100 proteins by Signal Inhibitory Receptor on Leukocytes-1 negatively regulates human neutrophils., Eur J Immunol, PMID 34145909PXD022068 Dataset with its publication pending (from PRIDE) Dataset title: Endothelial cells exposed to atheroprotective flow secrete follistatin-like protein 1 which reduces transcytosis and inflammation Possible reference: Ghim, M. et al. (2021) Endothelial cells exposed to atheroprotective flow secrete follistatin-like 1 protein which reduces transcytosis and inflammation., Atherosclerosis, PMID 34425528PXD022067 Dataset with its publication pending (from PRIDE) Dataset title: The methyltransferase METTL9 mediates pervasive 1-methylhistidine modification in mammalian proteomes Possible reference: Davydova, E. et al. (2021) The methyltransferase METTL9 mediates pervasive 1-methylhistidine modification in mammalian proteomes., Nat Commun, PMID 33563959PXD022061 Dataset with its publication pending (from PRIDE) Dataset title: Structure of autoinhibited Akt1 reveals mechanism of PIP 3 -mediated activation Possible reference: Truebestein, L. et al. (2021) Structure of autoinhibited Akt1 reveals mechanism of PIP3-mediated activation., Proc Natl Acad Sci U S A, PMID 34385319PXD022039 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Histoplasma capsulatum under zinc deprivation Possible reference: Assuno, LDP. et al. (2020) Insights Into Histoplasma capsulatum Behavior on Zinc Deprivation., Front Cell Infect Microbiol, PMID 33330123PXD022036 Dataset with its publication pending (from PRIDE) Dataset title: Characterisation of the Semliki Forest Virus-host cell interactome reveals the viral capsid protein as an inhibitor of nonsense-mediated mRNA decay Possible reference: Contu, L. et al. (2021) Characterisation of the Semliki Forest Virus-host cell interactome reveals the viral capsid protein as an inhibitor of nonsense-mediated mRNA decay., PLoS Pathog, PMID 34019569PXD022029 Dataset with its publication pending (from PRIDE) Dataset title: Rhizobium leguminosarum glutathione peroxidase is essential for oxidative stress resistance and efficient nodulation Possible reference: Hu, A. et al. (2021) Rhizobium leguminosarum Glutathione Peroxidase Is Essential for Oxidative Stress Resistance and Efficient Nodulation., Front Microbiol, PMID 33633710PXD022028 Dataset with its publication pending (from PRIDE) Dataset title: Host cholesterol modulates the generation and enrichment of persister population during Mycobacterium tuberculosis infection. Possible reference: Talwar, S. et al. (2020) Role of VapBC12 Toxin-Antitoxin Locus in Cholesterol-Induced Mycobacterial Persistence., mSystems, PMID 33323416PXD022023 Dataset with its publication pending (from PRIDE) Dataset title: FAX-RIC enables robust RNA interactome profiling in multicellular organisms in vivo Possible reference: Na, Y. et al. (2021) FAX-RIC enables robust profiling of dynamic RNP complex formation in multicellular organisms in vivo., Nucleic Acids Res, PMID 33332543PXD022019 Dataset with its publication pending (from PRIDE) Dataset title: The influence of delay in mononuclear cell isolation on acute myeloid leukemia phosphorylation profiles Possible reference: van Alphen, C. et al. (2021) The influence of delay in mononuclear cell isolation on acute myeloid leukemia phosphorylation profiles., J Proteomics, PMID 33561558PXD022015 Dataset with its publication pending (from PRIDE) Dataset title: Characterization of gastric tumor organoids with specific oncogenic pathway activations Possible reference: Seidlitz, T. et al. (2019) Human gastric cancer modelling using organoids., Gut, PMID 29703791PXD022013 no publication (from MassIVE) Dataset title: Evidence for structural protein damage and membrane lipid remodeling in red blood cells from COVID-19 patients Possible reference: Thomas, T. et al. (2020) Evidence for structural protein damage and membrane lipid remodeling in red blood cells from COVID-19 patients., medRxiv, PMID 32637980PXD022007 Dataset with its publication pending (from PRIDE) Dataset title: PLCP activity profiling in the ryegrass apoplast Possible reference: Passarge, A. et al. (2021) Host apoplastic cysteine protease activity is suppressed during the mutualistic association of Lolium perenne and Epichlo festucae., J Exp Bot, PMID 33630999PXD021992 Dataset with its publication pending (from PRIDE) Dataset title: Large-scale identification of ubiquitination sites on membrane-associated proteins in Arabidopsis thaliana seedlings Possible reference: Grubb, LE. et al. (2021) Large-scale identification of ubiquitination sites on membrane-associated proteins in Arabidopsis thaliana seedlings., Plant Physiol, PMID 33585938PXD021981 no publication (from MassIVE) Dataset title: Synechococcus Sp. RS9916 Lyase Isomerase MpeV Characterization Possible reference: Carrigee, LA. et al. (2021) MpeV is a lyase isomerase that ligates a doubly linked phycourobilin on the β-subunit of phycoerythrin I and II in marine Synechococcus., J Biol Chem, PMID 33154169PXD021966 Dataset with its publication pending (from PRIDE) Dataset title: Composition and origin of lung fluid proteome in premature infants and relationship to respiratory outcome Possible reference: Ballard, PL. et al. (2020) Composition and origin of lung fluid proteome in premature infants and relationship to respiratory outcome., PLoS One, PMID 33301538PXD021961 Dataset with its publication pending (from PRIDE) Dataset title: Rapid degradation pathways of host proteins during HCMV infection revealed by quantitative proteomics Possible reference: Lin, KM. et al. (2020) Rapid Degradation Pathways of Host Proteins During HCMV Infection Revealed by Quantitative Proteomics., Front Cell Infect Microbiol, PMID 33585265PXD021959 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic analysis to capture the role of heat-accumulated proteins in moss plant acquired thermotolerance Possible reference: Guihur, A. et al. (2021) Quantitative proteomic analysis to capture the role of heat-accumulated proteins in moss plant acquired thermotolerance., Plant Cell Environ, PMID 33314263PXD021949 Dataset with its publication pending (from PRIDE) Dataset title: Palaeoproteomics confirm earliest domesticated sheep in southern Africa ca. 2000 BP Possible reference: Coutu, AN. et al. (2021) Palaeoproteomics confirm earliest domesticated sheep in southern Africa ca. 2000 BP., Sci Rep, PMID 33758223PXD021947 Dataset with its publication pending (from PRIDE) Dataset title: Mechanism and function of DNA replication-independent DNA-protein crosslink repair via the SUMO pathway Possible reference: Liu, JCY. et al. (2021) Mechanism and function of DNA replication-independent DNA-protein crosslink repair via the SUMO-RNF4 pathway., EMBO J, PMID 34346517PXD021945 Dataset with its publication pending (from PRIDE) Dataset title: Spastin recovery in hereditary spastic paraplegia by preventing neddylation-dependent degradation Possible reference: Sardina, F. et al. (2020) Spastin recovery in hereditary spastic paraplegia by preventing neddylation-dependent degradation., Life Sci Alliance, PMID 33106322PXD021937 Dataset with its publication pending (from PRIDE) Dataset title: Rat retinae data for use as spectral library, for pathway remodelling as well as protein mapping Possible reference: Reinehr, S. et al. (2021) Rat retinae data for use as spectral library, for pathway remodeling as well as protein mapping., Data Brief, PMID 34222568PXD021935 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive Proteomic Profiling of Urinary Exosomes and Identification of Potential Noninvasive Early Biomarkers of Alzheimer’s Disease in 5XFAD Mouse Model Possible reference: Song, Z. et al. (2020) Comprehensive Proteomic Profiling of Urinary Exosomes and Identification of Potential Non-invasive Early Biomarkers of Alzheimer's Disease in 5XFAD Mouse Model., Front Genet, PMID 33250918PXD021905 no publication (from MassIVE) Dataset title: Respiratory vinyl chloride reductive dechlorination to ethene in TceA-expressing Dehalococcoides mccartyi Possible reference: Yan, J. et al. (2021) Respiratory Vinyl Chloride Reductive Dechlorination to Ethene in TceA-Expressing Dehalococcoides mccartyi., Environ Sci Technol, PMID 33683880PXD021901 Dataset with its publication pending (from PRIDE) Dataset title: An NSD3-targeting PROTAC suppresses the NSD3 and cMyc oncogenic nodes in cancer cells Possible reference: Xu, C. et al. (2022) A NSD3-targeted PROTAC suppresses NSD3 and cMyc oncogenic nodes in cancer cells., Cell Chem Biol, PMID 34469831PXD021897 Dataset with its publication pending (from PRIDE) Dataset title: Drosophila Sex Peptide Controls the Assembly of Lipid Microcarriers in Seminal Fluid Possible reference: Wainwright, SM. et al. (2021) Drosophila Sex Peptide controls the assembly of lipid microcarriers in seminal fluid., Proc Natl Acad Sci U S A, PMID 33495334PXD021895 Dataset with its publication pending (from PRIDE) Dataset title: Hijacking of transcriptional condensates by endogenous retroviruses Possible reference: Asimi, V. et al. (2022) Hijacking of transcriptional condensates by endogenous retroviruses., Nat Genet, PMID 35864192PXD021888 Dataset with its publication pending (from PRIDE) Dataset title: The lytic polysaccharide monooxygenase of Pseudomonas aeruginosa promotes bacterial survival during systemic infection Possible reference: Askarian, F. et al. (2021) The lytic polysaccharide monooxygenase CbpD promotes Pseudomonas aeruginosa virulence in systemic infection., Nat Commun, PMID 33623002PXD021882 Dataset with its publication pending (from PRIDE) Dataset title: Fully automated sample processing and analysis workflow for low-input proteome profiling Possible reference: Liang, Y. et al. (2021) Fully Automated Sample Processing and Analysis Workflow for Low-Input Proteome Profiling., Anal Chem, PMID 33352054PXD021880 Dataset with its publication pending (from PRIDE) Dataset title: TDP-43 aggregation induced by oxidative stress causes global mitochondrial imbalance in ALS Possible reference: Zuo, X. et al. (2021) TDP-43 aggregation induced by oxidative stress causes global mitochondrial imbalance in ALS., Nat Struct Mol Biol, PMID 33398173PXD021861 Dataset with its publication pending (from PRIDE) Dataset title: The velvet protein Vel1 controls initial plant root colonization and conidia formation for xylem distribution in Verticillium wilt Possible reference: Hfer, AM. et al. (2021) The velvet protein Vel1 controls initial plant root colonization and conidia formation for xylem distribution in Verticillium wilt., PLoS Genet, PMID 33720931PXD021858 Dataset with its publication pending (from PRIDE) Dataset title: ApoC-III is a novel inducer of human valvular calcification Possible reference: Schlotter, F. et al. (2021) ApoC-III is a novel inducer of calcification in human aortic valves., J Biol Chem, PMID 33334888PXD021856 Dataset with its publication pending (from PRIDE) Dataset title: Human plasma small extracellular vesicle proteome (disease, non-disease) Possible reference: Reale, A. et al. (2021) Human myeloma cell- and plasma-derived extracellular vesicles contribute to functional regulation of stromal cells., Proteomics, PMID 33580572PXD021849 Dataset with its publication pending (from jPOST) Dataset title: Muscle Proteome of Critical Limb Ischemia Patients Possible reference: Bateman, RM. et al. (2016) 36th International Symposium on Intensive Care and Emergency Medicine : Brussels, Belgium. 15-18 March 2016., Crit Care, PMID 27885969PXD021848 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of anatomical sections of the gut of Nosema-infected Western honey bee (Apis mellifera) reveals different early responses to Nosema spp. isolates Possible reference: Houdelet, C. et al. (2021) Proteomics of Anatomical Sections of the Gut of Nosema-Infected Western Honeybee (Apis mellifera) Reveals Different Early Responses to Nosema spp. Isolates., J Proteome Res, PMID 33305956PXD021846 no publication (from MassIVE) Dataset title: Proteomic profile of bone collagen extracted for stable isotopes: implications for bulk and single amino acid analyses Possible reference: Cleland, TP. et al. (2021) Proteomic profile of bone "collagen" extracted for stable isotopes: Implications for bulk and single amino acid analyses., Rapid Commun Mass Spectrom, PMID 33332665PXD021843 Dataset with its publication pending (from PRIDE) Dataset title: The malaria parasite sheddase SUB2 governs host red blood cell membrane sealing at invasion Possible reference: Collins, CR. et al. (2020) The malaria parasite sheddase SUB2 governs host red blood cell membrane sealing at invasion., Elife, PMID 33287958PXD021841 Dataset with its publication pending (from PRIDE) Dataset title: A redirected protein secretion stress response in the genome-engineered midiBacillus-II Possible reference: Aguilar Surez, R. et al. (2021) Redirected Stress Responses in a Genome-Minimized 'midiBacillus' Strain with Enhanced Capacity for Protein Secretion., mSystems, PMID 34904864PXD021832 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic approache of the response to iron-limited condition in Staphylococcus lugdunensis Possible reference: Aubourg, M. et al. (2020) Phenotypic and proteomic approaches of the response to iron-limited condition in Staphylococcus lugdunensis., BMC Microbiol, PMID 33115407PXD021831 Dataset with its publication pending (from PRIDE) Dataset title: A comprehensive landscape of 60S ribosome biogenesis factors Possible reference: Sailer, C. et al. (2022) A comprehensive landscape of 60S ribosome biogenesis factors., Cell Rep, PMID 35139378PXD021830 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of Btk haemolymph stimulon Possible reference: Sun, Y. et al. (2021) Tandem Mass Tag-Based Quantitative Proteomics and Virulence Phenotype of Hemolymph-Treated Bacillus thuringiensis kurstaki Cells Reveal New Insights on Bacterial Pathogenesis in Insects., Microbiol Spectr, PMID 34704785PXD021826 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondria-rough-ER Contacts in The Liver Regulate Systemic Lipid Homeostasis Possible reference: Anastasia, I. et al. (2021) Mitochondria-rough-ER contacts in the liver regulate systemic lipid homeostasis., Cell Rep, PMID 33730569PXD021802 no publication (from MassIVE) Dataset title: Characterization and Complete Genome Sequence of Privateer, a Highly Prolate Proteus mirabilis Podophage Possible reference: Corban, JE. et al. (2021) Characterization and complete genome sequence of Privateer, a highly prolate Proteus mirabilis podophage., PeerJ, PMID 33614267PXD021798 Dataset with its publication pending (from PRIDE) Dataset title: Function and Regulation of the pyruvate transporter CstA in Escherichia coli Possible reference: Kristoficova, I. et al. (2018) BtsT, a Novel and Specific Pyruvate/H+ Symporter in Escherichia coli., J Bacteriol, PMID 29061664PXD021796 Dataset with its publication pending (from PRIDE) Dataset title: NleB2 from Enteropathogenic Escherichia coli is an arginine-glucose transferase Possible reference: Giogha, C. et al. (2021) NleB2 from enteropathogenic Escherichia coli is a novel arginine-glucose transferase effector., PLoS Pathog, PMID 34133469PXD021793 Dataset with its publication pending (from PRIDE) Dataset title: Unbiased label-free quantitative proteomics of Amyotrophic lateral sclerosis (ALS) mutations in CCNF reveals activation of the apoptosis pathway Possible reference: Cheng, F. et al. (2021) Unbiased Label-Free Quantitative Proteomics of Cells Expressing Amyotrophic Lateral Sclerosis (ALS) Mutations in CCNF Reveals Activation of the Apoptosis Pathway: A Workflow to Screen Pathogenic Gene Mutations., Front Mol Neurosci, PMID 33986643PXD021772 Dataset with its publication pending (from PRIDE) Dataset title: The trypanosome Variant Surface Glycoprotein mRNA is stabilized by an essential unconventional RNA-binding protein Possible reference: Melo do Nascimento, L. et al. (2021) Functional insights from a surface antigen mRNA-bound proteome., Elife, PMID 33783358PXD021769 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular Vesicles released by Leishmania donovani infected mouse macrophages Possible reference: Alves-Ferreira, EVC. et al. (2020) Leishmania braziliensis prostaglandin F2α synthase impacts host infection., Parasit Vectors, PMID 31915065PXD021766 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of testicular extracellular vesicles Possible reference: Golkowski, M. et al. (2016) Studying mechanisms of cAMP and cyclic nucleotide phosphodiesterase signaling in Leydig cell function with phosphoproteomics., Cell Signal, PMID 26643407PXD021757 Dataset with its publication pending (from PRIDE) Dataset title: Epigenetic inactivation of the autophagy-lysosomal system in the Parkinson’s disease appendix Possible reference: Gordevicius, J. et al. (2021) Epigenetic inactivation of the autophagy-lysosomal system in appendix in Parkinson's disease., Nat Commun, PMID 34446734PXD021738 Dataset with its publication pending (from PRIDE) Dataset title: Inhibition of CBP synergizes with the RNA-dependent mechanisms of azacitidine by limiting protein translation Possible reference: Diesch, J. et al. (2021) Inhibition of CBP synergizes with the RNA-dependent mechanisms of Azacitidine by limiting protein synthesis., Nat Commun, PMID 34663789PXD021733 Dataset with its publication pending (from iProX) Dataset title: VWCE inhibited the proliferation, migration, invasion, and chemoresistance of the breast cancer cell lines Possible reference: Zhang, D. et al. (2020) VWCE Functions as a Tumor Suppressor in Breast Cancer Cells., Front Oncol, PMID 33194737PXD021729 Dataset with its publication pending (from PRIDE) Dataset title: Tyrosine phosphoproteomics of patient-derived xenografts reveals ephrin type-B receptor 4 tyrosine kinase as novel therapeutic target in pancreatic cancer Possible reference: Renuse, S. et al. (2021) Tyrosine Phosphoproteomics of Patient-Derived Xenografts Reveals Ephrin Type-B Receptor 4 Tyrosine Kinase as a Therapeutic Target in Pancreatic Cancer., Cancers (Basel), PMID 34298619PXD021728 Dataset with its publication pending (from PRIDE) Dataset title: Caspase-3 cleaves extracellular vesicle proteins during auditory brainstem development Possible reference: Weghorst, F. et al. (2020) Caspase-3 Cleaves Extracellular Vesicle Proteins During Auditory Brainstem Development., Front Cell Neurosci, PMID 33281555PXD021716 Dataset with its publication pending (from PRIDE) Dataset title: Genetic and physiological mechanisms underlying flower induction in apple Possible reference: Guitton, B. et al. (2016) Analysis of transcripts differentially expressed between fruited and deflowered 'Gala' adult trees: a contribution to biennial bearing understanding in apple., BMC Plant Biol, PMID 26924309PXD021685 Dataset with its publication pending (from PRIDE) Dataset title: SARS-CoV-2 Evades immune detection in Alveolar Macrophages Possible reference: Dalskov, L. et al. (2020) SARS-CoV-2 evades immune detection in alveolar macrophages., EMBO Rep, PMID 33112036PXD021684 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Adaptation of Clostridioides difficile to Treatment with the Antimicrobial Peptide Nisin Possible reference: Maa, S. et al. (2021) Proteomic Adaptation of Clostridioides difficile to Treatment with the Antimicrobial Peptide Nisin., Cells, PMID 33670309PXD021673 Dataset with its publication pending (from PRIDE) Dataset title: LC-MS/MS analysis of lesional and normally looking psoriatic skin Possible reference: Sobolev, VV. et al. (2021) LC-MS/MS analysis of lesional and normally looking psoriatic skin reveals significant changes in protein metabolism and RNA processing., PLoS One, PMID 34038424PXD021663 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomic analysis reveals Rio1 regulated protein metabolism in response to UV irradiation and multiple cellular processes in Sulfolobus islandicus REY15A Possible reference: Huang, Q. et al. (2020) Phosphoproteomic Analysis Reveals Rio1-Related Protein Phosphorylation Changes in Response to UV Irradiation in Sulfolobus islandicus REY15A., Front Microbiol, PMID 33343525PXD021658 Dataset with its publication pending (from PRIDE) Dataset title: Thiol-ene microfluidic chip for fast on-chip sample clean-up, separation and ESI mass analysis of peptides and proteins Possible reference: Svejdal, RR. et al. (2020) Thiol-ene microfluidic chip for fast on-chip sample clean-up, separation and ESI mass spectrometry of peptides and proteins., Anal Chim Acta, PMID 33218478PXD021657 Dataset with its publication pending (from PRIDE) Dataset title: A proteomic landscape of mouse tissues' macrophages Possible reference: Wang, Y. et al. (2018) A proteomics landscape of circadian clock in mouse liver., Nat Commun, PMID 29674717PXD021646 Dataset with its publication pending (from PRIDE) Dataset title: The STRIPAK signaling complex regulates dephosphorylation of GUL1, an RNA-binding protein that shuttles on endosomes Possible reference: Stein, V. et al. (2020) The STRIPAK signaling complex regulates dephosphorylation of GUL1, an RNA-binding protein that shuttles on endosomes., PLoS Genet, PMID 32997654PXD021616 Dataset with its publication pending (from PRIDE) Dataset title: MLL4-associated condensates counterbalance Polycomb-mediated nuclear mechanical stress in Kabuki Syndrome Possible reference: Fasciani, A. et al. (2020) MLL4-associated condensates counterbalance Polycomb-mediated nuclear mechanical stress in Kabuki syndrome., Nat Genet, PMID 33169020PXD021601 Dataset with its publication pending (from PRIDE) Dataset title: Regulatory function of sympathetic innervation on the endo/lysosomal trafficking of acetylcholine receptor Possible reference: Straka, T. et al. (2021) Regulatory Function of Sympathetic Innervation on the Endo/Lysosomal Trafficking of Acetylcholine Receptor., Front Physiol, PMID 33776791PXD021598 no publication (from MassIVE) Dataset title: Regulation of PP2A-subfamily holoenzyme function by carboxyl-terminal methylation Possible reference: Nasa, I. et al. (2020) Effects of carboxyl-terminal methylation on holoenzyme function of the PP2A subfamily., Biochem Soc Trans, PMID 33125487PXD021588 Dataset with its publication pending (from PRIDE) Dataset title: Comparative Host-Coronavirus Protein Interaction Networks Reveal Pan-Viral Disease Mechanisms Possible reference: Gordon, DE. et al. (2020) Comparative host-coronavirus protein interaction networks reveal pan-viral disease mechanisms., Science, PMID 33060197PXD021584 Dataset with its publication pending (from PRIDE) Dataset title: Comparative analysis of systemic and tumor microenvironment proteomes of children with b-cell acute lymphocytic leukemia at diagnosis and after induction treatment. Possible reference: Broto, GE. et al. (2020) Comparative Analysis of Systemic and Tumor Microenvironment Proteomes From Children With B-Cell Acute Lymphocytic Leukemia at Diagnosis and After Induction Treatment., Front Oncol, PMID 33381445PXD021581 Dataset with its publication pending (from PRIDE) Dataset title: Prognostic accuracy of Mass Spectrometric Analysis of Plasma in COVID-19 Possible reference: Lazari, LC. et al. (2021) Prognostic accuracy of MALDI-TOF mass spectrometric analysis of plasma in COVID-19., Life Sci Alliance, PMID 34168074PXD021569 no publication (from MassIVE) Dataset title: Sex-specific effects of in vitro fertilization on adult metabolic phenotypes and hepatic transcriptomic and proteomic pathways in mouse Possible reference: Narapareddy, L. et al. (2021) Sex-specific effects of in vitro fertilization on adult metabolic outcomes and hepatic transcriptome and proteome in mouse., FASEB J, PMID 33734487PXD021543 Dataset with its publication pending (from PRIDE) Dataset title: Flavonol-mediated stabilization of efflux complexes regulates polar auxin transport Possible reference: Teale, WD. et al. (2021) Flavonol-mediated stabilization of PIN efflux complexes regulates polar auxin transport., EMBO J, PMID 33185277PXD021538 Dataset with its publication pending (from PRIDE) Dataset title: Top-down proteomics of human saliva in Alzheimer disease Possible reference: Cabras, T. et al. (2013) Significant modifications of the salivary proteome potentially associated with complications of Down syndrome revealed by top-down proteomics., Mol Cell Proteomics, PMID 23533003PXD021521 no publication (from MassIVE) Dataset title: In-depth analysis of proteomic and genomic fluctuations during the time course of human embryonic stem cells directed differentiation into beta cells Possible reference: Budnik, B. et al. (2022) In-depth analysis of proteomic and genomic fluctuations during the time course of human embryonic stem cells directed differentiation into beta cells., Proteomics, PMID 35094488PXD021497 Dataset with its publication pending (from PanoramaPublic) Dataset title: NeuroLINCS Proteomics: Defining human-derived iPSC proteomes and protein signatures of pluripotency Possible reference: Matlock, AD. et al. (2023) NeuroLINCS Proteomics: Defining human-derived iPSC proteomes and protein signatures of pluripotency., Sci Data, PMID 36631473PXD021447 Dataset with its publication pending (from PRIDE) Dataset title: Restoration of energy homeostasis by SIRT6 extends healthy lifespan Possible reference: Roichman, A. et al. (2021) Restoration of energy homeostasis by SIRT6 extends healthy lifespan., Nat Commun, PMID 34050173PXD021437 Dataset with its publication pending (from PRIDE) Dataset title: Control of synaptic vesicle release probability via VAMP4 targeting to endolysosomes Possible reference: Ivanova, D. et al. (2021) Control of synaptic vesicle release probability via VAMP4 targeting to endolysosomes., Sci Adv, PMID 33931449PXD021414 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of Extracellular Vesicles Produced by Granulicatella adiacens, which causes Infective Endocarditis Possible reference: Alkandari, SA. et al. (2020) Proteomics of extracellular vesicles produced by Granulicatella adiacens, which causes infective endocarditis., PLoS One, PMID 33216751PXD021413 Dataset with its publication pending (from PRIDE) Dataset title: Inflammatory Signaling is Regulated by Fucosylation in Metastatic Breast Cancer Cells Possible reference: Doud, EH. et al. (2020) NF-κB Signaling Is Regulated by Fucosylation in Metastatic Breast Cancer Cells., Biomedicines, PMID 33322811PXD021399 Dataset with its publication pending (from jPOST) Dataset title: Microparticle assisted precipitation screening method for robust drug target identification Possible reference: Lyu, J. et al. (2020) Microparticle-Assisted Precipitation Screening Method for Robust Drug Target Identification., Anal Chem, PMID 32933243PXD021395 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vesicle proteome of breast cancer patients with and without cognitive impairment following anthracycline-based chemotherapy Possible reference: Koh, YQ. et al. (2021) Extracellular Vesicle Proteome of Breast Cancer Patients with and Without Cognitive Impairment Following Anthracycline-based Chemotherapy: An Exploratory Study., Biomark Insights, PMID 34103887PXD021378 (from jPOST) Dataset title: A Landscape of Ectodomain Shedding by Quantitative Protein Terminomics Possible reference: Tsumagari, K. et al. (2021) Exploring the landscape of ectodomain shedding by quantitative protein terminomics., iScience, PMID 33796845PXD021372 Dataset with its publication pending (from jPOST) Dataset title: Comparative phosphoproteomic analysis of raf22raf36 in Arabidopsis Possible reference: Kamiyama, Y. et al. (2021) Arabidopsis group C Raf-like protein kinases negatively regulate abscisic acid signaling and are direct substrates of SnRK2., Proc Natl Acad Sci U S A, PMID 34282011PXD021371 Dataset with its publication pending (from PRIDE) Dataset title: DCLK1 small extracellular vesicle proteome Possible reference: Carli, ALE. et al. (2021) Cancer stem cell marker DCLK1 reprograms small extracellular vesicles toward migratory phenotype in gastric cancer cells., Proteomics, PMID 33991177PXD021366 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteome profiling uncovers a key role for CDKs in TNF signaling Possible reference: Tanzer, MC. et al. (2021) Phosphoproteome profiling uncovers a key role for CDKs in TNF signaling., Nat Commun, PMID 34663829PXD021363 no publication (from MassIVE) Dataset title: Receptor-mediated clustering of FIP200 bypasses the role of LC3 lipidation in autophagy Possible reference: Ohnstad, AE. et al. (2020) Receptor-mediated clustering of FIP200 bypasses the role of LC3 lipidation in autophagy., EMBO J, PMID 33226137PXD021342 Dataset with its publication pending (from jPOST) Dataset title: Microbial processing of jellyfish detritus in the ocean Possible reference: Tinta, T. et al. (2020) Microbial Processing of Jellyfish Detritus in the Ocean., Front Microbiol, PMID 33193256PXD021332 Dataset with its publication pending (from PRIDE) Dataset title: Mechanism of extractive degradation by Phlebiopsis gigantea Possible reference: Hori, C. et al. (2014) Analysis of the Phlebiopsis gigantea genome, transcriptome and secretome provides insight into its pioneer colonization strategies of wood., PLoS Genet, PMID 25474575PXD021327 no publication (from MassIVE) Dataset title: Tyrosine phosphorylation of IQGAP1 in the MET pathway Possible reference: Hedman, AC. et al. (2020) Tyrosine phosphorylation of the scaffold protein IQGAP1 in the MET pathway alters function., J Biol Chem, PMID 33087447PXD021326 no publication (from MassIVE) Dataset title: Tyrosine phosphorylation of IQGAP1 in the MET pathway Possible reference: Hedman, AC. et al. (2020) Tyrosine phosphorylation of the scaffold protein IQGAP1 in the MET pathway alters function., J Biol Chem, PMID 33087447PXD021324 Dataset with its publication pending (from jPOST) Dataset title: Analysis of infant gut microbiome reveals metabolic functional roles associated with healthy and atopic dermatitis using metaproteomics Possible reference: Kingkaw, A. et al. (2020) Analysis of the infant gut microbiome reveals metabolic functional roles associated with healthy infants and infants with atopic dermatitis using metaproteomics., PeerJ, PMID 33033661PXD021290 no publication (from MassIVE) Dataset title: A poplar rust effector protein associates with protein disulfide isomerase and enhance plant susceptibility Possible reference: Madina, MH. et al. (2020) A Poplar Rust Effector Protein Associates with Protein Disulfide Isomerase and Enhances Plant Susceptibility., Biology (Basel), PMID 32947987PXD021286 Dataset with its publication pending (from PRIDE) Dataset title: Linkage-specific ubiquitin chain formation depends on a lysine hydrocarbon ruler Possible reference: Liwocha, J. et al. (2021) Linkage-specific ubiquitin chain formation depends on a lysine hydrocarbon ruler., Nat Chem Biol, PMID 33288957PXD021276 no publication (from MassIVE) Dataset title: eEF2K inhibition synergizes with Glutaminase and eIF4EBP1 inhibitors to suppress triple-negative breast cancer cell growth; impact on the proteome Possible reference: Ju, Y. et al. (2021) Inhibition of eEF2K synergizes with glutaminase inhibitors or 4EBP1 depletion to suppress growth of triple-negative breast cancer cells., Sci Rep, PMID 33911160PXD021275 Dataset with its publication pending (from PRIDE) Dataset title: N-glycomic signature of stage II colorectal cancer and its association with the tumor microenvironment Possible reference: Boyaval, F. et al. (2021) N-Glycomic Signature of Stage II Colorectal Cancer and Its Association With the Tumor Microenvironment., Mol Cell Proteomics, PMID 33581319PXD021268 Dataset with its publication pending (from PRIDE) Dataset title: CSF levels of Elongation Factor Tu is associated with increased mortality in human Streptococcus pneumoniae meningitis Possible reference: Wall, EC. et al. (2020) CSF Levels of Elongation Factor Tu Is Associated With Increased Mortality in Malawian Adults With Streptococcus pneumoniae Meningitis., Front Cell Infect Microbiol, PMID 33363056PXD021266 Dataset with its publication pending (from PRIDE) Dataset title: Structure dynamics of ApoA-I amyloidogenic variants in small HDL increase their ability to mediate cholesterol efflux Possible reference: Nilsson, O. et al. (2021) Structure dynamics of ApoA-I amyloidogenic variants in small HDL increase their ability to mediate cholesterol efflux., J Lipid Res, PMID 33410751PXD021265 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling reveals CDK6 upregulation as a targetable resistance mechanism for lenalidomide in multiple myeloma Possible reference: Ng, YLD. et al. (2022) Proteomic profiling reveals CDK6 upregulation as a targetable resistance mechanism for lenalidomide in multiple myeloma., Nat Commun, PMID 35197447PXD021258 no publication (from MassIVE) Dataset title: Twinfilin1 controls lamellipodial protrusive activity and actin turnover during vertebrate gastrulation Possible reference: Devitt, CC. et al. (2021) Twinfilin1 controls lamellipodial protrusive activity and actin turnover during vertebrate gastrulation., J Cell Sci, PMID 34060614PXD021222 Dataset with its publication pending (from PRIDE) Dataset title: Inhibiting coronavirus replication by chemical ER stress, including SARS-CoV-2 and MERS-CoV Possible reference: Shaban, MS. et al. (2021) Multi-level inhibition of coronavirus replication by chemical ER stress., Nat Commun, PMID 34545074PXD021218 Dataset with its publication pending (from PRIDE) Dataset title: Quantifying gene expression control by growth and metabolism reveals distinct regulation of central carbon metabolism genes in yeast Possible reference: Yu, R. et al. (2021) Quantifying absolute gene expression profiles reveals distinct regulation of central carbon metabolism genes in yeast., Elife, PMID 33720010PXD021201 Dataset with its publication pending (from PRIDE) Dataset title: Differential analysis of nucleolar proteomics in triple negative breast cancer Possible reference: Weeks, SE. et al. (2021) Inhibiting β-catenin disables nucleolar functions in triple-negative breast cancer., Cell Death Dis, PMID 33664239PXD021190 Dataset with its publication pending (from PRIDE) Dataset title: Seven Novel Genes Related to Cell Proliferation and Migration of VHL-Mutated Pheochromocytoma Possible reference: Gao, S. et al. (2021) Seven Novel Genes Related to Cell Proliferation and Migration of VHL-Mutated Pheochromocytoma., Front Endocrinol (Lausanne), PMID 33828526PXD021173 Dataset with its publication pending (from PRIDE) Dataset title: The mitochondrial surface receptor Tom70 protects the cytosol against mitoprotein-induced stress Possible reference: Backes, S. et al. (2021) The chaperone-binding activity of the mitochondrial surface receptor Tom70 protects the cytosol against mitoprotein-induced stress., Cell Rep, PMID 33826901PXD021160 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of Rat Proximal-Tubule Cell-Culture Models Possible reference: Khundmiri, SJ. et al. (2021) Transcriptomes of Major Proximal Tubule Cell Culture Models., J Am Soc Nephrol, PMID 33122286PXD021143 Dataset with its publication pending (from PRIDE) Dataset title: Interactome of S65 phosphorylated NEDD8 and Ub Possible reference: Stuber, K. et al. (2021) Structural and functional consequences of NEDD8 phosphorylation., Nat Commun, PMID 34642328PXD021136 Dataset with its publication pending (from PRIDE) Dataset title: Decoding the signalling profile of hematopoietic progenitor kinase 1 (HPK1) in innate immunity: a proteomic approach Possible reference: Bader, A. et al. (2022) Decoding the signaling profile of hematopoietic progenitor kinase 1 (HPK1) in innate immunity: A proteomic approach., Eur J Immunol, PMID 35099066PXD021126 Dataset with its publication pending (from PRIDE) Dataset title: Structural analysis of the PTEN:P-Rex2 signaling node reveals how cancer-associated mutations coordinate to hyperactivate Rac1 Possible reference: D'Andrea, L. et al. (2021) Structural analysis of the PTEN:P-Rex2 signaling complex reveals how cancer-associated mutations coordinate to hyperactivate Rac1., Sci Signal, PMID 33947796PXD021124 Dataset with its publication pending (from PRIDE) Dataset title: Identification of IgE reactive proteins from Aspergillus terreus using mass spectrometry. Possible reference: Karmakar, B. et al. (2020) Identification and biochemical characterization of Asp t 36, a new fungal allergen from Aspergillus terreus., J Biol Chem, PMID 33454019PXD021103 Dataset with its publication pending (from iProX) Dataset title: Omics study reveals abnormal alterations of breastmilk proteins and metabolites in puerperant women with COVID-19 Possible reference: Zhao, Y. et al. (2020) Omics study reveals abnormal alterations of breastmilk proteins and metabolites in puerperant women with COVID-19., Signal Transduct Target Ther, PMID 33097684PXD021096 Dataset with its publication pending (from PRIDE) Dataset title: Human Neutrophils Phosphoproteome in Systemic Lupus Erythematosus Possible reference: Bashant, KR. et al. (2021) Proteomic, biomechanical and functional analyses define neutrophil heterogeneity in systemic lupus erythematosus., Ann Rheum Dis, PMID 32988843PXD021092 Dataset with its publication pending (from iProX) Dataset title: Proteomic Analysis of Healthy and Atretic Porcine Follicular Granulosa Cells Possible reference: Shan, X. et al. (2021) Proteomic analysis of healthy and atretic porcine follicular granulosa cells., J Proteomics, PMID 33130110PXD021088 Dataset with its publication pending (from PRIDE) Dataset title: Dystrophin domains R4-15 and R20-23 Possible reference: Nelson, DM. et al. (2020) Rapid, redox-mediated mechanical susceptibility of the cortical microtubule lattice in skeletal muscle., Redox Biol, PMID 33002761PXD021086 Dataset with its publication pending (from PRIDE) Dataset title: Proteo-metabolomic study of olive (cv. ‘Chondrolia Chalkidikis’) drupe development and maturation Possible reference: Karagiannis, E. et al. (2021) Proteo-metabolomic journey across olive drupe development and maturation., Food Chem, PMID 34147896PXD021085 Dataset with its publication pending (from PRIDE) Dataset title: Chromatin modifiers and recombination factors promote a telomere fold-back structure, that is lost during replicative senescence Possible reference: Wagner, T. et al. (2020) Chromatin modifiers and recombination factors promote a telomere fold-back structure, that is lost during replicative senescence., PLoS Genet, PMID 33370275PXD021076 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics profiling of pediatric choroid plexus tumors Possible reference: Hesham, D. et al. (2024) Multi-omics analyses of choroid plexus carcinoma cell lines reveal potential targetable pathways and alterations., J Neurooncol, PMID 38190092PXD021059 Dataset with its publication pending (from PRIDE) Dataset title: Proteome-wide Analysis of Lysine 2-hydroxyisobutyrylation in the Phytopathogenic Fungus Botrytis cinerea Possible reference: Xu, Y. et al. (2020) Proteome-Wide Analysis of Lysine 2-Hydroxyisobutyrylation in the Phytopathogenic Fungus Botrytis cinerea., Front Microbiol, PMID 33329453PXD021049 Dataset with its publication pending (from jPOST) Dataset title: High accurate and precise quantification analysis of GeLC-MS/MS with dimethyl labeling. Possible reference: Konno, R. et al. (2021) Highly accurate and precise quantification strategy using stable isotope dimethyl labeling coupled with GeLC-MS/MS., Biochem Biophys Res Commun, PMID 33684618PXD021044 Dataset with its publication pending (from jPOST) Dataset title: Proteome analysis of valve mesenchymal cells Possible reference: Maleki, S. et al. (2016) Mesenchymal state of intimal cells may explain higher propensity to ascending aortic aneurysm in bicuspid aortic valves., Sci Rep, PMID 27779199PXD021042 Dataset with its publication pending (from PRIDE) Dataset title: Comparative analysis of maca (Lepidium meyenii) proteome profiles reveals insights into response mechanisms of herbal plants to high-temperature stress Possible reference: Wang, ZQ. et al. (2020) Comparative analysis of maca (Lepidium meyenii) proteome profiles reveals insights into response mechanisms of herbal plants to high-temperature stress., BMC Plant Biol, PMID 32938390PXD021029 Dataset with its publication pending (from iProX) Dataset title: Dissection of anti-tumor activity of histone deacetylase inhibitor SAHA in NPC cells via quantitative phosphoproteomics Possible reference: Huang, H. et al. (2020) Dissection of Anti-tumor Activity of Histone Deacetylase Inhibitor SAHA in Nasopharyngeal Carcinoma Cells via Quantitative Phosphoproteomics., Front Cell Dev Biol, PMID 33324635PXD021026 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics characterisation of the L929 cell supernatant and its role in BMDM differentiation Possible reference: Heap, RE. et al. (2021) Proteomics characterisation of the L929 cell supernatant and its role in BMDM differentiation., Life Sci Alliance, PMID 33853969PXD021004 Dataset with its publication pending (from PRIDE) Dataset title: HUMAN BLOOD SERUM PROTEOME CHANGES AFTER 6 HOURS OF SLEEP DEPRIVATION AT NIGHT Possible reference: Bjrkum, AA. et al. (2024) Human serum proteomics reveals a molecular signature after one night of sleep deprivation., Sleep Adv, PMID 39131770PXD020954 Dataset with its publication pending (from PRIDE) Dataset title: Chicken microbiome LC - MS / MS Possible reference: Devreese, M. et al. (2014) Effect of administration route and dose escalation on plasma and intestinal concentrations of enrofloxacin and ciprofloxacin in broiler chickens., BMC Vet Res, PMID 25440469PXD020916 no publication (from MassIVE) Dataset title: Selective dephosphorylation by PP2A-B55 directs the meiosis I - meiosis II transition in oocytes Possible reference: Swartz, SZ. et al. (2021) Selective dephosphorylation by PP2A-B55 directs the meiosis I-meiosis II transition in oocytes., Elife, PMID 34342579PXD020902 Dataset with its publication pending (from PRIDE) Dataset title: Fecal metaproteomics reveals reduced gut inflammation and changed microbial metabolism following lifestyle-induced weight loss Possible reference: Biemann, R. et al. (2021) Fecal Metaproteomics Reveals Reduced Gut Inflammation and Changed Microbial Metabolism Following Lifestyle-Induced Weight Loss., Biomolecules, PMID 34066026PXD020871 Dataset with its publication pending (from PRIDE) Dataset title: Inflammatory fibroblasts mediate resistance to neoadjuvant therapy in rectal cancer Possible reference: Nicolas, AM. et al. (2022) Inflammatory fibroblasts mediate resistance to neoadjuvant therapy in rectal cancer., Cancer Cell, PMID 35120600PXD020870 Dataset with its publication pending (from PRIDE) Dataset title: Nuclear phosphatidylinositol (3,4,5) triphosphate interactome uncovers an enrichment in nucleolar proteins Possible reference: Mazloumi Gavgani, F. et al. (2021) Nuclear Phosphatidylinositol 3,4,5-Trisphosphate Interactome Uncovers an Enrichment in Nucleolar Proteins., Mol Cell Proteomics, PMID 34048982PXD020866 Dataset with its publication pending (from PRIDE) Dataset title: Comparative phosphoproteomics of classical bordetellae elucidates the role of serine, threonine and tyrosine phosphorylation in Bordetella biology and virulence Possible reference: Luu, LDW. et al. (2021) Comparative Phosphoproteomics of Classical Bordetellae Elucidates the Potential Role of Serine, Threonine and Tyrosine Phosphorylation in Bordetella Biology and Virulence., Front Cell Infect Microbiol, PMID 33928046PXD020859 Dataset with its publication pending (from PRIDE) Dataset title: Cross-linking mass spectrometry uncovers protein interactions and functional assemblies in synaptic vesicle membranes Possible reference: Wittig, S. et al. (2021) Cross-linking mass spectrometry uncovers protein interactions and functional assemblies in synaptic vesicle membranes., Nat Commun, PMID 33558502PXD020857 Dataset with its publication pending (from PRIDE) Dataset title: Implementation of microfluidics for antimicrobial susceptibility assays: issues and optimization requirements Possible reference: Parsley, NC. et al. (2020) Implementation of Microfluidics for Antimicrobial Susceptibility Assays: Issues and Optimization Requirements., Front Cell Infect Microbiol, PMID 33042872PXD020856 Dataset with its publication pending (from PRIDE) Dataset title: Harnessing Ionic Selectivity In Acetyltransferase Chemoproteomic Probes Possible reference: Jing, Y. et al. (2021) Harnessing Ionic Selectivity in Acetyltransferase Chemoproteomic Probes., ACS Chem Biol, PMID 33373188PXD020854 no publication (from MassIVE) Dataset title: Proteomes of Robust Yarrowia lipolytica Isolates Cultivated in Biomass Hydrolysate Reveal Key Processes Impacting Sugar Utilization and Lipid Degradation Possible reference: Walker, C. et al. (2021) Exploring Proteomes of Robust Yarrowia lipolytica Isolates Cultivated in Biomass Hydrolysate Reveals Key Processes Impacting Mixed Sugar Utilization, Lipid Accumulation, and Degradation., mSystems, PMID 34342539PXD020849 Dataset with its publication pending (from PRIDE) Dataset title: Structural inventory of native ribosomal ABCE1-43S pre-initiation complex Possible reference: Kratzat, H. et al. (2021) A structural inventory of native ribosomal ABCE1-43S pre-initiation complexes., EMBO J, PMID 33289941PXD020805 Dataset with its publication pending (from PRIDE) Dataset title: A vascular phosphoproteome atlas unveils a functional Tie‑Wnt signalling axis in the liver Possible reference: Inverso, D. et al. (2021) A spatial vascular transcriptomic, proteomic, and phosphoproteomic atlas unveils an angiocrine Tie-Wnt signaling axis in the liver., Dev Cell, PMID 34038707PXD020804 Dataset with its publication pending (from PRIDE) Dataset title: The GAR Domain Determines Subcellular Localization of the Growth Controlling RNA Binding Protein Nucleolin Possible reference: Doron-Mandel, E. et al. (2021) The glycine arginine-rich domain of the RNA-binding protein nucleolin regulates its subcellular localization., EMBO J, PMID 34515347PXD020801 no publication (from MassIVE) Dataset title: HUPO HPP Phosphopeptide Challenge Possible reference: Hoopmann, MR. et al. (2020) Insights from the First Phosphopeptide Challenge of the MS Resource Pillar of the HUPO Human Proteome Project., J Proteome Res, PMID 33166149PXD020796 no publication (from MassIVE) Dataset title: Elongin A regulates transcription in vivo through enhanced RNA polymerase processivity Possible reference: Wang, Y. et al. (2021) Elongin A regulates transcription invivo through enhanced RNA polymerase processivity., J Biol Chem, PMID 33298525PXD020795 Dataset with its publication pending (from PRIDE) Dataset title: Five microRNAs in serum are able to differentiate breast cancer patients from healthy individuals Possible reference: Feliciano, A. et al. (2020) Five microRNAs in Serum Are Able to Differentiate Breast Cancer Patients From Healthy Individuals., Front Oncol, PMID 33224883PXD020792 Dataset with its publication pending (from PRIDE) Dataset title: Trans-2-enoyl-CoA reductase limits Ca2+ accumulation in the endoplasmic reticulum by inhibiting SERCA2b Ca2+ pump Possible reference: Uchida, Y. et al. (2021) Trans-2-enoyl-CoA reductase limits Ca2+ accumulation in the endoplasmic reticulum by inhibiting the Ca2+ pump SERCA2b., J Biol Chem, PMID 33482198PXD020790 Dataset with its publication pending (from PRIDE) Dataset title: Global analysis of lysine 2-hydroxyisobutyrylation in wheat leaf Possible reference: Feng, B. et al. (2021) Systematic analysis of lysine 2-hydroxyisobutyrylation posttranslational modification in wheat leaves., PLoS One, PMID 34138952PXD020788 Dataset with its publication pending (from PRIDE) Dataset title: Global analysis of lysine 2-hydroxyisobutyrylation in wheat leaf Possible reference: Feng, B. et al. (2021) Systematic analysis of lysine 2-hydroxyisobutyrylation posttranslational modification in wheat leaves., PLoS One, PMID 34138952PXD020760 Dataset with its publication pending (from PRIDE) Dataset title: A vascular phosphoproteome atlas unveils a functional Tie‑Wnt signalling axis in the liver Possible reference: Inverso, D. et al. (2021) A spatial vascular transcriptomic, proteomic, and phosphoproteomic atlas unveils an angiocrine Tie-Wnt signaling axis in the liver., Dev Cell, PMID 34038707PXD020757 Dataset with its publication pending (from PRIDE) Dataset title: Mechanisms and Novel Proteins for Iron Oxide Mineral Reduction in the Hyperthermophilic Crenarchaeon Pyrodictium delaneyi Possible reference: Kashyap, S. et al. (2021) Microbe-Mineral Interaction and Novel Proteins for Iron Oxide Mineral Reduction in the Hyperthermophilic Crenarchaeon Pyrodictium delaneyi., Appl Environ Microbiol, PMID 33419739PXD020756 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of dexamethasone effects on cartilage breakdown Possible reference: Black, RM. et al. (2020) Proteomic analysis reveals dexamethasone rescues matrix breakdown but not anabolic dysregulation in a cartilage injury model., Osteoarthr Cartil Open, PMID 34322675PXD020746 Dataset with its publication pending (from PRIDE) Dataset title: Global Proteomic Analysis of Lysine lactylation in The Plant Pathogen Botrytis cinerea Possible reference: Gao, M. et al. (2020) Systematic Analysis of Lysine Lactylation in the Plant Fungal Pathogen Botrytis cinerea., Front Microbiol, PMID 33193272PXD020740 Dataset with its publication pending (from PRIDE) Dataset title: Chemical proteomic profiling reveals protein interactors of the alarmones diadenosine triphosphate and tetraphosphate Possible reference: Krger, L. et al. (2021) Chemical proteomic profiling reveals protein interactors of the alarmones diadenosine triphosphate and tetraphosphate., Nat Commun, PMID 34608152PXD020736 no publication (from MassIVE) Dataset title: The Capture of a Disabled Proteasome Identifies Erg25 as a Substrate for Endoplasmic Reticulum Associated Degradation Possible reference: Buck, TM. et al. (2020) The Capture of a Disabled Proteasome Identifies Erg25 as a Substrate for Endoplasmic Reticulum Associated Degradation., Mol Cell Proteomics, PMID 32868373PXD020731 Dataset with its publication pending (from PRIDE) Dataset title: ErbB2 drives Yap activation during cardiac regeneration Possible reference: Aharonov, A. et al. (2020) ERBB2 drives YAP activation and EMT-like processes during cardiac regeneration., Nat Cell Biol, PMID 33046882PXD020722 Dataset with its publication pending (from PRIDE) Dataset title: Urinary proteome profiling in Parkinson’s disease Possible reference: Sharma, S. et al. (2013) Biomarkers in Parkinson's disease (recent update)., Neurochem Int, PMID 23791710PXD020719 Dataset with its publication pending (from PRIDE) Dataset title: Integration of JAK/STAT receptor-ligand trafficking, signalling and gene expression in Drosophila melanogaster cells Possible reference: Moore, R. et al. (2020) Integration of JAK/STAT receptor-ligand trafficking, signalling and gene expression in Drosophila melanogaster cells., J Cell Sci, PMID 32917740PXD020716 Dataset with its publication pending (from iProX) Dataset title: Deep eutectic solvents-based polymer monolith incorporated with titanium dioxide nanotubes (TNTs) for specific recognition of the proteins Possible reference: Zhang, X. et al. (2020) Deep eutectic solvents-based polymer monolith incorporated with titanium dioxide nanotubes for specific recognition of proteins., Anal Chim Acta, PMID 33190706PXD020708 Dataset with its publication pending (from jPOST) Dataset title: Proteome analysis of membranes from renal ischemia-reperfusion injury mouse models. Possible reference: Suzuki, T. et al. (2016) Mitochonic Acid 5 Binds Mitochondria and Ameliorates Renal Tubular and Cardiac Myocyte Damage., J Am Soc Nephrol, PMID 26609120PXD020644 Dataset with its publication pending (from PRIDE) Dataset title: A mass spectrometry-based targeted assay for detection of SARS-CoV-2 antigen from clinical specimens Possible reference: Renuse, S. et al. (2021) A mass spectrometry-based targeted assay for detection of SARS-CoV-2 antigen from clinical specimens., EBioMedicine, PMID 34229274PXD020636 Dataset with its publication pending (from PRIDE) Dataset title: A structural mechanism for PP2A-B56alpha inhibition by CIP2A Possible reference: Pavic, K. et al. (2023) Structural mechanism for inhibition of PP2A-B56α and oncogenicity by CIP2A., Nat Commun, PMID 36854761PXD020633 Dataset with its publication pending (from PRIDE) Dataset title: Polydisperse molecular architecture of connexin 26/30 heteromeric hemichannels revealed by AFM imaging Possible reference: Naulin, PA. et al. (2020) Polydisperse molecular architecture of connexin 26/30 heteromeric hemichannels revealed by atomic force microscopy imaging., J Biol Chem, PMID 32887797PXD020618 Dataset with its publication pending (from PRIDE) Dataset title: Clinical Proteomics of Metastatic Melanoma Reveals Profiles of Organ-Specificity and Treatment Resistance Possible reference: Beck, L. et al. (2021) Clinical Proteomics of Metastatic Melanoma Reveals Profiles of Organ Specificity and Treatment Resistance., Clin Cancer Res, PMID 33446566PXD020612 Dataset with its publication pending (from PRIDE) Dataset title: USP15 deubiquitinase safeguards hematopoiesis and genome integrity in hematopoietic stem cells and leukemia cells Possible reference: van den Berk, P. et al. (2020) USP15 Deubiquitinase Safeguards Hematopoiesis and Genome Integrity in Hematopoietic Stem Cells and Leukemia Cells., Cell Rep, PMID 33378683PXD020607 Dataset with its publication pending (from PRIDE) Dataset title: The component parts of bacteriophage virions accurately defined by a new machine-learning approach built on evolutionary features. Possible reference: Thung, TY. et al. (2021) Component Parts of Bacteriophage Virions Accurately Defined by a Machine-Learning Approach Built on Evolutionary Features., mSystems, PMID 34042467PXD020601 Dataset with its publication pending (from PRIDE) Dataset title: Serum proteomics in COVID-19 patients: Altered coagulation and complement status as a function of IL-6 level Possible reference: D'Alessandro, A. et al. (2020) Serum Proteomics in COVID-19 Patients: Altered Coagulation and Complement Status as a Function of IL-6 Level., J Proteome Res, PMID 32786691PXD020594 no publication (from MassIVE) Dataset title: Novel proteomic profiling of epididymal extracellular vesicles in the domestic cat reveals proteins related to sequential sperm maturation with differences observed between normospermic and teratospermic individuals Possible reference: Rowlison, T. et al. (2020) Novel Proteomic Profiling of Epididymal Extracellular Vesicles in the Domestic Cat Reveals Proteins Related to Sequential Sperm Maturation with Differences Observed between Normospermic and Teratospermic Individuals., Mol Cell Proteomics, PMID 33008835PXD020577 Dataset with its publication pending (from PRIDE) Dataset title: Shewanella oneidensis outer membrane and outer membrane vesicles Possible reference: Pirbadian, S. et al. (2014) Shewanella oneidensis MR-1 nanowires are outer membrane and periplasmic extensions of the extracellular electron transport components., Proc Natl Acad Sci U S A, PMID 25143589PXD020575 Dataset with its publication pending (from PRIDE) Dataset title: An FGF-2 signaling pathway that is activated in aged skeletal muscle promotes intramuscular adipogenesis Possible reference: Mathes, S. et al. (2021) FGF-2-dependent signaling activated in aged human skeletal muscle promotes intramuscular adipogenesis., Proc Natl Acad Sci U S A, PMID 34493647PXD020565 Dataset with its publication pending (from PRIDE) Dataset title: "Analysis of Zika virus capsid-Aedes aegypti mosquito interactome reveals pro-viral host factors critical for establishing infection" Possible reference: Gestuveo, RJ. et al. (2021) Analysis of Zika virus capsid-Aedes aegypti mosquito interactome reveals pro-viral host factors critical for establishing infection., Nat Commun, PMID 33986255PXD020511 Dataset with its publication pending (from PRIDE) Dataset title: Numerous post-translational modifications of RNA polymerase II subunit Rpb4 link transcription to post-transcriptional mechanisms Possible reference: Richard, S. et al. (2021) Numerous Post-translational Modifications of RNA Polymerase II Subunit Rpb4/7 Link Transcription to Post-transcriptional Mechanisms., Cell Rep, PMID 33440147PXD020488 no publication (from MassIVE) Dataset title: Sialylation of Asparagine 612 inhibits Aconitase activity during mouse sperm capacitation; A possible mechanism for the switch from oxidative phosphorylation to glycolysis. Possible reference: Silva Balbin Villaverde, AI. et al. (2020) Sialylation of Asparagine 612 Inhibits Aconitase Activity during Mouse Sperm Capacitation; a Possible Mechanism for the Switch from Oxidative Phosphorylation to Glycolysis., Mol Cell Proteomics, PMID 32839225PXD020481 Dataset with its publication pending (from PRIDE) Dataset title: Light-mediated discovery of surfaceome nanoscale organization and intercellular receptor interaction networks Possible reference: Mller, M. et al. (2021) Light-mediated discovery of surfaceome nanoscale organization and intercellular receptor interaction networks., Nat Commun, PMID 34857745PXD020470 Dataset with its publication pending (from PRIDE) Dataset title: A Co-culture System Reveals a Cross-talk between Alveolar Epithelium and Pulmonary Microvascular Endothelium during SARS-CoV-2 Infection Possible reference: Wang, P. et al. (2020) A cross-talk between epithelium and endothelium mediates human alveolar-capillary injury during SARS-CoV-2 infection., Cell Death Dis, PMID 33293527PXD020426 Dataset with its publication pending (from PRIDE) Dataset title: Heterotypic signaling between dermal fibroblasts and melanoma cells induces phenotypic plasticity and proteome rearrangement in malignant cells Possible reference: Pessotti, DS. et al. (2020) Heterotypic signaling between dermal fibroblasts and melanoma cells induces phenotypic plasticity and proteome rearrangement in malignant cells., Biochim Biophys Acta Proteins Proteom, PMID 32866629PXD020419 no publication (from MassIVE) Dataset title: Mammalian telomeres reforged with non-telomeric sequences Possible reference: Kim, C. et al. (2021) Telomeres reforged with non-telomeric sequences in mouse embryonic stem cells., Nat Commun, PMID 33597549PXD020414 Dataset with its publication pending (from PRIDE) Dataset title: Label-free quantitative proteomic analysis of insect larval and metamorphic molts Possible reference: Si, W. et al. (2020) Label-free quantitative proteomic analysis of insect larval and metamorphic molts., BMC Dev Biol, PMID 33234135PXD020407 Dataset with its publication pending (from jPOST) Dataset title: Retention Time Prediction Using Neural Networks Increases Identifications in Crosslinking Mass Spectrometry Possible reference: Giese, SH. et al. (2021) Retention time prediction using neural networks increases identifications in crosslinking mass spectrometry., Nat Commun, PMID 34050149PXD020401 Dataset with its publication pending (from PRIDE) Dataset title: TPL-2 kinase induces phagosome acidification to promote macrophage killing of Staphylococcus aureus Possible reference: Breyer, F. et al. (2021) TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria., EMBO J, PMID 33881780PXD020400 Dataset with its publication pending (from PRIDE) Dataset title: Cellular and extracellular proteome of the animal pathogen Corynebacterium silvaticum, a close relative of zoonotic Corynebacterium ulcerans and Corynebacterium pseudotuberculosis Possible reference: Mller, J. et al. (2020) Cellular and Extracellular Proteome of the Animal Pathogen Corynebacterium silvaticum, a Close Relative of Zoonotic Corynebacterium ulcerans and Corynebacterium pseudotuberculosis., Proteomes, PMID 32806579PXD020398 Dataset with its publication pending (from PRIDE) Dataset title: Support-vector-machine learning analysis of the human cerebrovascular thrombi proteome: an exploratory study Possible reference: Dargazanli, C. et al. (2020) Machine Learning Analysis of the Cerebrovascular Thrombi Proteome in Human Ischemic Stroke: An Exploratory Study., Front Neurol, PMID 33240201PXD020393 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of CD9 positive EVs Possible reference: Aqrawi, LA. et al. (2017) Identification of potential saliva and tear biomarkers in primary Sjgren's syndrome, utilising the extraction of extracellular vesicles and proteomics analysis., Arthritis Res Ther, PMID 28122643PXD020381 Dataset with its publication pending (from PRIDE) Dataset title: A multipass membrane protein interacts with the cGMP-dependent protein kinase to regulate critical calcium signals in malaria parasites Possible reference: Balestra, AC. et al. (2021) Ca2+ signals critical for egress and gametogenesis in malaria parasites depend on a multipass membrane protein that interacts with PKG., Sci Adv, PMID 33762339PXD020378 Dataset with its publication pending (from PRIDE) Dataset title: Phenotypical adaptation of Pseudomonas aeruginosa in the presence of siderophore-antibiotic conjugates during epithelial cell infection Possible reference: Perraud, Q. et al. (2020) Phenotypic Adaptation of Pseudomonas aeruginosa in the Presence of Siderophore-Antibiotic Conjugates during Epithelial Cell Infection., Microorganisms, PMID 33218210PXD020372 Dataset with its publication pending (from iProX) Dataset title: TMT proteomic analysis of Methanogenic archaeon Possible reference: Vaudel, M. et al. (2012) Integral quantification accuracy estimation for reporter ion-based quantitative proteomics (iQuARI)., J Proteome Res, PMID 22874012PXD020363 Dataset with its publication pending (from jPOST) Dataset title: Decellularized splenic matrix as a scaffold for spleen bioengineering Possible reference: Gibson, M. et al. (2014) Tissue extracellular matrix nanoparticle presentation in electrospun nanofibers., Biomed Res Int, PMID 24971329PXD020355 Dataset with its publication pending (from PRIDE) Dataset title: Prothrombin is a binding partner of the human Receptor of Advanced Glycation End products Possible reference: Degani, G. et al. (2020) Prothrombin is a binding partner of the human receptor of advanced glycation end products., J Biol Chem, PMID 32665403PXD020343 Dataset with its publication pending (from PRIDE) Dataset title: Specific proteome changes in platelets from individuals with GATA1-, GFI1B- and RUNX1-linked bleeding disorders Possible reference: Van Bergen, MGJM. et al. (2021) Specific proteome changes in platelets from individuals with GATA1-, GFI1B-, and RUNX1-linked bleeding disorders., Blood, PMID 33690840PXD020286 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of human spermatozoa glycoproteins by LC/MS/MS Possible reference: Selvaraju, S. et al. (2018) Current status of sperm functional genomics and its diagnostic potential of fertility in bovine (Bos taurus)., Syst Biol Reprod Med, PMID 29537884PXD020260 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative Proteomics Identifies Sytenin-1 as a Universal Biomarker of Exosomes Possible reference: Navajas, R. et al. (2019) Serum Exosome Isolation by Size-Exclusion Chromatography for the Discovery and Validation of Preeclampsia-Associated Biomarkers., Methods Mol Biol, PMID 30852814PXD020258 Dataset with its publication pending (from PRIDE) Dataset title: Therapeutic anti-glioma effect of the combined action of PCSK inhibitor with the anti-tumoral factors secreted by Poly (I:C) - stimulated macrophages Possible reference: Rose, M. et al. (2022) Therapeutic anti-glioma effect of the combined action of PCSK inhibitor with the anti-tumoral factors secreted by Poly (I:C)-stimulated macrophages., Cancer Gene Ther, PMID 33402730PXD020255 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of adipose depots after intermittent fasting reveals visceral fat preservation mechanisms Possible reference: Harney, DJ. et al. (2021) Proteomics analysis of adipose depots after intermittent fasting reveals visceral fat preservation mechanisms., Cell Rep, PMID 33657384PXD020247 Dataset with its publication pending (from PRIDE) Dataset title: TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria Possible reference: Breyer, F. et al. (2021) TPL-2 kinase induces phagosome acidification to promote macrophage killing of bacteria., EMBO J, PMID 33881780PXD020240 no publication (from MassIVE) Dataset title: Multi-omic comparison of Alzheimers variants in human ESC-derived microglia reveals convergence at APOE Possible reference: Liu, T. et al. (2020) Multi-omic comparison of Alzheimer's variants in human ESC-derived microglia reveals convergence at APOE., J Exp Med, PMID 32941599PXD020236 Dataset with its publication pending (from PRIDE) Dataset title: Experimental evolution reveals post-transcriptional regulation as an important driver of fitness gain in the human parasite Leishmania donovani Possible reference: Piel, L. et al. (2022) Experimental evolution links post-transcriptional regulation to Leishmania fitness gain., PLoS Pathog, PMID 35294501PXD020229 Dataset with its publication pending (from PRIDE) Dataset title: Crosslinking mass spectrometry of the unconventional kinetoplastid kinetochore protein KKT4 Possible reference: Ludzia, P. et al. (2021) Structural characterization of KKT4, an unconventional microtubule-binding kinetochore protein., Structure, PMID 33915106PXD020204 Dataset with its publication pending (from PRIDE) Dataset title: A phosphoproteomic analysis of platelets in severe obesity uncovers platelet reactivity and signaling pathways alterations Possible reference: Barrachina, MN. et al. (2021) Phosphoproteomic Analysis of Platelets in Severe Obesity Uncovers Platelet Reactivity and Signaling Pathways Alterations., Arterioscler Thromb Vasc Biol, PMID 33147989PXD020197 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of brain mitochondrial-derived vesicles Possible reference: Roberts, RF. et al. (2021) Proteomic Profiling of Mitochondrial-Derived Vesicles in Brain Reveals Enrichment of Respiratory Complex Sub-assemblies and Small TIM Chaperones., J Proteome Res, PMID 33242952PXD020172 Dataset with its publication pending (from iProX) Dataset title: Sublethal effects of carbendazim on bees Possible reference: Tong, Z. et al. (2018) A survey of multiple pesticide residues in pollen and beebread collected in China., Sci Total Environ, PMID 30021322PXD020154 no publication (from MassIVE) Dataset title: Quantitative Proteomic Analysis of Mouse Fetal and Adult Hematopoietic Progenitor Cells Possible reference: Pimkova, K. et al. (2022) Quantitative analysis of redox proteome reveals oxidation-sensitive protein thiols acting in fundamental processes of developmental hematopoiesis., Redox Biol, PMID 35640380PXD020153 Witzel, K., Matros, A. Fructans are differentially distributed in root tissues of asparagus. Cells, 2020, 9(9). doi: 10.3390/cells9091943. (from MassIVE) Dataset title: Fructooligosaccharides are differentially distributed in root tissues of asparagus Possible reference: Witzel, K. et al. (2020) Fructans Are Differentially Distributed in Root Tissues of Asparagus., Cells, PMID 32842694PXD020151 Dataset with its publication pending (from PRIDE) Dataset title: Biliary Tract Carcinogenesis Model Based on Bile Metaproteomics Possible reference: Arteta, AA. et al. (2020) Biliary Tract Carcinogenesis Model Based on Bile Metaproteomics., Front Oncol, PMID 32793466PXD020136 Dataset with its publication pending (from PRIDE) Dataset title: The role of RodAp-conserved cysteine residues in the Aspergillus fumigatus conidial surface organization Possible reference: Valsecchi, I. et al. (2020) The Role of RodA-Conserved Cysteine Residues in the Aspergillus fumigatus Conidial Surface Organization., J Fungi (Basel), PMID 32859091PXD020115 Dataset with its publication pending (from jPOST) Dataset title: The Liquid Chromatography/Tandem Mass Spectrometry-Based Quantification of Angiotensin Peptides Possible reference: He, C. et al. (2020) Development of a novel nanoflow liquid chromatography-parallel reaction monitoring mass spectrometry-based method for quantification of angiotensin peptides in HUVEC cultures., PeerJ, PMID 32983648PXD020104 Dataset with its publication pending (from PRIDE) Dataset title: Generation and validation of recombinant antibodies to study tRNA synthetases in health and disease Possible reference: Preger, C. et al. (2020) Generation and validation of recombinant antibodies to study human aminoacyl-tRNA synthetases., J Biol Chem, PMID 32817337PXD020079 Dataset with its publication pending (from PRIDE) Dataset title: CIITA-transduced glioblastoma cells uncover a rich repertoire of clinically relevant tumor-associated HLA-II antigens Possible reference: Forlani, G. et al. (2021) CIITA-Transduced Glioblastoma Cells Uncover a Rich Repertoire of Clinically Relevant Tumor-Associated HLA-II Antigens., Mol Cell Proteomics, PMID 33592498PXD020078 Dataset with its publication pending (from PRIDE) Dataset title: Urinary Glycoproteomic profiling of Non-Muscle Invasive and Muscle Invasive Bladder Carcinoma Patients reveals distinct N-glycosylation pattern of CD44, MGAM and GINM1 Possible reference: Sathe, G. et al. (2020) Urinary glycoproteomic profiling of non-muscle invasive and muscle invasive bladder carcinoma patients reveals distinct N-glycosylation pattern of CD44, MGAM, and GINM1., Oncotarget, PMID 32922663PXD020056 no publication (from MassIVE) Dataset title: Salinity-dependent proteome dynamics in Nile tilapia kidneys Possible reference: Root, L. et al. (2021) A data-independent acquisition (DIA) assay library for quantitation of environmental effects on the kidney proteome of Oreochromis niloticus., Mol Ecol Resour, PMID 34101993PXD020051 Dataset with its publication pending (from PRIDE) Dataset title: ERR agonism reverses mitochondrial dysfunction and inflammation in the aging kidney Possible reference: Wang, XX. et al. (2023) Estrogen-Related Receptor Agonism Reverses Mitochondrial Dysfunction and Inflammation in the Aging Kidney., Am J Pathol, PMID 37717940PXD020015 Dataset with its publication pending (from PanoramaPublic) Dataset title: S-Adenosylmethionine Depletion Activates La Ribonucleoprotein Domain
Family Member 1 to Induce Protein Translation Possible reference: Ramani, K. et al. (2022) S-adenosylmethionine inhibits la ribonucleoprotein domain family member 1 in murine liver and human liver cancer cells., Hepatology, PMID 34449924PXD020014 Dataset with its publication pending (from PRIDE) Dataset title: "In-gel cross-linking mass spectrometry (IGX-MS) of proteins and protein complexes" Possible reference: Hevler, JF. et al. (2021) Selective cross-linking of coinciding protein assemblies by in-gel cross-linking mass spectrometry., EMBO J, PMID 33459420PXD020009 Dataset with its publication pending (from PRIDE) Dataset title: The previously uncharacterized HCMV protein pUL13 increases mitochondrial bioenergetics during infection Possible reference: Betsinger, CN. et al. (2021) The human cytomegalovirus protein pUL13 targets mitochondrial cristae architecture to increase cellular respiration during infection., Proc Natl Acad Sci U S A, PMID 34344827PXD019970 Dataset with its publication pending (from iProX) Dataset title: Tissue proteomics dataset of COVID-19 patients Possible reference: Zhou, Y. et al. (2020) A network medicine approach to investigation and population-based validation of disease manifestations and drug repurposing for COVID-19., PLoS Biol, PMID 33156843PXD019953 Dataset with its publication pending (from PRIDE) Dataset title: (p)ppGpp controls stringent factors by exploiting antagonistic allosteric coupling between catalytic domains Possible reference: Roghanian, M. et al. (2021) (p)ppGpp controls stringent factors by exploiting antagonistic allosteric coupling between catalytic domains., Mol Cell, PMID 34416138PXD019929 Dataset with its publication pending (from PRIDE) Dataset title: Mouse model of RDEB progression Possible reference: Nystrm, A. et al. (2015) Losartan ameliorates dystrophic epidermolysis bullosa and uncovers new disease mechanisms., EMBO Mol Med, PMID 26194911PXD019915 Dataset with its publication pending (from jPOST) Dataset title: Aberrant splicing isoforms detected by full-length transcriptome sequencing as transcripts of potential neoantigens in non-small cell lung cancer Possible reference: Oka, M. et al. (2021) Aberrant splicing isoforms detected by full-length transcriptome sequencing as transcripts of potential neoantigens in non-small cell lung cancer., Genome Biol, PMID 33397462PXD019914 no publication (from MassIVE) Dataset title: Glycoproteomic Characterization of Human High-Grade Serous Ovarian Cancer Possible reference: Sheta, R. et al. (2016) A metabolic labeling approach for glycoproteomic analysis reveals altered glycoprotein expression upon GALNT3 knockdown in ovarian cancer cells., J Proteomics, PMID 27095597PXD019901 Dataset with its publication pending (from PRIDE) Dataset title: Generation of SARS-CoV-2 S1 spike glycoprotein putative antigenic epitopes in vitro by intracellular aminopeptidases Possible reference: Stamatakis, G. et al. (2020) Generation of SARS-CoV-2 S1 Spike Glycoprotein Putative Antigenic Epitopes in Vitro by Intracellular Aminopeptidases., J Proteome Res, PMID 32931291PXD019900 Dataset with its publication pending (from PRIDE) Dataset title: Grad-seq shines light on unrecognized RNA and protein complexes in the model bacterium Escherichia coli Possible reference: Hr, J. et al. (2020) Grad-seq shines light on unrecognized RNA and protein complexes in the model bacterium Escherichiacoli., Nucleic Acids Res, PMID 32813020PXD019884 Dataset with its publication pending (from PRIDE) Dataset title: Glycan-induced structural dynamics in human norovirus P dimers depend on the virus strain and deamidation status Possible reference: Dlfer, J. et al. (2021) Glycan-Induced Protein Dynamics in Human Norovirus P Dimers Depend on Virus Strain and Deamidation Status., Molecules, PMID 33917179PXD019826 Dataset with its publication pending (from PRIDE) Dataset title: The mitochondrial transporter SFXN1 is critical for Complex III integrity and cellular metabolism Possible reference: Acoba, MG. et al. (2021) The mitochondrial carrier SFXN1 is critical for complex III integrity and cellular metabolism., Cell Rep, PMID 33730581PXD019821 Dataset with its publication pending (from jPOST) Dataset title: A Marine Photosynthetic Microbial Cell Factory as a Platform for Spider Silk Production Possible reference: Foong, CP. et al. (2020) A marine photosynthetic microbial cell factory as a platform for spider silk production., Commun Biol, PMID 32641733PXD019816 Dataset with its publication pending (from PRIDE) Dataset title: Engineering transplantable jejunal mucosal grafts using primary patient-derived organoids for children with intestinal failure Possible reference: Meran, L. et al. (2020) Engineering transplantable jejunal mucosal grafts using patient-derived organoids from children with intestinal failure., Nat Med, PMID 32895569PXD019797 Dataset with its publication pending (from jPOST) Dataset title: A Data-independent Acquisition-based Global Phosphoproteomics System Enables Deep Profiling Possible reference: Kitata, RB. et al. (2021) A data-independent acquisition-based global phosphoproteomics system enables deep profiling., Nat Commun, PMID 33953186PXD019795 Dataset with its publication pending (from PRIDE) Dataset title: Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit Possible reference: Holder, J. et al. (2020) Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit., Elife, PMID 32869743PXD019791 Dataset with its publication pending (from PRIDE) Dataset title: Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit Possible reference: Holder, J. et al. (2020) Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit., Elife, PMID 32869743PXD019788 Dataset with its publication pending (from PRIDE) Dataset title: Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit Possible reference: Holder, J. et al. (2020) Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit., Elife, PMID 32869743PXD019787 Dataset with its publication pending (from PRIDE) Dataset title: Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit Possible reference: Holder, J. et al. (2020) Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit., Elife, PMID 32869743PXD019786 Dataset with its publication pending (from PRIDE) Dataset title: Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit Possible reference: Holder, J. et al. (2020) Ordered dephosphorylation initiated by the selective proteolysis of cyclin B drives mitotic exit., Elife, PMID 32869743PXD019784 Dataset with its publication pending (from PRIDE) Dataset title: Hypoxis hemerocallidea (Afrtican potato) corm, leaf and flower transcriptomics and proteomics Possible reference: Tomescu, MS. et al. (2021) Transcriptome and proteome of the corm, leaf and flower of Hypoxis hemerocallidea (African potato)., PLoS One, PMID 34283859PXD019755 Dataset with its publication pending (from PRIDE) Dataset title: Lkb1 suppresses amino acid-driven gluconeogenesis in the liver Possible reference: Just, PA. et al. (2020) Lkb1 suppresses amino acid-driven gluconeogenesis in the liver., Nat Commun, PMID 33257663PXD019734 Dataset with its publication pending (from iProX) Dataset title: Bis(zinc(II)-dipicolylamine) functionalized sub-2 μm core-shell microspheres for analysis of N-phosphoproteome Possible reference: Hu, Y. et al. (2020) Bis(zinc(II)-dipicolylamine)-functionalized sub-2 μm core-shell microspheres for the analysis of N-phosphoproteome., Nat Commun, PMID 33277485PXD019704 Dataset with its publication pending (from PRIDE) Dataset title: Chaperone-mediated autophagy in the regulation of the circadian clock Possible reference: Juste, YR. et al. (2021) Reciprocal regulation of chaperone-mediated autophagy and the circadian clock., Nat Cell Biol, PMID 34876687PXD019701 Dataset with its publication pending (from PRIDE) Dataset title: DIPG harbour alterations targetable by MEK inhibitors, with acquired resistance mechanisms overcome by combinatorial inhibition Possible reference: Izquierdo, E. et al. (2022) DIPG Harbors Alterations Targetable by MEK Inhibitors, with Acquired Resistance Mechanisms Overcome by Combinatorial Inhibition., Cancer Discov, PMID 34737188PXD019679 Dataset with its publication pending (from PRIDE) Dataset title: GHB analogs confer neuroprotection through specific interaction with the CaMKII hub domain Possible reference: Leurs, U. et al. (2021) GHB analogs confer neuroprotection through specific interaction with the CaMKIIα hub domain., Proc Natl Acad Sci U S A, PMID 34330837PXD019674 Dataset with its publication pending (from PRIDE) Dataset title: Requirement of Nuclear Pore Complex subunits for transposon silencing in Drosophila Possible reference: Munaf, M. et al. (2021) Channel nuclear pore complex subunits are required for transposon silencing in Drosophila., Elife, PMID 33856346PXD019664 (from jPOST) Dataset title: Identification of Endogenous Kinase Substrates by Proximity Labeling Combined with Kinase Perturbation and Phosphorylation Motifs Possible reference: Niinae, T. et al. (2021) Identification of Endogenous Kinase Substrates by Proximity Labeling Combined with Kinase Perturbation and Phosphorylation Motifs., Mol Cell Proteomics, PMID 34186244PXD019663 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of exudate of Cercospora armoraciae from Armoracia rusticana Possible reference: Wang, H. et al. (2020) Proteomic analysis of exudate of Cercospora armoraciae from Armoracia rusticana., PeerJ, PMID 33005484PXD019640 Dataset with its publication pending (from PRIDE) Dataset title: The pan-HER kinase inhibitor Neratinib modulates plant defense signaling by covalent targeting of an Arabidopsis epoxide hydrolase Possible reference: Ninck, S. et al. (2023) Chemoproteomics Reveals the Pan-HER Kinase Inhibitor Neratinib To Target an Arabidopsis Epoxide Hydrolase Related to Phytohormone Signaling., ACS Chem Biol, PMID 37115018PXD019626 Dataset with its publication pending (from jPOST) Dataset title: Surfactant-assisted one-pot sample preparation for label-free single-cell proteomics Possible reference: Tsai, CF. et al. (2021) Surfactant-assisted one-pot sample preparation for label-free single-cell proteomics., Commun Biol, PMID 33649493PXD019618 no publication (from MassIVE) Dataset title: Quantitative Proteomics of human relevance of the dietary fiber-induced liver cancer murine model Possible reference: Chandrashekar, DS. et al. (2020) Fermentable fiber-induced hepatocellular carcinoma in mice recapitulates gene signatures found in human liver cancer., PLoS One, PMID 32559205PXD019572 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative data-independent acquisition glycoproteomics of sparkling wine Possible reference: Pegg, CL. et al. (2021) Quantitative Data-Independent Acquisition Glycoproteomics of Sparkling Wine., Mol Cell Proteomics, PMID 32938748PXD019564 Dataset with its publication pending (from PRIDE) Dataset title: S-glutathionylation proteome profiling of Streptococcus mutans Possible reference: Li, Z. et al. (2020) S-glutathionylation proteome profiling reveals a crucial role of a thioredoxin-like protein in interspecies competition and cariogenecity of Streptococcus mutans., PLoS Pathog, PMID 32716974PXD019556 Dataset with its publication pending (from PRIDE) Dataset title: iTRAQ-based quantitative proteomic analysis of heat stress-induced mechanisms in pepper seedlings Possible reference: Wang, J. et al. (2021) iTRAQ-based quantitative proteomic analysis of heat stress-induced mechanisms in pepper seedlings., PeerJ, PMID 34141478PXD019549 Dataset with its publication pending (from PRIDE) Dataset title: SWATH-MS based proteomic profiling of Pancreatic Ductal Adenocarcinoma tumours reveals the interplay between the extracellular matrix and related intracellular pathways Possible reference: Nweke, EE. et al. (2020) SWATH-MS based proteomic profiling of pancreatic ductal adenocarcinoma tumours reveals the interplay between the extracellular matrix and related intracellular pathways., PLoS One, PMID 33048956PXD019515 Dataset with its publication pending (from PRIDE) Dataset title: FAIMS single cellUltrasensitive single-cell proteomics workflow identifies >1000 protein groups per mammalian cell Possible reference: Cong, Y. et al. (2020) Ultrasensitive single-cell proteomics workflow identifies >1000 protein groups per mammalian cell., Chem Sci, PMID 34163866PXD019499 Dataset with its publication pending (from PRIDE) Dataset title: CRYPTOCHROMES promote daily proteome homeostasis Possible reference: Wong, DCS. et al. (2022) CRYPTOCHROMES promote daily protein homeostasis., EMBO J, PMID 34842284PXD019497 Dataset with its publication pending (from jPOST) Dataset title: Improved host cell protein analysis in monoclonal antibody products through ProteoMiner Possible reference: Chen, IH. et al. (2020) Improved host cell protein analysis in monoclonal antibody products through ProteoMiner., Anal Biochem, PMID 32979367PXD019486 Dataset with its publication pending (from PRIDE) Dataset title: Long noncoding RNA (lncRNA), smORF encoded polypeptides (SEPs), NONCODE database, enrichment, mass spectrometry Possible reference: Zhang, Q. et al. (2021) Deeply Mining a Universe of Peptides Encoded by Long Noncoding RNAs., Mol Cell Proteomics, PMID 34129944PXD019484 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial protein interaction landscape of SS-31 Possible reference: Chavez, JD. et al. (2020) Mitochondrial protein interaction landscape of SS-31., Proc Natl Acad Sci U S A, PMID 32554501PXD019482 Dataset with its publication pending (from iProX) Dataset title: Proteomic analysis of blood serum and lung about pulmonary hypertension with old anterior myocardial infarction Possible reference: Wu, X. et al. (2020) Serum biomarker analysis at the protein level on pulmonary hypertension secondary to old anterior myocardial infarction., Pulm Circ, PMID 33282196PXD019469 Dataset with its publication pending (from PRIDE) Dataset title: A head and neck cancer protein interaction map reveals PIK3CA mutant drug sensitivity Possible reference: Swaney, DL. et al. (2021) A protein network map of head and neck cancer reveals PIK3CA mutant drug sensitivity., Science, PMID 34591642PXD019465 Dataset with its publication pending (from PRIDE) Dataset title: ZAP-70 promotes microenvironment interactions and increases protein-translation in chronic lymphocytic leukemia Possible reference: Chen, J. et al. (2021) ZAP-70 constitutively regulates gene expression and protein synthesis in chronic lymphocytic leukemia., Blood, PMID 33619528PXD019463 Dataset with its publication pending (from PRIDE) Dataset title: Bacterial response to glyphosate-based herbicide Roundup stress Possible reference: Pppe, J. et al. (2020) Selection for Resistance to a Glyphosate-Containing Herbicide in Salmonella enterica Does Not Result in a Sustained Activation of the Tolerance Response or Increased Cross-Tolerance and Cross-Resistance to Clinically Important Antibiotics., Appl Environ Microbiol, PMID 33008821PXD019455 no publication (from MassIVE) Dataset title: Hepatitis C virus NS3-4A protease regulates the lipid environment for RNA replication by cleaving host enzyme 24-dehydrocholesterol reductase Possible reference: Tallorin, L. et al. (2020) Hepatitis C virus NS3-4A protease regulates the lipid environment for RNA replication by cleaving host enzyme 24-dehydrocholesterol reductase., J Biol Chem, PMID 32641492PXD019438 Dataset with its publication pending (from PRIDE) Dataset title: TET2 is a component of the ER complex and controls 5mC to 5hmC conversion at ER cis-regulatory regions Possible reference: Broome, R. et al. (2021) TET2 is a component of the estrogen receptor complex and controls 5mC to 5hmC conversion at estrogen receptor cis-regulatory regions., Cell Rep, PMID 33626359PXD019432 no publication (from MassIVE) Dataset title: Membrane-Based Affinity Purification to Identify Target Proteins of a Small-Molecule Drug Possible reference: Yang, L. et al. (2020) Membrane-Based Affinity Purification to Identify Target Proteins of a Small-Molecule Drug., Anal Chem, PMID 32867494PXD019419 no publication (from MassIVE) Dataset title: Proteomic Analysis of the Air-way Fluid in Lung Cancer. Detection of Periostin in Bronchoalveolar Lavage (BAL). Possible reference: Zhou, Y. et al. (2020) Proteomic Analysis of the Air-Way Fluid in Lung Cancer. Detection of Periostin in Bronchoalveolar Lavage (BAL)., Front Oncol, PMID 32719746PXD019413 Dataset with its publication pending (from PRIDE) Dataset title: Progressive proteome changes in the myocardium of a pig model for Duchenne muscular dystrophy Possible reference: Tamiyakul, H. et al. (2020) Progressive Proteome Changes in the Myocardium of a Pig Model for Duchenne Muscular Dystrophy., iScience, PMID 32927262PXD019387 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Profiling of Serum Exosomes from Patients with Metastatic Gastric Cancer Possible reference: Ding, XQ. et al. (2020) Proteomic Profiling of Serum Exosomes From Patients With Metastatic Gastric Cancer., Front Oncol, PMID 32754443PXD019362 Dataset with its publication pending (from PRIDE) Dataset title: Towards understandingTissue Mϕ heterogeneity and functions using quantitative proteomics Possible reference: Ruprecht, B. et al. (2017) Lapatinib Resistance in Breast Cancer Cells Is Accompanied by Phosphorylation-Mediated Reprogramming of Glycolysis., Cancer Res, PMID 28209619PXD019358 Dataset with its publication pending (from PRIDE) Dataset title: Global Proteomic Analysis of Lysine crotonylation in The Plant Pathogen Botrytis cinerea Possible reference: Zhang, N. et al. (2020) Global Proteomic Analysis of Lysine Crotonylation in the Plant Pathogen Botrytis cinerea., Front Microbiol, PMID 33193151PXD019350 Dataset with its publication pending (from PRIDE) Dataset title: A human tissue screen identifies a regulator of ER secretion as a brain size determinant Possible reference: Esk, C. et al. (2020) A human tissue screen identifies a regulator of ER secretion as a brain-size determinant., Science, PMID 33122427PXD019345 Dataset with its publication pending (from PRIDE) Dataset title: MPP8 is essential for sustaining self-renewal of ground-state pluripotent stem cells Possible reference: Mller, I. et al. (2021) MPP8 is essential for sustaining self-renewal of ground-state pluripotent stem cells., Nat Commun, PMID 34031396PXD019305 Dataset with its publication pending (from PRIDE) Dataset title: Xylose Metabolism and the Effect of Oxidative Stress on Lipid and Carotenoid Production in Rhodotorula toruloides: Insights for Future Biorefinery Possible reference: Pinheiro, MJ. et al. (2020) Xylose Metabolism and the Effect of Oxidative Stress on Lipid and Carotenoid Production in Rhodotorula toruloides: Insights for Future Biorefinery., Front Bioeng Biotechnol, PMID 32974324PXD019293 Dataset with its publication pending (from PRIDE) Dataset title: Caspofungin induced cell wall changes of Candida species influences macrophage interactions Possible reference: Walker, LA. et al. (2020) Caspofungin Induced Cell Wall Changes of Candida Species Influences Macrophage Interactions., Front Cell Infect Microbiol, PMID 32528900PXD019288 Dataset with its publication pending (from PRIDE) Dataset title: COPPER INDUCES PROTEIN AGGREGATION, A TOXIC PROCESS COMPENSATED BY MOLECULAR CHAPERONES. Possible reference: Zuily, L. et al. (2022) Copper Induces Protein Aggregation, a Toxic Process Compensated by Molecular Chaperones., mBio, PMID 35289645PXD019285 Dataset with its publication pending (from PRIDE) Dataset title: Interferon-induced degradation of the hepatitis B virus persistence form, cccDNA, depends on ISG20 Possible reference: Stadler, D. et al. (2021) Interferon-induced degradation of the persistent hepatitis B virus cccDNA form depends on ISG20., EMBO Rep, PMID 33969602PXD019282 Dataset with its publication pending (from iProX) Dataset title: N-glycosites and O-glycosites on Spike glycoprotein of SARS-CoV-2 Possible reference: Bagdonaite, I. et al. (2021) Site-Specific O-Glycosylation Analysis of SARS-CoV-2 Spike Protein Produced in Insect and Human Cells., Viruses, PMID 33806155PXD019280 no publication (from MassIVE) Dataset title: Precise temporal regulation of post-transcriptional repressors is required for an orderly Drosophila maternal-to-zygotic transition Possible reference: Cao, WX. et al. (2020) Precise Temporal Regulation of Post-transcriptional Repressors Is Required for an Orderly Drosophila Maternal-to-Zygotic Transition., Cell Rep, PMID 32579915PXD019273 Dataset with its publication pending (from PRIDE) Dataset title: Posttranslational modification of the RHO of plants protein RACB by phosphorylation and cross-kingdom conserved ubiquitination Possible reference: Wei, L. et al. (2022) Posttranslational modification of the RHO of plants protein RACB by phosphorylation and cross-kingdom conserved ubiquitination., PLoS One, PMID 35333858PXD019260 Dataset with its publication pending (from PRIDE) Dataset title: Cholesterol sensing by CD81 is important for hepatitis C virus entry Possible reference: Palor, M. et al. (2020) Cholesterol sensing by CD81 is important for hepatitis C virus entry., J Biol Chem, PMID 32900848PXD019255 Dataset with its publication pending (from PRIDE) Dataset title: Uncovering tumor-stroma inter-relationships using quantitative MALDI-Mass spectrometry imaging Possible reference: Boyle, ST. et al. (2020) Uncovering Tumor-Stroma Inter-relationships Using MALDI Mass Spectrometry Imaging., J Proteome Res, PMID 32870688PXD019246 no publication (from MassIVE) Dataset title: Oligodendrocyte-derived extracellular vesicles as antigen-specific therapy for autoimmune neuroinflammation Possible reference: Casella, G. et al. (2020) Oligodendrocyte-derived extracellular vesicles as antigen-specific therapy for autoimmune neuroinflammation in mice., Sci Transl Med, PMID 33148622PXD019239 Dataset with its publication pending (from PRIDE) Dataset title: STING mediates lupus via the activation of conventional dendritic cell maturation and plasmacytoid dendritic cell differentiation Possible reference: Thim-Uam, A. et al. (2020) STING Mediates Lupus via the Activation of Conventional Dendritic Cell Maturation and Plasmacytoid Dendritic Cell Differentiation., iScience, PMID 33083760PXD019230 no publication (from MassIVE) Dataset title: EDF1 coordinates cellular responses to ribosome collisions Possible reference: Sinha, NK. et al. (2020) EDF1 coordinates cellular responses to ribosome collisions., Elife, PMID 32744497PXD019229 no publication (from MassIVE) Dataset title: EDF1 coordinates cellular responses to ribosome collisions Possible reference: Sinha, NK. et al. (2020) EDF1 coordinates cellular responses to ribosome collisions., Elife, PMID 32744497PXD019228 no publication (from MassIVE) Dataset title: EDF1 coordinates cellular responses to ribosome collisions Possible reference: Sinha, NK. et al. (2020) EDF1 coordinates cellular responses to ribosome collisions., Elife, PMID 32744497PXD019227 no publication (from MassIVE) Dataset title: EDF1 coordinates cellular responses to ribosome collisions Possible reference: Sinha, NK. et al. (2020) EDF1 coordinates cellular responses to ribosome collisions., Elife, PMID 32744497PXD019226 no publication (from MassIVE) Dataset title: EDF1 coordinates cellular responses to ribosome collisions Possible reference: Sinha, NK. et al. (2020) EDF1 coordinates cellular responses to ribosome collisions., Elife, PMID 32744497PXD019224 no publication (from MassIVE) Dataset title: EDF1 coordinates cellular responses to ribosome collisions Possible reference: Sinha, NK. et al. (2020) EDF1 coordinates cellular responses to ribosome collisions., Elife, PMID 32744497PXD019213 no publication (from MassIVE) Dataset title: Perturbations of hepatic proteome behind the onset of metabolic disorders in mouse offspring developed following assisted reproductive technologies Possible reference: Zacchini, F. et al. (2021) Perturbations of the hepatic proteome behind the onset of metabolic disorders in mouse offspring developed following embryo manipulation., Theriogenology, PMID 34052779PXD019199 Dataset with its publication pending (from PRIDE) Dataset title: Mapping the CCL8:P672 interface using HDX-MS Possible reference: Darlot, B. et al. (2020) Engineered anti-inflammatory peptides inspired by mapping an evasin-chemokine interaction., J Biol Chem, PMID 32471866PXD019186 Dataset with its publication pending (from PRIDE) Dataset title: Adipocytes disrupt the translational programme of Acute Lymphoblastic Leukaemia to favour tumour survival and persistence Possible reference: Heydt, Q. et al. (2021) Adipocytes disrupt the translational programme of acute lymphoblastic leukaemia to favour tumour survival and persistence., Nat Commun, PMID 34535653PXD019159 Dataset with its publication pending (from PRIDE) Dataset title: Protein composition of the subretinal fluid suggest selective diffusion of vitreous proteins in retinal detachment Possible reference: Poulsen, ET. et al. (2020) Protein Composition of the Subretinal Fluid Suggests Selective Diffusion of Vitreous Proteins in Retinal Detachment., Transl Vis Sci Technol, PMID 33117608PXD019141 Dataset with its publication pending (from PRIDE) Dataset title: Stress-induced translation inhibition through displacement of scanning initiation factors Possible reference: Bresson, S. et al. (2020) Stress-Induced Translation Inhibition through Rapid Displacement of Scanning Initiation Factors., Mol Cell, PMID 33053322PXD019132 no publication (from MassIVE) Dataset title: A carotenoid-deficient mutant of the plant-associated microbe Pantoea sp. YR343 displays an altered membrane proteome Possible reference: Vijaya Kumar, S. et al. (2020) A carotenoid-deficient mutant of the plant-associated microbe Pantoea sp. YR343 displays an altered membrane proteome., Sci Rep, PMID 32917935PXD019127 Dataset with its publication pending (from PRIDE) Dataset title: PhosR enables processing and functional analysis of phosphoproteomic data Possible reference: Kim, HJ. et al. (2021) PhosR enables processing and functional analysis of phosphoproteomic data., Cell Rep, PMID 33626354PXD019125 Dataset with its publication pending (from PRIDE) Dataset title: Black soldier fly as protein source for salmon Possible reference: Li, Y. et al. (2019) Gut health and vaccination response in pre-smolt Atlantic salmon (Salmo salar) fed black soldier fly (Hermetia illucens) larvae meal., Fish Shellfish Immunol, PMID 30590165PXD019102 Dataset with its publication pending (from PRIDE) Dataset title: Screen Identifies DYRK1B Network as Mediator of Transcription Repression on Damaged Chromatin Possible reference: Dong, C. et al. (2020) Screen identifies DYRK1B network as mediator of transcription repression on damaged chromatin., Proc Natl Acad Sci U S A, PMID 32611815PXD019098 Dataset with its publication pending (from PRIDE) Dataset title: A systems approach delivers a functional 1 microRNA catalog and expanded targets for seizure suppression in temporal lobe epilepsy Possible reference: Ven, MT. et al. (2020) A systems approach delivers a functional microRNA catalog and expanded targets for seizure suppression in temporal lobe epilepsy., Proc Natl Acad Sci U S A, PMID 32581127PXD019054 Dataset with its publication pending (from PRIDE) Dataset title: Early cleavage of preimplantation embryos is regulated by tRNAGln-TTG-derived small RNAs present in mature spermatozoa Possible reference: Chen, X. et al. (2020) Early cleavage of preimplantation embryos is regulated by tRNAGln-TTG-derived small RNAs present in mature spermatozoa., J Biol Chem, PMID 32487749PXD019045 Dataset with its publication pending (from PRIDE) Dataset title: Human HCC sample, phosphosites occupancy Possible reference: Wang, Y. et al. (2020) A New Workflow for the Analysis of Phosphosite Occupancy in Paired Samples by Integration of Proteomics and Phosphoproteomics Data Sets., J Proteome Res, PMID 32786891PXD019043 Dataset with its publication pending (from PRIDE) Dataset title: Rab1b-AMPylation by Legionella DrrA is allosterically activated by Rab1 Possible reference: Du, J. et al. (2021) Rab1-AMPylation by Legionella DrrA is allosterically activated by Rab1., Nat Commun, PMID 33469029PXD019034 Dataset with its publication pending (from PRIDE) Dataset title: Assembly defects of the human tRNA splicing endonuclease contribute to impaired pre-tRNA processing in pontocerebellar hypoplasia Possible reference: Sekulovski, S. et al. (2021) Assembly defects of human tRNA splicing endonuclease contribute to impaired pre-tRNA processing in pontocerebellar hypoplasia., Nat Commun, PMID 34584079PXD019032 Dataset with its publication pending (from PRIDE) Dataset title: A Cytoskeletal Protein Complex is Essential for Division of Intracellular Amastigotes of Leishmania mexicana (LAND-483 and LAND-536) Possible reference: Kelly, FD. et al. (2020) A cytoskeletal protein complex is essential for division of intracellular amastigotes of Leishmania mexicana., J Biol Chem, PMID 32719012PXD019031 Dataset with its publication pending (from PRIDE) Dataset title: A Cytoskeletal Protein Complex is Essential for Division of Intracellular Amastigotes of Leishmania mexicana (LAN1416) Possible reference: Kelly, FD. et al. (2020) A cytoskeletal protein complex is essential for division of intracellular amastigotes of Leishmania mexicana., J Biol Chem, PMID 32719012PXD019030 Dataset with its publication pending (from PRIDE) Dataset title: Dietary intervention improves health metrics and life expectancy of the genetically obese Titan mouse Possible reference: Mller-Eigner, A. et al. (2022) Dietary intervention improves health metrics and life expectancy of the genetically obese Titan mouse., Commun Biol, PMID 35505192PXD019020 Dataset with its publication pending (from PRIDE) Dataset title: Systematic analysis of IL-17 receptor signalosome reveals a robust regulatory feedback loop Possible reference: Draberova, H. et al. (2020) Systematic analysis of the IL-17 receptor signalosome reveals a robust regulatory feedback loop., EMBO J, PMID 32696476PXD019013 Dataset with its publication pending (from iProX) Dataset title: iTRAQ proteomic analysis of I. multifiliis Possible reference: Yao, JY. et al. (2017) Proteomic analysis of differentially expressed proteins in the two developmental stages of Ichthyophthirius multifiliis., Parasitol Res, PMID 27864673PXD019012 Dataset with its publication pending (from PRIDE) Dataset title: Genome-wide effects of the antimicrobial peptide apidaecin on translation termination Possible reference: Mangano, K. et al. (2020) Genome-wide effects of the antimicrobial peptide apidaecin on translation termination in bacteria., Elife, PMID 33031031PXD018998 no publication (from MassIVE) Dataset title: Enabling Routine MHC-II Associated Peptide ProteomicS (MAPPs) for Risk Assessment of Drug-Induced Immunogenicity Possible reference: Steiner, G. et al. (2020) Enabling Routine MHC-II-Associated Peptide Proteomics for Risk Assessment of Drug-Induced Immunogenicity., J Proteome Res, PMID 32786679PXD018995 Dataset with its publication pending (from PRIDE) Dataset title: SIRT3 interactions and mitochondrial proteome during HCMV infection Possible reference: Sheng, X. et al. (2021) The antiviral sirtuin 3 bridges protein acetylation to mitochondrial integrity and metabolism during human cytomegalovirus infection., PLoS Pathog, PMID 33857259PXD018987 Dataset with its publication pending (from PRIDE) Dataset title: Arabidopsis mTERF9 protein promotes chloroplast ribosomal assembly and translation by establishing ribonucleoprotein interactions in vivo Possible reference: Mteignier, LV. et al. (2021) Arabidopsis mTERF9 protein promotes chloroplast ribosomal assembly and translation by establishing ribonucleoprotein interactions in vivo., Nucleic Acids Res, PMID 33398331PXD018986 no publication (from MassIVE) Dataset title: The effect of pathogen inactivation on cryoprecipitate: A functional and quantitative evaluation Possible reference: Kamyszek, RW. et al. (2020) The effect of pathogen inactivation on cryoprecipitate: a functional and quantitative evaluation., Blood Transfus, PMID 33000752PXD018981 Dataset with its publication pending (from PRIDE) Dataset title: Structure of the full kinetoplastids mitoribosome and insight on its large subunit maturation Possible reference: Soufari, H. et al. (2020) Structure of the mature kinetoplastids mitoribosome and insights into its large subunit biogenesis., Proc Natl Acad Sci U S A, PMID 33168716PXD018970 Dataset with its publication pending (from iProX) Dataset title: Urine proteomics profiling of the COVID-19 Possible reference: Li, Y. et al. (2020) Urine proteome of COVID-19 patients., Urine (Amst), PMID 33688631PXD018967 Dataset with its publication pending (from PRIDE) Dataset title: CreA phosphorylation sites are important for the regulation of carbon catabolite repression in filamentous fungi Possible reference: de Assis, LJ. et al. (2021) Carbon Catabolite Repression in Filamentous Fungi Is Regulated by Phosphorylation of the Transcription Factor CreA., mBio, PMID 33402538PXD018964 Dataset with its publication pending (from PRIDE) Dataset title: Integrated analysis of sialotranscriptome and sialoproteome of the brown dog tick Rhipicephalus sanguineus (s.l.): insights into gene expression during blood feeding Possible reference: Tirloni, L. et al. (2020) Integrated analysis of sialotranscriptome and sialoproteome of the brown dog tick Rhipicephalus sanguineus (s.l.): Insights into gene expression during blood feeding., J Proteomics, PMID 32673754PXD018959 Dataset with its publication pending (from jPOST) Dataset title: A mass spectrometry-based antibody free approach enables the quantification of D-dimer in plasma Possible reference: Zhang, N. et al. (2020) A Mass-Spectrometry-Based Antibody-Free Approach Enables the Quantification of D-Dimer in Plasma., J Proteome Res, PMID 32519545PXD018958 no publication (from MassIVE) Dataset title: Blood circulation of soft nanomaterials is governed by dynamic remodeling of protein opsonins at nanobiointerface Possible reference: Abbina, S. et al. (2020) Blood circulation of soft nanomaterials is governed by dynamic remodeling of protein opsonins at nano-biointerface., Nat Commun, PMID 32546688PXD018953 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analyses of the early stage of interaction between Caballeronia mineralivorans PML1(12) and mineral Possible reference: Uroz, S. et al. (2020) Dual transcriptomics and proteomics analyses of the early stage of interaction between Caballeronia mineralivorans PML1(12) and mineral., Environ Microbiol, PMID 32656915PXD018951 Dataset with its publication pending (from PRIDE) Dataset title: Dental Pulp Stem Cells LC-MS/MS analysis Possible reference: Kumar, A. et al. (2017) Molecular spectrum of secretome regulates the relative hepatogenic potential of mesenchymal stem cells from bone marrow and dental tissue., Sci Rep, PMID 29118330PXD018943 Dataset with its publication pending (from PRIDE) Dataset title: Chromosome-level de novo assembly and annotation of pig-tailed (macaca nemestrina) macaque genome Possible reference: Roodgar, M. et al. (2020) Chromosome-level de novo assembly of the pig-tailed macaque genome using linked-read sequencing and HiC proximity scaffolding., Gigascience, PMID 32649757PXD018933 Dataset with its publication pending (from PRIDE) Dataset title: Protein sequence comparison of human and non-human primate tooth proteomes Possible reference: Froment, C. et al. (2021) Protein sequence comparison of human and non-human primate tooth proteomes., J Proteomics, PMID 33189847PXD018905 Dataset with its publication pending (from PRIDE) Dataset title: Accurate Prediction of Kinase-Substrate Networks Using Knowledge Graphs Possible reference: Nováček, V. et al. (2020) Accurate prediction of kinase-substrate networks using knowledge graphs., PLoS Comput Biol, PMID 33270624PXD018896 Dataset with its publication pending (from PRIDE) Dataset title: A broad response to intracellular long-chain polyphosphate in human cells Possible reference: Bondy-Chorney, E. et al. (2020) A Broad Response to Intracellular Long-Chain Polyphosphate in Human Cells., Cell Rep, PMID 33113373PXD018894 Dataset with its publication pending (from PRIDE) Dataset title: CALCOCO1 acts with VAMP-Associated Proteins to mediate ER-phagy Possible reference: Nthiga, TM. et al. (2020) CALCOCO1 acts with VAMP-associated proteins to mediate ER-phagy., EMBO J, PMID 32525583PXD018873 Dataset with its publication pending (from PRIDE) Dataset title: eEF2K activity determines synergy to PI3K and MEK inhibitors in combination in cancer cells Possible reference: Hijazi, M. et al. (2022) eEF2K Activity Determines Synergy to Cotreatment of Cancer Cells With PI3K and MEK Inhibitors., Mol Cell Proteomics, PMID 35513296PXD018865 Dataset with its publication pending (from PRIDE) Dataset title: Mouse Muscle Stem Cell Proteome during Activation and CPEB1 Dependent Proteome in Mouse Muscle Stem Cell Possible reference: Zeng, W. et al. (2022) CPEB1 directs muscle stem cell activation by reprogramming the translational landscape., Nat Commun, PMID 35177647PXD018854 Dataset with its publication pending (from PRIDE) Dataset title: Comparison of protein and peptide fractionation approaches in protein identification and quantification from Saccharomyces cerevisiae Possible reference: Deng, L. et al. (2021) Comparison of protein and peptide fractionation approaches in protein identification and quantification from Saccharomyces cerevisiae., J Chromatogr B Analyt Technol Biomed Life Sci, PMID 33279813PXD018848 Dataset with its publication pending (from PRIDE) Dataset title: Systematic Analysis of the Lysine Crotonylome and multiple PTM analysis (acetylation, succinylation and crotonylation) in Candida albicans Possible reference: Zhou, X. et al. (2021) Systematic Analysis of the Lysine Crotonylome and Multiple Posttranslational Modification Analysis (Acetylation, Succinylation, and Crotonylation) in Candida albicans., mSystems, PMID 33500332PXD018812 Dataset with its publication pending (from PRIDE) Dataset title: A cell competition-based drug screen identifies a novel compound that induces dual c-Myc degradation and p53 activation Possible reference: Tadele, DS. et al. (2021) A cell competition-based small molecule screen identifies a novel compound that induces dual c-Myc depletion and p53 activation., J Biol Chem, PMID 33303632PXD018785 Dataset with its publication pending (from PRIDE) Dataset title: Modelling Plasticity and Dysplasia of Pancreatic Ductal Organoids Derived from Human Pluripotent Stem Cells Possible reference: Breunig, M. et al. (2021) Modeling plasticity and dysplasia of pancreatic ductal organoids derived from human pluripotent stem cells., Cell Stem Cell, PMID 33915078PXD018781 Dataset with its publication pending (from PRIDE) Dataset title: Divergent features of the coenzyme Q:cytochrome c oxidoreductase complex in Toxoplasma gondii parasites Possible reference: Hayward, JA. et al. (2021) Divergent features of the coenzyme Q:cytochrome c oxidoreductase complex in Toxoplasma gondii parasites., PLoS Pathog, PMID 33524071PXD018754 Dataset with its publication pending (from PRIDE) Dataset title: A global data-driven census of Salmonella small proteins and their potential functions in bacterial virulence Possible reference: Venturini, E. et al. (2020) A global data-driven census of Salmonella small proteins and their potential functions in bacterial virulence., Microlife, PMID 37223003PXD018690 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive nucleosome interactome screen establishes fundamental principles of nucleosome binding Possible reference: Skrajna, A. et al. (2020) Comprehensive nucleosome interactome screen establishes fundamental principles of nucleosome binding., Nucleic Acids Res, PMID 32658293PXD018682 Dataset with its publication pending (from PRIDE) Dataset title: MS analysis of SARS-CoV2 proteins from patient samples Possible reference: Iles, RK. et al. (2022) Direct Detection of Glycated Human Serum Albumin and Hyperglycosylated IgG3 in Serum, by MALDI-ToF Mass Spectrometry, as a Predictor of COVID-19 Severity., Diagnostics (Basel), PMID 36292212PXD018676 no publication (from MassIVE) Dataset title: TBL1XR1 MUTATIONS DRIVE EXTRANODAL LYMPHOMA BY INDUCING A PRO-TUMORIGENIC MEMORY FATE Possible reference: Venturutti, L. et al. (2020) TBL1XR1 Mutations Drive Extranodal Lymphoma by Inducing a Pro-tumorigenic Memory Fate., Cell, PMID 32619424PXD018662 Dataset with its publication pending (from PRIDE) Dataset title: USP9X controls the resolution of stalled ribosomes Possible reference: Clancy, A. et al. (2021) The deubiquitylase USP9X controls ribosomal stalling., J Cell Biol, PMID 33507233PXD018618 no publication (from MassIVE) Dataset title: Functional proteome analysis of placenta membrane associated with preterm birth Possible reference: Parry, S. et al. (2014) Maternal serum serpin B7 is associated with early spontaneous preterm birth., Am J Obstet Gynecol, PMID 24954659PXD018605 no publication (from MassIVE) Dataset title: Proteomic and transcriptomic patterns during lipid accumulation in the microalga Nannochloropsis gaditana Possible reference: Hulatt, CJ. et al. (2020) Proteomic and Transcriptomic Patterns during Lipid Remodeling in Nannochloropsis gaditana., Int J Mol Sci, PMID 32971781PXD018587 Dataset with its publication pending (from PRIDE) Dataset title: Open database searching enables the identification and comparison of glycoproteomes without defining glycan compositions prior to searching Possible reference: Ahmad Izaham, AR. et al. (2020) Open Database Searching Enables the Identification and Comparison of Bacterial Glycoproteomes without Defining Glycan Compositions Prior to Searching., Mol Cell Proteomics, PMID 32576591PXD018580 Dataset with its publication pending (from PRIDE) Dataset title: Tranylcypromine specificity for monoamine oxidase is limited by promiscuous protein labelling and lysosomal trapping Possible reference: Drechsel, J. et al. (2020) Tranylcypromine specificity for monoamine oxidase is limited by promiscuous protein labelling and lysosomal trapping., RSC Chem Biol, PMID 34458760PXD018566 Dataset with its publication pending (from PRIDE) Dataset title: Rewiring of B cell receptor signaling by Epstein-Barr virus LMP2A Possible reference: Fish, K. et al. (2020) Rewiring of B cell receptor signaling by Epstein-Barr virus LMP2A., Proc Natl Acad Sci U S A, PMID 33020271PXD018558 Dataset with its publication pending (from PRIDE) Dataset title: Dual element (C/Cl) isotope analysis indicates distinct mechanisms of reductive dehalogenation of chlorinated ethenes and dichloroethane in Dehalococcoides mccartyi strain BTF08 with defined reductive dehalogenase inventories Possible reference: Franke, S. et al. (2020) Dual Element (C/Cl) Isotope Analysis Indicates Distinct Mechanisms of Reductive Dehalogenation of Chlorinated Ethenes and Dichloroethane in Dehalococcoides mccartyi Strain BTF08 With Defined Reductive Dehalogenase Inventories., Front Microbiol, PMID 32903289PXD018537 Dataset with its publication pending (from PRIDE) Dataset title: Cystic Fibrosis disease Urine exosomes Possible reference: Asef, A. et al. (2018) Immunologic Role of Extracellular Vesicles and Exosomes in the Pathogenesis of Cystic Fibrosis., Tanaffos, PMID 30627176PXD018530 Dataset with its publication pending (from PRIDE) Dataset title: The PII protein-protein interaction network in Azospirillum brasilense reveals a novel role of PII in the control of c-di-GMP homeostasis Possible reference: Gerhardt, ECM. et al. (2020) The Protein-Protein Interaction Network Reveals a Novel Role of the Signal Transduction Protein PII in the Control of c-di-GMP Homeostasis in Azospirillum brasilense., mSystems, PMID 33144311PXD018460 Dataset with its publication pending (from PRIDE) Dataset title: Peptidylarginine Deiminase inhibition abolishes the production of large extracellular vesicles from Giardia intestinalis, affecting host-pathogen interactions by hindering adhesion to host cells Possible reference: Gavinho, B. et al. (2020) Peptidylarginine Deiminase Inhibition Abolishes the Production of Large Extracellular Vesicles From Giardia intestinalis, Affecting Host-Pathogen Interactions by Hindering Adhesion to Host Cells., Front Cell Infect Microbiol, PMID 33072615PXD018433 no publication (from MassIVE) Dataset title: Calsyntenin-3 directly interacts with both alpha- and beta-neurexins Possible reference: Kim, H. et al. (2020) Calsyntenin-3 interacts with both α- and β-neurexins in the regulation of excitatory synaptic innervation in specific Schaffer collateral pathways., J Biol Chem, PMID 32434929PXD018432 Dataset with its publication pending (from iProX) Dataset title: Thermoresistance in human Epidermis Possible reference: Wu, S. et al. (2021) HSPA1A Protects Cells from Thermal Stress by Impeding ESCRT-0-Mediated Autophagic Flux in Epidermal Thermoresistance., J Invest Dermatol, PMID 32533962PXD018415 no publication (from MassIVE) Dataset title: Essential roles for deubiquitination in Leishmania life cycle progression Possible reference: Damianou, A. et al. (2020) Essential roles for deubiquitination in Leishmania life cycle progression., PLoS Pathog, PMID 32544189PXD018411 Dataset with its publication pending (from PRIDE) Dataset title: FLEXIQuant-LF: Robust Regression to quantify protein modification extent in label-free proteomics data Possible reference: Schlaffner, CN. et al. (2020) FLEXIQuant-LF to quantify protein modification extent in label-free proteomics data., Elife, PMID 33284109PXD018397 Dataset with its publication pending (from PRIDE) Dataset title: Salinity adaptation in the principal arboviral vector Aedes aegypti characterized by larval cuticle changes Possible reference: Ramasamy, R. et al. (2021) Transcriptomic, proteomic and ultrastructural studies on salinity-tolerant Aedes aegypti in the context of rising sea levels and arboviral disease epidemiology., BMC Genomics, PMID 33836668PXD018387 Dataset with its publication pending (from PRIDE) Dataset title: Allosteric HSP70 inhibitors perturb mitochondrial proteostasis and overcome proteasome inhibitor resistance in multiple myeloma Possible reference: Ferguson, ID. et al. (2022) Allosteric HSP70 inhibitors perturb mitochondrial proteostasis and overcome proteasome inhibitor resistance in multiple myeloma., Cell Chem Biol, PMID 35853457PXD018382 Dataset with its publication pending (from PRIDE) Dataset title: Mycobacteria tolerate carbon monoxide by remodelling their respiratory chain Possible reference: Bayly, K. et al. (2021) Mycobacteria Tolerate Carbon Monoxide by Remodeling Their Respiratory Chain., mSystems, PMID 33975973PXD018380 Dataset with its publication pending (from PRIDE) Dataset title: Meltome Analysis of Geobacillus thermoleoverans ARTRW1 Possible reference: Oztug, M. et al. (2020) Thermal Proteome Profiling and Meltome Analysis of a Thermophilic Bacterial Strain, Geobacillus thermoleovorans ARTRW1: Toward Industrial Applications., OMICS, PMID 33085568PXD018375 Dataset with its publication pending (from PRIDE) Dataset title: Global mapping of Salmonella enterica-host protein-protein interactions during infection Possible reference: Walch, P. et al. (2021) Global mapping of Salmonella enterica-host protein-protein interactions during infection., Cell Host Microbe, PMID 34237247PXD018353 Dataset with its publication pending (from PRIDE) Dataset title: Altered N-glycan composition impacts flagella mediated adhesion in Chlamydomonas reinhardtii Possible reference: Xu, N. et al. (2020) Altered N-glycan composition impacts flagella-mediated adhesion in Chlamydomonas reinhardtii., Elife, PMID 33300874PXD018352 Dataset with its publication pending (from PRIDE) Dataset title: Niche stiffening compromises stem cell potential during aging by reducing chromatin accessibility at bivalent promoters Possible reference: Koester, J. et al. (2021) Niche stiffening compromises hair follicle stem cell potential during ageing by reducing bivalent promoter accessibility., Nat Cell Biol, PMID 34239060PXD018335 no publication (from MassIVE) Dataset title: Integrative analysis of proteome and transcriptome dynamics during Bacillus subtilis spore revival Possible reference: Swarge, B. et al. (2020) Integrative Analysis of Proteome and Transcriptome Dynamics during Bacillus subtilis Spore Revival., mSphere, PMID 32759332PXD018328 Dataset with its publication pending (from PRIDE) Dataset title: Human cytomegalovirus long non-coding RNA1.2 suppresses extracellular release of the pro-inflammatory cytokine IL-6 by blocking NF-κB activation Possible reference: Lau, B. et al. (2020) Human Cytomegalovirus Long Non-coding RNA1.2 Suppresses Extracellular Release of the Pro-inflammatory Cytokine IL-6 by Blocking NF-κB Activation., Front Cell Infect Microbiol, PMID 32793512PXD018306 Dataset with its publication pending (from PRIDE) Dataset title: Cardiac organoids reveal mechanisms of human cardiogenesis Possible reference: Rufaihah, AJ. et al. (2021) Mending a broken heart: In vitro, in vivo and in silico models of congenital heart disease., Dis Model Mech, PMID 33787508PXD018295 Dataset with its publication pending (from PRIDE) Dataset title: Improvements on the quantitative analysis of Trypanosoma cruzi histone post translational modifications Possible reference: de Lima, LP. et al. (2020) Improvements on the quantitative analysis of Trypanosoma cruzi histone post translational modifications: Study of changes in epigenetic marks through the parasite's metacyclogenesis and life cycle., J Proteomics, PMID 32480077PXD018268 Dataset with its publication pending (from PRIDE) Dataset title: Alt-RPL36 downregulates the PI3K-AKT-mTOR signaling pathway by interacting with TMEM24 Possible reference: Cao, X. et al. (2021) Alt-RPL36 downregulates the PI3K-AKT-mTOR signaling pathway by interacting with TMEM24., Nat Commun, PMID 33479206PXD018267 Dataset with its publication pending (from PRIDE) Dataset title: Schwann cell plasticity regulates neuroblastic tumor cell differentiation Possible reference: Weiss, T. et al. (2016) Proteomics and transcriptomics of peripheral nerve tissue and cells unravel new aspects of the human Schwann cell repair phenotype., Glia, PMID 27545331PXD018258 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of necroptotic extracellular vesicles Possible reference: Li, Y. et al. (2020) Proteomic analysis of extracellular vesicles released from heat-stroked hepatocytes reveals promotion of programmed cell death pathway., Biomed Pharmacother, PMID 32768969PXD018243 Dataset with its publication pending (from iProX) Dataset title: Proteomics provides insights into the inhibition of Chinese hamster V79 cell proliferation in the deep underground environment Possible reference: Liu, J. et al. (2020) Proteomics provides insights into the inhibition of Chinese hamster V79 cell proliferation in the deep underground environment., Sci Rep, PMID 32913333PXD018229 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of coagulation factor IX in bioreactor cell culture media predicts yield and quality of purified product Possible reference: Zacchi, LF. et al. (2021) Coagulation factor IX analysis in bioreactor cell culture supernatant predicts quality of the purified product., Commun Biol, PMID 33758337PXD018200 Dataset with its publication pending (from jPOST) Dataset title: Proteome of rice plasma membrane in greening leaf Possible reference: Iwasaki, Y. et al. (2020) Proteomics Analysis of Plasma Membrane Fractions of the Root, Leaf, and Flower of Rice., Int J Mol Sci, PMID 32977500PXD018198 Dataset with its publication pending (from jPOST) Dataset title: Proteome of rice plasma membrane in leaf sheath Possible reference: Iwasaki, Y. et al. (2020) Proteomics Analysis of Plasma Membrane Fractions of the Root, Leaf, and Flower of Rice., Int J Mol Sci, PMID 32977500PXD018194 Dataset with its publication pending (from PRIDE) Dataset title: Mouse mitochondrial CLPP substrate identification Possible reference: Hofsetz, E. et al. (2020) The Mouse Heart Mitochondria N Terminome Provides Insights into ClpXP-Mediated Proteolysis., Mol Cell Proteomics, PMID 32467259PXD018190 Dataset with its publication pending (from PRIDE) Dataset title: BRAF mutations disrupt the hypothalamo-pituitary axis leading to hypopituitarism in mouse and humans Possible reference: Gualtieri, A. et al. (2021) Activatingmutations in BRAFdisrupt the hypothalamo-pituitary axis leading to hypopituitarism in mice and humans., Nat Commun, PMID 33795686PXD018179 Dataset with its publication pending (from PRIDE) Dataset title: Differential expression pattern of the proteome in response to cadmium stress based on proteomics analysis of wheat roots Possible reference: Jian, M. et al. (2020) Differential expression pattern of the proteome in response to cadmium stress based on proteomics analysis of wheat roots., BMC Genomics, PMID 32380942PXD018153 Dataset with its publication pending (from PRIDE) Dataset title: Proteome dynamics in persisting and resuscitating bacterial cells Possible reference: Mishra, A. et al. (2018) Proteomic analysis of hydroxyl radical-induced resuscitation of hypoxia-induced dormant mycobacterial cells., Int J Mycobacteriol, PMID 29516880PXD018101 no publication (from MassIVE) Dataset title: Proteomic Mapping of multifunctional complexes in triatomine Saliva Possible reference: Santiago, PB. et al. (2020) Proteomic Mapping of Multifunctional Complexes Within Triatomine Saliva., Front Cell Infect Microbiol, PMID 32984079PXD018081 Dataset with its publication pending (from jPOST) Dataset title: Metaproteomics of microbial community in the fermented rice for melanogenesis inhibitor synthesis Possible reference: Sangkaew, O. et al. (2020) Metaproteomic investigation of functional insight into special defined microbial starter on production of fermented rice with melanogenesis inhibition activity., PLoS One, PMID 33147601PXD018034 Dataset with its publication pending (from PRIDE) Dataset title: Maturation kinetics of a multiprotein complex revealed by metabolic labeling Possible reference: Onischenko, E. et al. (2020) Maturation Kinetics of a Multiprotein Complex Revealed by Metabolic Labeling., Cell, PMID 33333025PXD018029 Dataset with its publication pending (from PRIDE) Dataset title: Proteome mapping of human gingival tissue in health and disease Possible reference: Bao, K. et al. (2020) Proteome and Microbiome Mapping of Human Gingival Tissue in Health and Disease., Front Cell Infect Microbiol, PMID 33117738PXD018015 Dataset with its publication pending (from PRIDE) Dataset title: A unique cell wall synthetic response evoked by glucosamine determines pathogenicity-associated fungal cellular differentiation Possible reference: Hu, P. et al. (2021) A unique cell wall synthetic response evoked by glucosamine determines pathogenicity-associated fungal cellular differentiation., PLoS Genet, PMID 34624015PXD017980 no publication (from MassIVE) Dataset title: Functional partitioning of a liquid-like organelle during assembly of axonemal dyneins Possible reference: Lee, C. et al. (2020) Functional partitioning of a liquid-like organelle during assembly of axonemal dyneins., Elife, PMID 33263282PXD017976 Dataset with its publication pending (from PRIDE) Dataset title: Platelets fuel the inflammasome activation of innate immune cells Possible reference: Rolfes, V. et al. (2020) Platelets Fuel the Inflammasome Activation of Innate Immune Cells., Cell Rep, PMID 32402278PXD017971 Dataset with its publication pending (from PRIDE) Dataset title: The lytic polysaccharide monooxygenase of Pseudomonas aeruginosa promotes bacterial survival during systemic infection Possible reference: Askarian, F. et al. (2021) The lytic polysaccharide monooxygenase CbpD promotes Pseudomonas aeruginosa virulence in systemic infection., Nat Commun, PMID 33623002PXD017966 Dataset with its publication pending (from PRIDE) Dataset title: Carbon source dependent reprograming of anaerobic metabolism in Staphylococcus aureus Possible reference: Troitzsch, A. et al. (2021) Carbon Source-Dependent Reprogramming of Anaerobic Metabolism in Staphylococcus aureus., J Bacteriol, PMID 33526614PXD017962 Dataset with its publication pending (from PRIDE) Dataset title: The gain-of-function allele bamAE470K bypasses the essential requirement for BamD in β-barrel outer membrane protein assembly Possible reference: Hart, EM. et al. (2020) The gain-of-function allele bamAE470K bypasses the essential requirement for BamD in β-barrel outer membrane protein assembly., Proc Natl Acad Sci U S A, PMID 32675245PXD017952 Dataset with its publication pending (from PRIDE) Dataset title: Multi-omics profiling of paired primary and recurrent glioblastoma patient tissues Possible reference: Dekker, LJM. et al. (2020) Multiomics profiling of paired primary and recurrent glioblastoma patient tissues., Neurooncol Adv, PMID 32793885PXD017951 Dataset with its publication pending (from PRIDE) Dataset title: PrimPol primase mediates replication traverse of DNA interstrand crosslinks Possible reference: Gonzlez-Acosta, D. et al. (2021) PrimPol-mediated repriming facilitates replication traverse of DNA interstrand crosslinks., EMBO J, PMID 34128550PXD017911 no publication (from MassIVE) Dataset title: Dental calculus from archaeological sites in Africa Possible reference: Buckley, S. et al. (2014) Dental calculus reveals unique insights into food items, cooking and plant processing in prehistoric central Sudan., PLoS One, PMID 25028938PXD017901 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative Proteomics of different truffle species Possible reference: Vita, F. et al. (2013) Proteins from Tuber magnatum Pico fruiting bodies naturally grown in different areas of Italy., Proteome Sci, PMID 23375047PXD017891 Dataset with its publication pending (from PRIDE) Dataset title: Optimization of skeletal protein preparation for LC-MS/MS sequencing yields additional coral skeletal proteins in Stylophora pistillata Possible reference: Peled, Y. et al. (2020) Optimization of skeletal protein preparation for LC-MS/MS sequencing yields additional coral skeletal proteins in Stylophora pistillata., BMC Mater, PMID 32724895PXD017876 Dataset with its publication pending (from PRIDE) Dataset title: Modern and Fossil Coral Skeletal Proteomes Possible reference: Drake, JL. et al. (2020) First sequencing of ancient coral skeletal proteins., Sci Rep, PMID 33173075PXD017875 Dataset with its publication pending (from PRIDE) Dataset title: Identification of X-linked genes that drive sex differences in murine embryonic stem cells Possible reference: Genolet, O. et al. (2021) Identification of X-chromosomal genes that drive sex differences in embryonic stem cells through a hierarchical CRISPR screening approach., Genome Biol, PMID 33863351PXD017870 Dataset with its publication pending (from PRIDE) Dataset title: Membrane proteome of L. amazonensis PH8 and LV79 strains Possible reference: Tano, FT. et al. (2022) Proteome and morphological analysis show unexpected differences between promastigotes of Leishmania amazonensis PH8 and LV79 strains., PLoS One, PMID 35998173PXD017848 Dataset with its publication pending (from PRIDE) Dataset title: Pilot evaluation of two Fasciola hepatica biomarkers for supporting TCBZ efficacy diagnostics Possible reference: Collett, CF. et al. (2020) Pilot Evaluation of Two Fasciola hepatica Biomarkers for Supporting Triclabendazole (TCBZ) Efficacy Diagnostics., Molecules, PMID 32751696PXD017835 Dataset with its publication pending (from PRIDE) Dataset title: Antioxidant mechanism of glutaredoxins and their role in symbiotic nitrogen fixation in Rhizobium leguminosarum bv. viciae 3841 Possible reference: Zou, Q. et al. (2021) Antioxidant ability of glutaredoxins and their role in symbiotic nitrogen fixation in Rhizobium leguminosarum bv. viciae 3841., Appl Environ Microbiol, PMID 33277272PXD017834 Dataset with its publication pending (from PRIDE) Dataset title: An Integrated Quantitative Proteomics Workflow for Biomarker Discovery and Validation in Plasma Possible reference: Dayon, L. et al. (2014) Comprehensive and Scalable Highly Automated MS-Based Proteomic Workflow for Clinical Biomarker Discovery in Human Plasma., J Proteome Res, PMID 25058407PXD017826 Dataset with its publication pending (from PRIDE) Dataset title: PBRM1 deficiency is synthetic lethal with PARP inhibitors in human cancers Possible reference: Chabanon, RM. et al. (2021) PBRM1 Deficiency Confers Synthetic Lethality to DNA Repair Inhibitors in Cancer., Cancer Res, PMID 33888468PXD017771 no publication (from MassIVE) Dataset title: Age-Related Changes in Hair Shaft Protein Profiling and Genetically Variant Peptides Possible reference: Plott, TJ. et al. (2020) Age-Related Changes in Hair Shaft Protein Profiling and Genetically Variant Peptides., Forensic Sci Int Genet, PMID 32485593PXD017721 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics profiling of KAIMRC1 in comparison to MDA-MB231 and MCF-7 Possible reference: Alghanem, B. et al. (2020) Proteomics Profiling of KAIMRC1 in Comparison to MDA-MB231 and MCF-7., Int J Mol Sci, PMID 32570693PXD017720 Dataset with its publication pending (from PRIDE) Dataset title: High-throughput proteotyping based on microplate paramagnetic beads and phylopeptidomics Possible reference: Hayoun, K. et al. (2020) High-throughput proteotyping of bacterial isolates by double barrel chromatography-tandem mass spectrometry based on microplate paramagnetic beads and phylopeptidomics., J Proteomics, PMID 32619772PXD017715 Dataset with its publication pending (from PRIDE) Dataset title: Long-term effects on the transcriptome and proteome in Sprague Dawley rat thyroid and plasma after internal low dose 131I exposure Possible reference: Larsson, M. et al. (2020) Long-term transcriptomic and proteomic effects in Sprague Dawley rat thyroid and plasma after internal low dose 131I exposure., PLoS One, PMID 33382739PXD017709 Dataset with its publication pending (from PRIDE) Dataset title: Anaerobic sulfur oxidation underlies adaptation of a chemosynthetic symbiont to oxic-anoxic interfaces Possible reference: Paredes, GF. et al. (2021) Anaerobic Sulfur Oxidation Underlies Adaptation of a Chemosynthetic Symbiont to Oxic-Anoxic Interfaces., mSystems, PMID 34058098PXD017708 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomics reveals rapid divergence in the postmating response of female reproductive tracts among sibling species Possible reference: McCullough, EL. et al. (2020) Quantitative proteomics reveals rapid divergence in the postmating response of female reproductive tracts among sibling species., Proc Biol Sci, PMID 32576111PXD017707 Dataset with its publication pending (from jPOST) Dataset title: Detection of PD-L1 acetylation Possible reference: Kan-o, K. et al. (2013) PI3K-delta mediates double-stranded RNA-induced upregulation of B7-H1 in BEAS-2B airway epithelial cells., Biochem Biophys Res Commun, PMID 23660190PXD017699 Dataset with its publication pending (from PRIDE) Dataset title: Cul4b promotes CD4 T cell expansion by aiding the repair of damaged DNA Possible reference: Dar, AA. et al. (2021) The E3 ubiquitin ligase Cul4b promotes CD4+ T cell expansion by aiding the repair of damaged DNA., PLoS Biol, PMID 33524014PXD017696 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive quantitative analysis of the proteome of Leishmania (Viannia) species Possible reference: Pinho, N. et al. (2020) In-depth quantitative proteomics uncovers specie-specific metabolic programs in Leishmania (Viannia) species., PLoS Negl Trop Dis, PMID 32804927PXD017674 Dataset with its publication pending (from PRIDE) Dataset title: Influence of substrate stiffness on the proteome of undifferentiated human umbilical cord matrix mesenchymal stem/stromal cells (hUCM-MSCs) Possible reference: Domingues, C. et al. (2020) Cofilin-1 Is a Mechanosensitive Regulator of Transcription., Front Cell Dev Biol, PMID 32903827PXD017658 Dataset with its publication pending (from PRIDE) Dataset title: MAX-mutant small cell lung cancers exhibit impaired activities of MGA-dependent ncPRC1.6. Possible reference: Llabata, P. et al. (2021) MAX mutant small-cell lung cancers exhibit impaired activities of MGA-dependent noncanonical polycomb repressive complex., Proc Natl Acad Sci U S A, PMID 34493659PXD017654 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis of Hypsizygus marmoreus Possible reference: Xu, L. et al. (2020) Label-Free Comparative Proteomics Analysis Revealed Heat Stress Responsive Mechanism in Hypsizygus marmoreus., Front Microbiol, PMID 33469447PXD017639 Dataset with its publication pending (from PRIDE) Dataset title: Isolation window optimization using predicted libraries for deep and accurate proteome profiling by data-independent acquisition Possible reference: Doellinger, J. et al. (2020) Isolation Window Optimization of Data-Independent Acquisition Using Predicted Libraries for Deep and Accurate Proteome Profiling., Anal Chem, PMID 32840101PXD017622 Dataset with its publication pending (from PRIDE) Dataset title: A divergent cyclin/cyclin-dependent kinase complex controls the atypical replication of Plasmodium berghei during gametogony and parasite transmission. Possible reference: Balestra, AC. et al. (2020) A divergent cyclin/cyclin-dependent kinase complex controls the atypical replication of a malaria parasite during gametogony and transmission., Elife, PMID 32568069PXD017618 Dataset with its publication pending (from PRIDE) Dataset title: ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment Possible reference: Lima, DB. et al. (2021) ProteoCombiner: integrating bottom-up with top-down proteomics data for improved proteoform assessment., Bioinformatics, PMID 33165572PXD017599 no publication (from MassIVE) Dataset title: Age-induced methylmalonic acid accumulation promotes cancer aggressiveness and metastatic disease Possible reference: Gomes, AP. et al. (2020) Age-induced accumulation of methylmalonic acid promotes tumour progression., Nature, PMID 32814897PXD017542 Dataset with its publication pending (from PRIDE) Dataset title: Production and application of recombinant extracellular vesicles for method development, data normalization and assessment of pre-analytical variables Possible reference: Geeurickx, E. et al. (2021) Recombinant extracellular vesicles as biological reference material for method development, data normalization and assessment of (pre-)analytical variables., Nat Protoc, PMID 33452501PXD017517 Dataset with its publication pending (from PRIDE) Dataset title: Inhibitor of Differentiation 4 (ID4) represses myoepithelial differentiation of mammary stem cells through its interaction with HEB Possible reference: Holliday, H. et al. (2021) Inhibitor of Differentiation 4 (ID4) represses mammary myoepithelial differentiation via inhibition of HEB., iScience, PMID 33554073PXD017490 no publication (from MassIVE) Dataset title: Absolute quantification of transcription factors reveals principles of gene regulation in erythropoiesis Possible reference: Palii, CG. et al. (2019) Single-Cell Proteomics Reveal that Quantitative Changes in Co-expressed Lineage-Specific Transcription Factors Determine Cell Fate., Cell Stem Cell, PMID 30880026PXD017489 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics support the threespine stickleback egg coat as a protective oocyte envelope Possible reference: Killingbeck, EE. et al. (2021) Proteomics support the threespine stickleback egg coat as a protective oocyte envelope., Mol Reprod Dev, PMID 34148267PXD017488 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics support the threespine stickleback egg coat as a protective oocyte envelope Possible reference: Killingbeck, EE. et al. (2021) Proteomics support the threespine stickleback egg coat as a protective oocyte envelope., Mol Reprod Dev, PMID 34148267PXD017475 Dataset with its publication pending (from PRIDE) Dataset title: The lncRNA MIR31HG regulates the senescence associated secretory phenotype Possible reference: Montes, M. et al. (2021) The long non-coding RNA MIR31HG regulates the senescence associated secretory phenotype., Nat Commun, PMID 33911076PXD017450 Dataset with its publication pending (from PRIDE) Dataset title: High-Throughput Stool Metaproteome Pipeline Possible reference: Kolmeder, CA. et al. (2012) Comparative metaproteomics and diversity analysis of human intestinal microbiota testifies for its temporal stability and expression of core functions., PLoS One, PMID 22279554PXD017445 Dataset with its publication pending (from PRIDE) Dataset title: A chemical screen reveals a connection between lipid metabolism and protein translation Possible reference: Touchette, MH. et al. (2017) A Screen for Protein-Protein Interactions in Live Mycobacteria Reveals a Functional Link between the Virulence-Associated Lipid Transporter LprG and the Mycolyltransferase Antigen 85A., ACS Infect Dis, PMID 28276676PXD017435 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of the promotive effect of plant-derived smoke on soybean Possible reference: Zhong, Z. et al. (2020) Plant-derived smoke enhances plant growth through ornithine-synthesis pathway and ubiquitin-proteasome pathway in soybean., J Proteomics, PMID 32294531PXD017388 Tong Zhang, Matthew J. Gaffrey, Dennis G. Thomas, Thomas J. Weber, Becky M. Hess, Karl K.Weitz, Paul D. Piehowski, Vladislav A. Petyuk, Ronald J. Moore, Wei-Jun Qian, and Brian D. Thrall. A proteome-wide assessment of the oxidative stress paradigm for met (from MassIVE) Dataset title: Reproducible label-free quantitative proteomics profiling cellular responses to engineered nanomaterials Possible reference: Zhang, T. et al. (2020) Block Design with Common Reference Samples Enables Robust Large-Scale Label-Free Quantitative Proteome Profiling., J Proteome Res, PMID 32407631PXD017367 Dataset with its publication pending (from jPOST) Dataset title: Soybean under smoke and flooding Possible reference: Li, X. et al. (2018) Proteomic analysis of the effect of plant-derived smoke on soybean during recovery from flooding stress., J Proteomics, PMID 29704570PXD017366 no publication (from MassIVE) Dataset title: Mass spectrometry-based proteomic characterization of cutaneous melanoma ectosomes reveals the presence of cancer-related molecules Possible reference: Surman, M. et al. (2020) Mass Spectrometry-Based Proteomic Characterization of Cutaneous Melanoma Ectosomes Reveals the Presence of Cancer-Related Molecules., Int J Mol Sci, PMID 32331267PXD017350 Dataset with its publication pending (from PRIDE) Dataset title: Changes in bovine Lymphocyte proteome after stimulation with pokeweed mitogen Possible reference: Kleinwort, KJH. et al. (2022) Bovine Peripheral Blood Derived Lymphocyte Proteome and Secretome Show Divergent Reaction of Bovine Immune Phenotypes after Stimulation with Pokeweed Mitogen., Proteomes, PMID 35225986PXD017344 Dataset with its publication pending (from PRIDE) Dataset title: Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1-CoREST interactome during embryonic stem cell differentiation Possible reference: Barnes, CE. et al. (2022) Proximity-dependent biotin identification (BioID) reveals a dynamic LSD1-CoREST interactome during embryonic stem cell differentiation., Mol Omics, PMID 34709266PXD017343 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of CD5 signalosome in primary T cells Possible reference: Voisinne, G. et al. (2016) Co-recruitment analysis of the CBL and CBLB signalosomes in primary T cells identifies CD5 as a key regulator of TCR-induced ubiquitylation., Mol Syst Biol, PMID 27474268PXD017342 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis with the Aurora-A PROTAC, JB170 Possible reference: Gross, PH. et al. (2022) Accelerating PROTAC drug discovery: Establishing a relationship between ubiquitination and target protein degradation., Biochem Biophys Res Commun, PMID 36084553PXD017298 Dataset with its publication pending (from PRIDE) Dataset title: Identification of gene fusion events in Mycobacterium tuberculosis that encode novel chimeric proteins Possible reference: Gallant, J. et al. (2020) Identification of gene fusion events in Mycobacterium tuberculosis that encode chimeric proteins., NAR Genom Bioinform, PMID 33575588PXD017295 no publication (from MassIVE) Dataset title: Mitophagy effector FUNDC1 controls mitochondrial reprogramming and cellular plasticity Possible reference: Li, J. et al. (2020) The mitophagy effector FUNDC1 controls mitochondrial reprogramming and cellular plasticity in cancer cells., Sci Signal, PMID 32723812PXD017279 Dataset with its publication pending (from PRIDE) Dataset title: Human cytomegalovirus protein pUL36: a dual cell death pathway inhibitor Possible reference: Fletcher-Etherington, A. et al. (2020) Human cytomegalovirus protein pUL36: A dual cell death pathway inhibitor., Proc Natl Acad Sci U S A, PMID 32690704PXD017277 Dataset with its publication pending (from PRIDE) Dataset title: Succession of Bifidobacterium longum strains in response to a changing early life nutritional environment reveals dietary substrate adaptations Possible reference: Kujawska, M. et al. (2020) Succession of Bifidobacterium longum Strains in Response to a Changing Early Life Nutritional Environment Reveals Dietary Substrate Adaptations., iScience, PMID 32721872PXD017261 Dataset with its publication pending (from PRIDE) Dataset title: DIFFERENTIATION-DEPENDENT SUSCEPTIBILITY OF HUMAN MUSCLE CELLS TO ZIKA VIRUS INFECTION Possible reference: Legros, V. et al. (2020) Differentiation-dependent susceptibility of human muscle cells to Zika virus infection., PLoS Negl Trop Dis, PMID 32817655PXD017256 no publication (from MassIVE) Dataset title: Autism-linked Cullin3 germline haploinsufficiency impacts cytoskeletal dynamics and cortical neurogenesis through RhoA signaling Possible reference: Amar, M. et al. (2021) Autism-linked Cullin3 germline haploinsufficiency impacts cytoskeletal dynamics and cortical neurogenesis through RhoA signaling., Mol Psychiatry, PMID 33727673PXD017249 Dataset with its publication pending (from jPOST) Dataset title: Comparative proteomic analysis of protein methylation provides insight into the resistance of hepatocellular carcinoma to 5-fluorouracil Possible reference: Liu, Z. et al. (2020) Comparative proteomic analysis of protein methylation provides insight into the resistance of hepatocellular carcinoma to 5-fluorouracil., J Proteomics, PMID 32198070PXD017219 Dataset with its publication pending (from PRIDE) Dataset title: Protein Tyrosine Phosphatase SHP2 Controls Interleukin-8 Expression in Breast Cancer Cells Possible reference: Amante, RJ. et al. (2022) Protein Tyrosine Phosphatase SHP2 Controls Interleukin-8 Expression in Breast Cancer Cells., J Mammary Gland Biol Neoplasia, PMID 35739379PXD017199 Dataset with its publication pending (from PRIDE) Dataset title: DECIPHERING THE SIGNALING NETWORK LANDSCAPE OF BREAST CANCER IMPROVES DRUG SENSITIVITY PREDICTION Possible reference: Tognetti, M. et al. (2021) Deciphering the signaling network of breast cancer improves drug sensitivity prediction., Cell Syst, PMID 33932331PXD017198 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of protein purification techniques and effects of storage duration on LC-MS/MS analysis of archived FFPE human CRC tissues Possible reference: Rossouw, SC. et al. (2021) Evaluation of Protein Purification Techniques and Effects of Storage Duration on LC-MS/MS Analysis of Archived FFPE Human CRC Tissues., Pathol Oncol Res, PMID 34257588PXD017171 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive functional analysis of Escherichia coli ribosomal RNA methyltransferases Possible reference: Pletnev, P. et al. (2020) Comprehensive Functional Analysis of Escherichia coli Ribosomal RNA Methyltransferases., Front Genet, PMID 32174967PXD017170 Dataset with its publication pending (from PRIDE) Dataset title: Hepatocyte-specific knockout of Nicotinamide phosphoribosyltransferase increases susceptibility for liver fibrosis in mice Possible reference: Dall, M. et al. (2021) Hepatocyte-specific perturbation of NAD+ biosynthetic pathways in mice induces reversible nonalcoholic steatohepatitis-like phenotypes., J Biol Chem, PMID 34762911PXD017159 Dataset with its publication pending (from PRIDE) Dataset title: Dynamics in protein translation sustaining T cell preparedness Possible reference: Wolf, T. et al. (2020) Dynamics in protein translation sustaining T cell preparedness., Nat Immunol, PMID 32632289PXD017121 Dataset with its publication pending (from PRIDE) Dataset title: Global Profiling of the Lysine Crotonylome in Different Pluripotent States Possible reference: Lv, Y. et al. (2021) Global Profiling of the Lysine Crotonylome in Different Pluripotent States., Genomics Proteomics Bioinformatics, PMID 33746086PXD017088 Dataset with its publication pending (from PRIDE) Dataset title: The integrin linked kinase is required for chemokine-triggered high affinity conformation of the leukocyte β2-integrin LFA-1The integrin linked kinase is required for chemokine-triggered high affinity conformation of the leukocyte β2-integrin LFA-1 Possible reference: Margraf, A. et al. (2020) The integrin-linked kinase is required for chemokine-triggered high-affinity conformation of the neutrophil β2-integrin LFA-1., Blood, PMID 32730588PXD017074 Dataset with its publication pending (from iProX) Dataset title: protein partners of novel shell matrix proteins of Mytilus coruscus Possible reference: Jiang, Y. et al. (2020) Molecular characterization of a whirlin-like protein with biomineralization-related functions from the shell of Mytilus coruscus., PLoS One, PMID 32267882PXD017067 Dataset with its publication pending (from PRIDE) Dataset title: The dynamic surface proteome of allergenic fungal conidia Possible reference: Blango, MG. et al. (2020) Dynamic Surface Proteomes of Allergenic Fungal Conidia., J Proteome Res, PMID 32233371PXD017066 Dataset with its publication pending (from PRIDE) Dataset title: Improving identification of in-organello protein-protein interactions using an affinity-enrichable, isotopically-coded, and mass spectrometry-cleavable chemical crosslinker Possible reference: Makepeace, KAT. et al. (2020) Improving Identification of In-organello Protein-Protein Interactions Using an Affinity-enrichable, Isotopically Coded, and Mass Spectrometry-cleavable Chemical Crosslinker., Mol Cell Proteomics, PMID 32051233PXD016995 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Analysis of Proteins Downstream of Autism-Associated Gene DIXDC1 Possible reference: Kwan, V. et al. (2021) Proteomic Analysis Reveals Autism-Associated Gene DIXDC1 Regulates Proteins Associated with Mitochondrial Organization and Function., J Proteome Res, PMID 33337894PXD016976 Dataset with its publication pending (from PanoramaPublic) Dataset title: Mass Spectrometry-GUided Immunoassay DEvelopment (MS-GUIDE) Possible reference: Goetze, S. et al. (2022) Use of MS-GUIDE for identification of protein biomarkers for risk stratification of patients with prostate cancer., Clin Proteomics, PMID 35477343PXD016962 Dataset with its publication pending (from PRIDE) Dataset title: Genome-scale transcription-translation mapping reveals features of Zymomonas mobilis transcription units and promoters Possible reference: Vera, JM. et al. (2020) Genome-Scale Transcription-Translation Mapping Reveals Features of Zymomonas mobilis Transcription Units and Promoters., mSystems, PMID 32694125PXD016943 Dataset with its publication pending (from PRIDE) Dataset title: Nematostella toxins expression under stress Possible reference: Nicosia, A. et al. (2014) Characterization of small HSPs from Anemonia viridis reveals insights into molecular evolution of alpha crystallin genes among cnidarians., PLoS One, PMID 25251681PXD016934 no publication (from MassIVE) Dataset title: Gene signature distinguishing TNBC from non-TNBC Possible reference: Mudvari, P. et al. (2013) Genomic insights into triple-negative and HER2-positive breast cancers using isogenic model systems., PLoS One, PMID 24086418PXD016925 Dataset with its publication pending (from PRIDE) Dataset title: Sarcoptes scabiei ES proteomics Possible reference: Randall, TA. et al. (2017) Proteases of Dermatophagoides pteronyssinus., Int J Mol Sci, PMID 28587273PXD016914 Dataset with its publication pending (from PRIDE) Dataset title: Design and experimental evaluation of a minimal, innocuous watermarking strategy to distinguish near-identical DNA and RNA sequences Possible reference: Boonekamp, FJ. et al. (2020) Design and Experimental Evaluation of a Minimal, Innocuous Watermarking Strategy to Distinguish Near-Identical DNA and RNA Sequences., ACS Synth Biol, PMID 32413257PXD016907 Dataset with its publication pending (from jPOST) Dataset title: Limited impact of cytoplasmic mRNA recapping on proteome complexity Possible reference: Agana, BA. et al. (2020) Cytoplasmic mRNA recapping has limited impact on proteome complexity., Open Biol, PMID 33234072PXD016890 no publication (from MassIVE) Dataset title: Effects of mobile phone electromagnetic radiation on rat hippocampus proteome Possible reference: Singh, KV. et al. (2022) Effects of mobile phone electromagnetic radiation on rat hippocampus proteome., Environ Toxicol, PMID 34984797PXD016882 Dataset with its publication pending (from PRIDE) Dataset title: Study of matrix proteins synthesized by DU145 and PC3 prostate cancer cells alone or in co-culture with prostate-derived fibroblasts. Possible reference: Kim, W. et al. (2014) RUNX1 is essential for mesenchymal stem cell proliferation and myofibroblast differentiation., Proc Natl Acad Sci U S A, PMID 25313057PXD016863 Dataset with its publication pending (from PRIDE) Dataset title: Encystation deep proteome of Giardia duodenalis Possible reference: Balan, B. et al. (2021) Multimodal regulation of encystation in Giardia duodenalis revealed by deep proteomics., Int J Parasitol, PMID 34331939PXD016861 Dataset with its publication pending (from PRIDE) Dataset title: Role of Specialized Composition of SWI/SNF Complexes in Prostate Cancer Lineage Plasticity Possible reference: Cyrta, J. et al. (2020) Role of specialized composition of SWI/SNF complexes in prostate cancer lineage plasticity., Nat Commun, PMID 33144576PXD016855 no publication (from MassIVE) Dataset title: Cerebral organoids model neocortical development disrupted by 16p11.2 CNV in autism Possible reference: Urresti, J. et al. (2021) Cortical organoids model early brain development disrupted by 16p11.2 copy number variants in autism., Mol Psychiatry, PMID 34433918PXD016790 Dataset with its publication pending (from PRIDE) Dataset title: MALAT1 (metastasis-associated lung adenocarcinoma transcript 1) Human HCC proteomics Possible reference: Wang, H. et al. (2021) An Integrated Transcriptomics and Proteomics Analysis Implicates lncRNA MALAT1 in the Regulation of Lipid Metabolism., Mol Cell Proteomics, PMID 34478876PXD016776 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive chemical proteomics for target deconvolution of the redox active drug auranofin Possible reference: Saei, AA. et al. (2020) Comprehensive chemical proteomics for target deconvolution of the redox active drug auranofin., Redox Biol, PMID 32199331PXD016772 Dataset with its publication pending (from PRIDE) Dataset title: Npl3 stabilizes R-loops at telomeres to prevent accelerated replicative senescence Possible reference: Prez-Martnez, L. et al. (2020) Npl3 stabilizes R-loops at telomeres to prevent accelerated replicative senescence., EMBO Rep, PMID 32026548PXD016770 no publication (from MassIVE) Dataset title: Generation of aggregates of alpha-lactalbumin by UV-B light exposure Possible reference: Zhao, Z. et al. (2020) Generation of Aggregates of α-Lactalbumin by UV-B Light Exposure., J Agric Food Chem, PMID 32396720PXD016766 Dataset with its publication pending (from PRIDE) Dataset title: Benchmarking the Orbitrap Tribrid Eclipse for Next Generation Multiplexed Proteomics Possible reference: Yu, Q. et al. (2020) Benchmarking the Orbitrap Tribrid Eclipse for Next Generation Multiplexed Proteomics., Anal Chem, PMID 32250601PXD016752 no publication (from MassIVE) Dataset title: Cross-linking modifications of HDL apoproteins by oxidized phospholipids: Structural characterization, in vivo detection, and functional implications Possible reference: Gao, D. et al. (2020) Cross-linking modifications of HDL apoproteins by oxidized phospholipids: structural characterization, in vivo detection, and functional implications., J Biol Chem, PMID 31907281PXD016729 Dataset with its publication pending (from PRIDE) Dataset title: Identification of X-linked genes that drive sex differences in murine embryonic stem cells Possible reference: Genolet, O. et al. (2021) Identification of X-chromosomal genes that drive sex differences in embryonic stem cells through a hierarchical CRISPR screening approach., Genome Biol, PMID 33863351PXD016638 Dataset with its publication pending (from PRIDE) Dataset title: Dissecting the mechanism of signaling-triggered nuclear export of newly synthesized influenza virus ribonucleoprotein complexes Possible reference: Schreiber, A. et al. (2020) Dissecting the mechanism of signaling-triggered nuclear export of newly synthesized influenza virus ribonucleoprotein complexes., Proc Natl Acad Sci U S A, PMID 32601201PXD016630 Dataset with its publication pending (from PRIDE) Dataset title: HIF-1α and HIF-2α differently regulate tumour development, metabolism and inflammation of clear cell renal cell carcinoma in mice Possible reference: Hoefflin, R. et al. (2020) HIF-1α and HIF-2α differently regulate tumour development and inflammation of clear cell renal cell carcinoma in mice., Nat Commun, PMID 32807776PXD016608 no publication (from MassIVE) Dataset title: The Q61H mutation decouples KRAS from upstream regulation and renders cancer cells resistant to SHP2 inhibitors Possible reference: Gebregiworgis, T. et al. (2021) The Q61H mutation decouples KRAS from upstream regulation and renders cancer cells resistant to SHP2 inhibitors., Nat Commun, PMID 34725361PXD016591 Dataset with its publication pending (from PRIDE) Dataset title: Functional Analysis of the Francisella Lysine Decarboxylase Possible reference: Felix, J. et al. (2021) Structural and functional analysis of the Francisella lysine decarboxylase as a key actor in oxidative stress resistance., Sci Rep, PMID 33441661PXD016581 Dataset with its publication pending (from PRIDE) Dataset title: Identification of Saliva Proteins of the Whitefly Bemisia tabaci Possible reference: Huang, HJ. et al. (2021) Identification of salivary proteins in the whitefly Bemisia tabaci by transcriptomic and LC-MS/MS analyses., Insect Sci, PMID 32757245PXD016575 Dataset with its publication pending (from PRIDE) Dataset title: Autophagy mediates temporary reprogramming and dedifferentiation in plant somatic cells Possible reference: Rodriguez, E. et al. (2020) Autophagy mediates temporary reprogramming and dedifferentiation in plant somatic cells., EMBO J, PMID 31930531PXD016558 no publication (from MassIVE) Dataset title: EGFR inhibition triggers an adaptive response by co-opting antiviral signaling pathways in lung cancer Possible reference: Gong, K. et al. (2020) EGFR inhibition triggers an adaptive response by co-opting antiviral signaling pathways in lung cancer., Nat Cancer, PMID 33269343PXD016550 Dataset with its publication pending (from PRIDE) Dataset title: HHIP-AS1 lncRNA promotes tumorigenicity in human SHH-driven brain tumors Possible reference: Bartl, J. et al. (2022) The HHIP-AS1 lncRNA promotes tumorigenicity through stabilization of dynein complex 1 in human SHH-driven tumors., Nat Commun, PMID 35831316PXD016536 Dataset with its publication pending (from PRIDE) Dataset title: Comparative phosphoproteome analysis to identify candidate phosphoproteins involved in blue light-induced brown film formation in Lentinula edodes Possible reference: Song, T. et al. (2020) Comparative phosphoproteome analysis to identify candidate phosphoproteins involved in blue light-induced brown film formation in Lentinula edodes., PeerJ, PMID 33384895PXD016523 Dataset with its publication pending (from PRIDE) Dataset title: Precise temporal regulation of post-transcriptional repressors is required for an orderly Drosophila maternal-to-zygotic transition Possible reference: Cao, WX. et al. (2020) Precise Temporal Regulation of Post-transcriptional Repressors Is Required for an Orderly Drosophila Maternal-to-Zygotic Transition., Cell Rep, PMID 32579915PXD016487 Dataset with its publication pending (from PRIDE) Dataset title: ESCRT complexes in Giardia intestinalis (CHMP7) Possible reference: Pipaliya, SV. et al. (2021) Unexpected organellar locations of ESCRT machinery in Giardia intestinalis and complex evolutionary dynamics spanning the transition to parasitism in the lineage Fornicata., BMC Biol, PMID 34446013PXD016448 Dataset with its publication pending (from PRIDE) Dataset title: ESCRT complexes in Giardia intestinalis (VPS25) Possible reference: Pipaliya, SV. et al. (2021) Unexpected organellar locations of ESCRT machinery in Giardia intestinalis and complex evolutionary dynamics spanning the transition to parasitism in the lineage Fornicata., BMC Biol, PMID 34446013PXD016444 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Analysis Reveals Key Proteins Involved in Ethylene-Induced Adventitious Root Development in Cucumber (Cucumis sativus L.) Possible reference: Lyu, J. et al. (2021) Proteomic analysis reveals key proteins involved in ethylene-induced adventitious root development in cucumber (Cucumis sativus L.)., PeerJ, PMID 33868797PXD016442 Dataset with its publication pending (from PRIDE) Dataset title: ESCRT complexes in Giardia intestinalis (VPS20L) Possible reference: Dutta, S. et al. (2015) Significantly Diverged Did2/Vps46 Orthologues from the Protozoan Parasite Giardia lamblia., Curr Microbiol, PMID 26068593PXD016409 Dataset with its publication pending (from jPOST) Dataset title: An identification of kinases which phosphorylates Ebola virus VP30 protein Possible reference: Takamatsu, Y. et al. (2020) Serine-Arginine Protein Kinase 1 Regulates Ebola Virus Transcription., mBio, PMID 32098814PXD016394 Dataset with its publication pending (from PRIDE) Dataset title: The GTPase Rab39a matures phagosomes into MHC-I antigen-presenting compartments. Possible reference: Cruz, FM. et al. (2020) The GTPase Rab39a promotes phagosome maturation into MHC-I antigen-presenting compartments., EMBO J, PMID 31821587PXD016356 Dataset with its publication pending (from PRIDE) Dataset title: MuSC proteomic changes during aging Possible reference: Pehar, M. et al. (2016) Changes in Protein Expression and Lysine Acetylation Induced by Decreased Glutathione Levels in Astrocytes., Mol Cell Proteomics, PMID 26486419PXD016352 no publication (from MassIVE) Dataset title: Quantitative Proteomic Comparison of Myofibroblasts Derived from Bone Marrow and Cornea Possible reference: Saikia, P. et al. (2020) Quantitative proteomic comparison of myofibroblasts derived from bone marrow and cornea., Sci Rep, PMID 33028893PXD016304 Dataset with its publication pending (from PRIDE) Dataset title: Towards the molecular architecture of the peroxisomal receptor docking complex Possible reference: Lill, P. et al. (2020) Towards the molecular architecture of the peroxisomal receptor docking complex., Proc Natl Acad Sci U S A, PMID 33323485PXD016260 Dataset with its publication pending (from jPOST) Dataset title: Absolute quantification of proteasome subunits Possible reference: Sandberg, A. et al. (2012) Tumor proteomics by multivariate analysis on individual pathway data for characterization of vulvar cancer phenotypes., Mol Cell Proteomics, PMID 22499770PXD016225 Dataset with its publication pending (from PRIDE) Dataset title: Trichodesmium field metaproteomes Possible reference: Walworth, NG. et al. (2022) Why Environmental Biomarkers Work: Transcriptome-Proteome Correlations and Modeling of Multistressor Experiments in the Marine Bacterium Trichodesmium., J Proteome Res, PMID 34855411PXD016215 Dataset with its publication pending (from PRIDE) Dataset title: Profiling of a high mannose-type N-glycosylated lipase using hydrophilic interaction chromatography-mass spectrometry Possible reference: Gargano, AFG. et al. (2020) Profiling of a high mannose-type N-glycosylated lipase using hydrophilic interaction chromatography-mass spectrometry., Anal Chim Acta, PMID 32252907PXD016194 Dataset with its publication pending (from jPOST) Dataset title: Improved host cell protein analysis in monoclonal antibody products through molecular weight cutoff enrichment Possible reference: Chen, IH. et al. (2020) Improved Host Cell Protein Analysis in Monoclonal Antibody Products through Molecular Weight Cutoff Enrichment., Anal Chem, PMID 31999105PXD016122 Dataset with its publication pending (from PRIDE) Dataset title: Influenza virus infection leads to global proteome remodeling of Streptococcus pneumoniae Possible reference: Platt, MP. et al. (2022) A multiomics analysis of direct interkingdom dynamics between influenza A virus and Streptococcus pneumoniae uncovers host-independent changes to bacterial virulence fitness., PLoS Pathog, PMID 36542660PXD016114 D. Salvacha, A.Z. Werner, I. Pardo, M. Michalska, B.A. Black, B.S. Donohoe, S. Haugen, R. Katahira, S. Notonier, K.J. Ramirez, S.O. Purvine, E.M. Zink, Paul Abraham, R.J. Giannone, S. Poudel, P. Laible, R.L. Hettich, G.T. Beckham. Outer membrane vesicles (from MassIVE) Dataset title: Outer membrane vesicles catabolize lignin-derived aromatic compounds in Pseudomonas putida KT2440 Possible reference: Salvacha, D. et al. (2020) Outer membrane vesicles catabolize lignin-derived aromatic compounds in Pseudomonas putida KT2440., Proc Natl Acad Sci U S A, PMID 32245809PXD016101 no publication (from MassIVE) Dataset title: Mutant Tau Exosomes from Human iPSC Neurons Possible reference: Wren, MC. et al. (2015) Frontotemporal dementia-associated N279K tau mutant disrupts subcellular vesicle trafficking and induces cellular stress in iPSC-derived neural stem cells., Mol Neurodegener, PMID 26373282PXD016071 Dataset with its publication pending (from iProX) Dataset title: Analysis of the serum peptidome associated with Toxoplasma gondii infection Possible reference: Isenberg, J. et al. (2018) Peptidyl-prolyl cis-trans isomerase A - A novel biomarker of multi-episodic (recurrent) ocular toxoplasmosis., Exp Eye Res, PMID 30063883PXD016053 Dataset with its publication pending (from PRIDE) Dataset title: The M-phase regulatory phosphatase PP2A-B55δ opposes protein kinase A on Arpp19 to initiate meiotic division Possible reference: Lemonnier, T. et al. (2021) The M-phase regulatory phosphatase PP2A-B55δ opposes protein kinase A on Arpp19 to initiate meiotic division., Nat Commun, PMID 33758202PXD015996 Dataset with its publication pending (from PRIDE) Dataset title: Aberrant astrocyte protein secretion contributes to altered neuronal development in diverse disorders Possible reference: Caldwell, ALM. et al. (2022) Aberrant astrocyte protein secretion contributes to altered neuronal development in multiple models of neurodevelopmental disorders., Nat Neurosci, PMID 36042312PXD015973 no publication (from MassIVE) Dataset title: Development of an updated genome-scale metabolic model of Clostridium thermocellum and its application for integration of multi-omics datasets Possible reference: Garcia, S. et al. (2020) Development of a Genome-Scale Metabolic Model of Clostridium thermocellum and Its Applications for Integration of Multi-Omics Datasets and Computational Strain Design., Front Bioeng Biotechnol, PMID 32974289PXD015918 no publication (from MassIVE) Dataset title: Mapping the proximity interaction network of the RHO-family GTPases reveals signalling pathways and regulatory mechanisms Possible reference: Bagci, H. et al. (2020) Mapping the proximity interaction network of the Rho-family GTPases reveals signalling pathways and regulatory mechanisms., Nat Cell Biol, PMID 31871319PXD015913 no publication (from MassIVE) Dataset title: APOBEC3A is an Oral Cancer Prognostic Biomarker in Taiwanese Carriers of an APOBEC Deletion Polymorphism Possible reference: Chen, TW. et al. (2017) APOBEC3A is an oral cancer prognostic biomarker in Taiwanese carriers of an APOBEC deletion polymorphism., Nat Commun, PMID 28878238PXD015910 no publication (from MassIVE) Dataset title: Proteogenomics Connects Somatic Mutations to Signalling in Breast Cancer Possible reference: Mertins, P. et al. (2016) Proteogenomics connects somatic mutations to signalling in breast cancer., Nature, PMID 27251275PXD015909 no publication (from MassIVE) Dataset title: Integrated bottom-up and top-down proteomics of patient-derived breast tumor xenografts Possible reference: Ntai, I. et al. (2016) Integrated Bottom-Up and Top-Down Proteomics of Patient-Derived Breast Tumor Xenografts., Mol Cell Proteomics, PMID 26503891PXD015908 no publication (from MassIVE) Dataset title: Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer Possible reference: Zhang, H. et al. (2016) Integrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer., Cell, PMID 27372738PXD015901 no publication (from MassIVE) Dataset title: CPTAC, TCGA Cancer Proteome Study of Breast Tissue Possible reference: Rudnick, PA. et al. (2016) A Description of the Clinical Proteomic Tumor Analysis Consortium (CPTAC) Common Data Analysis Pipeline., J Proteome Res, PMID 26860878PXD015877 Dataset with its publication pending (from PRIDE) Dataset title: The length of a ubiquitin chain is a general determinant for selective recognition by ubiquitin-binding proteins. Possible reference: Lutz, J. et al. (2020) The Length of a Ubiquitin Chain: A General Factor for Selective Recognition by Ubiquitin-Binding Proteins., Angew Chem Int Ed Engl, PMID 32301549PXD015794 Dataset with its publication pending (from PRIDE) Dataset title: Identification of chloroplast envelope proteins with critical importance for cold acclimation Possible reference: Trentmann, O. et al. (2020) Identification of Chloroplast Envelope Proteins with Critical Importance for Cold Acclimation., Plant Physiol, PMID 31932409PXD015767 Dataset with its publication pending (from PRIDE) Dataset title: SMOC1 as a therapeutic target for type 2 diabetes Possible reference: Montgomery, MK. et al. (2020) SMOC1 is a glucose-responsive hepatokine and therapeutic target for glycemic control., Sci Transl Med, PMID 32878981PXD015727 Dataset with its publication pending (from PRIDE) Dataset title: Tissue-infiltrating macrophages mediate an exosome-based metabolic reprogramming upon DNA damage Possible reference: Goulielmaki, E. et al. (2020) Tissue-infiltrating macrophages mediate an exosome-based metabolic reprogramming upon DNA damage., Nat Commun, PMID 31896748PXD015690 Dataset with its publication pending (from PRIDE) Dataset title: Integrated quantitative analysis of the human brain proteome and phosphoproteome in Alzheimer's disease Possible reference: Zahid, S. et al. (2012) Phosphoproteome profiling of substantia nigra and cortex regions of Alzheimer's disease patients., J Neurochem, PMID 22436009PXD015657 Dataset with its publication pending (from PRIDE) Dataset title: Unraveling the MAX2 Protein Network in Arabidopsis thaliana: Identification of the Protein Phosphatase PAPP5 as a Novel MAX2 Interactor Possible reference: Struk, S. et al. (2021) Unraveling the MAX2 Protein Network in Arabidopsis thaliana: Identification of the Protein Phosphatase PAPP5 as a Novel MAX2 Interactor., Mol Cell Proteomics, PMID 33372050PXD015584 no publication (from MassIVE) Dataset title: Quantitative Analysis of Global Protein Stability Rates in Tissues Possible reference: McClatchy, DB. et al. (2020) Quantitative analysis of global protein stability rates in tissues., Sci Rep, PMID 32994440PXD015579 Dataset with its publication pending (from PRIDE) Dataset title: The cytosolic DNA sensor cGAS recognizes Neutrophil Extracellular Traps Possible reference: Apel, F. et al. (2021) The cytosolic DNA sensor cGAS recognizes neutrophil extracellular traps., Sci Signal, PMID 33688080PXD015525 Dataset with its publication pending (from PRIDE) Dataset title: HipBA toxin-antitoxin system Caulobacter crescentus. Possible reference: Huang, CY. et al. (2020) hipBA toxin-antitoxin systems mediate persistence in Caulobacter crescentus., Sci Rep, PMID 32071324PXD015506 Dataset with its publication pending (from PRIDE) Dataset title: In vitro expanded and activated polyclonal γδ memory T cells for treatment of cancer Possible reference: Polito, VA. et al. (2019) Universal Ready-to-Use Immunotherapeutic Approach for the Treatment of Cancer: Expanded and Activated Polyclonal γδ Memory T Cells., Front Immunol, PMID 31824502PXD015488 Dataset with its publication pending (from PRIDE) Dataset title: Gcn5 and Esa1 function as histone crotonyltransferases to regulate crotonylation-dependent transcription Possible reference: Kollenstart, L. et al. (2019) Gcn5 and Esa1 function as histone crotonyltransferases to regulate crotonylation-dependent transcription., J Biol Chem, PMID 31699900PXD015481 Dataset with its publication pending (from PRIDE) Dataset title: Human IP pull down analysis of KeapI interactomes Possible reference: Fujimoto, S. et al. (2012) Proteome analysis of protein partners to nucleosomes containing canonical H2A or the variant histones H2A.Z or H2A.X., Biol Chem, PMID 22628298PXD015471 Dataset with its publication pending (from PRIDE) Dataset title: The mRNA-binding proteome of proliferating and differentiated muscle cells Possible reference: Hiller, M. et al. (2020) The mRNA Binding Proteome of Proliferating and Differentiated Muscle Cells., Genomics Proteomics Bioinformatics, PMID 33338663PXD015469 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics Analysis of the Mechanism of AMP-17 against Candida albicans Possible reference: Yang, LB. et al. (2022) TMT-based quantitative proteomic analysis of the effects of novel antimicrobial peptide AMP-17 against Candida albicans., J Proteomics, PMID 34606990PXD015456 Dataset with its publication pending (from PRIDE) Dataset title: Stress signaling and cellular proliferation reverse the effects of mitochondrial mistranslation Possible reference: Ferreira, N. et al. (2019) Stress signaling and cellular proliferation reverse the effects of mitochondrial mistranslation., EMBO J, PMID 31721250PXD015453 Dataset with its publication pending (from PRIDE) Dataset title: CDK13 cooperates with CDK12 to control global RNA polymerase II processivity Possible reference: Fan, Z. et al. (2020) CDK13 cooperates with CDK12 to control global RNA polymerase II processivity., Sci Adv, PMID 32917631PXD015442 Dataset with its publication pending (from PRIDE) Dataset title: Rat plasma proteomics using single-shot proteomics Possible reference: Gaun, A. et al. (2021) Automated 16-Plex Plasma Proteomics with Real-Time Search and Ion Mobility Mass Spectrometry Enables Large-Scale Profiling in Naked Mole-Rats and Mice., J Proteome Res, PMID 33499602PXD015434 Dataset with its publication pending (from PRIDE) Dataset title: PROTEOMIC RESPONSE OF EARLY JUVENILE PACIFIC OYSTERS TO TEMPERATURE Possible reference: Crandall, G. et al. (2022) Proteomic response of early juvenile Pacific oysters (Crassostrea gigas) to temperature., PeerJ, PMID 36262416PXD015375 Dataset with its publication pending (from PRIDE) Dataset title: Extracellular vesicles from human plasma and serum are carriers of extravesicular cargo - implications for biomarker discovery Possible reference: Palviainen, M. et al. (2020) Extracellular vesicles from human plasma and serum are carriers of extravesicular cargo-Implications for biomarker discovery., PLoS One, PMID 32813744PXD015364 Dataset with its publication pending (from PRIDE) Dataset title: A label-free shotgun proteomics analysis of macadamia nut Possible reference: Rost, J. et al. (2020) A label-free shotgun proteomics analysis of macadamia nut., Food Res Int, PMID 32036921PXD015333 no publication (from MassIVE) Dataset title: The anti-MRSA compound KCR inhibits protein synthesis in Staphylococcus aureus Possible reference: Carruthers, NJ. et al. (2020) The anti-MRSA compound 3-O-alpha-L-(2″,3″-di-p-coumaroyl)rhamnoside (KCR) inhibits protein synthesis in Staphylococcus aureus., J Proteomics, PMID 31629958PXD015320 Dataset with its publication pending (from PRIDE) Dataset title: Proteostasis network alteration in lysosomal storage disorders: insights from the mouse model of Krabbe diseaseProteostasis network alteration in lysosomal storage disorders: insights from the mouse model of Krabbe diseaseProteostasis network alteration i Possible reference: Landi, C. et al. (2020) Proteostasis network alteration in lysosomal storage disorders: Insights from the mouse model of Krabbe disease., J Neurosci Res, PMID 31797419PXD015319 Dataset with its publication pending (from PRIDE) Dataset title: Peptide-based quorum sensing systems in Paenibacillus polymyxa Possible reference: Voichek, M. et al. (2020) Peptide-based quorum sensing systems in Paenibacillus polymyxa., Life Sci Alliance, PMID 32764104PXD015281 Dataset with its publication pending (from PRIDE) Dataset title: Phosphoproteomics across the yeast life cycle Possible reference: Martnez-Montas, F. et al. (2020) Phosphoproteomic Analysis across the Yeast Life Cycle Reveals Control of Fatty Acyl Chain Length by Phosphorylation of the Fatty Acid Synthase Complex., Cell Rep, PMID 32783946PXD015262 no publication (from MassIVE) Dataset title: ClpX, activated by SSB, is required for DNA replication in Mycobacterium tuberculosis Possible reference: Kester, JC. et al. (2021) ClpX Is Essential and Activated by Single-Strand DNA Binding Protein in Mycobacteria., J Bacteriol, PMID 33229461PXD015257 no publication (from MassIVE) Dataset title: A Triple Knockout (TKO) Proteomics Standard for Diagnosing Ion Interference in Isobaric Labeling Experiments Possible reference: Paulo, JA. et al. (2016) A Triple Knockout (TKO) Proteomics Standard for Diagnosing Ion Interference in Isobaric Labeling Experiments., J Am Soc Mass Spectrom, PMID 27400695PXD015207 Dataset with its publication pending (from PRIDE) Dataset title: Discovery of a Small Molecule Degrader that Sustains pan-AKT Degradation and Downstream Signaling Effects Possible reference: You, I. et al. (2020) Discovery of an AKT Degrader with Prolonged Inhibition of Downstream Signaling., Cell Chem Biol, PMID 31859249PXD015165 Dataset with its publication pending (from PRIDE) Dataset title: Next-generation diagnostic biomarkers for vivax malaria Possible reference: Jang, IK. et al. (2020) Multiplex Human Malaria Array: Quantifying Antigens for Malaria Rapid Diagnostics., Am J Trop Med Hyg, PMID 32189616PXD015113 Dataset with its publication pending (from PRIDE) Dataset title: Rescuing over-activated microglia by acetaminophen treatment restores cognitive performance in the Dp(16) mouse model of Down Syndrome. Possible reference: Pinto, B. et al. (2020) Rescuing Over-activated Microglia Restores Cognitive Performance in Juvenile Animals of the Dp(16) Mouse Model of Down Syndrome., Neuron, PMID 33027640PXD015100 Dataset with its publication pending (from PRIDE) Dataset title: The kinetoplastid outer kinetochore Possible reference: D'Archivio, S. et al. (2017) Trypanosome outer kinetochore proteins suggest conservation of chromosome segregation machinery across eukaryotes., J Cell Biol, PMID 28034897PXD015037 Dataset with its publication pending (from PRIDE) Dataset title: Development of Photocrosslinking Probes Based on Huwentoxin-IV to Map the Site of Interaction on Nav1.7 Possible reference: Tzakoniati, F. et al. (2020) Development of Photocrosslinking Probes Based on Huwentoxin-IV to Map the Site of Interaction on Nav1.7., Cell Chem Biol, PMID 31732432PXD015016 no publication (from MassIVE) Dataset title: Dynamic incorporation of histone H3 variants into chromatin is essential for acquisition of aggressive traits and metastatic colonization Possible reference: Gomes, AP. et al. (2019) Dynamic Incorporation of Histone H3 Variants into Chromatin Is Essential for Acquisition of Aggressive Traits and Metastatic Colonization., Cancer Cell, PMID 31564638PXD015015 Dataset with its publication pending (from PRIDE) Dataset title: Down-regulation of collagen hydroxylation in colorectal liver metastasis Possible reference: van Huizen, NA. et al. (2020) Down-Regulation of Collagen Hydroxylation in Colorectal Liver Metastasis., Front Oncol, PMID 33117689PXD014995 Dataset with its publication pending (from PRIDE) Dataset title: The Function of Ectopic ATP Synthase in Extracellular Vesicles. Possible reference: Dong, Z. et al. (2022) Exosomal miR-181a-2-3p derived from citreoviridin-treated hepatocytes activates hepatic stellate cells trough inducing mitochondrial calcium overload., Chem Biol Interact, PMID 35305974PXD014988 Dataset with its publication pending (from PRIDE) Dataset title: Long non-coding RNA HOTTIP promotes CCL3 expression and induces cartilage degradation by sponging miR-455-3p Possible reference: Mao, G. et al. (2019) Long Non-coding RNA HOTTIP Promotes CCL3 Expression and Induces Cartilage Degradation by Sponging miR-455-3p., Front Cell Dev Biol, PMID 31508417PXD014983 Dataset with its publication pending (from iProX) Dataset title: A technology to capture DNA binding proteins based on biolistic transformation Possible reference: Wang, Z. et al. (2023) A DNA-binding protein capture technology that purifies proteins by directly isolating the target DNA., Plant Sci, PMID 37467789PXD014966 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative and dynamic catalogs of proteins released during apoptotic and necroptotic cell death Possible reference: Tanzer, MC. et al. (2020) Quantitative and Dynamic Catalogs of Proteins Released during Apoptotic and Necroptotic Cell Death., Cell Rep, PMID 31995763PXD014965 no publication (from MassIVE) Dataset title: Proteomic and metabolomic analyses of Mahonia bealei under UV-B and dark treatments Possible reference: Zhu, W. et al. (2021) Combined ultraviolet and darkness regulation of medicinal metabolites in Mahonia bealei revealed by proteomics and metabolomics., J Proteomics, PMID 33352312PXD014964 no publication (from MassIVE) Dataset title: Proteomic profiling of Mycobacterium tuberculosis culture filtrate identifies novel O-glycosylated proteins Possible reference: Tucci, P. et al. (2020) Integrative proteomic and glycoproteomic profiling of Mycobacterium tuberculosis culture filtrate., PLoS One, PMID 32126063PXD014963 no publication (from MassIVE) Dataset title: The Mitochondrial Protease, Neurolysin, Regulates Respiratory Chain Supercomplex Formation and is Necessary for AML Viability Possible reference: Mirali, S. et al. (2020) The mitochondrial peptidase, neurolysin, regulates respiratory chain supercomplex formation and is necessary for AML viability., Sci Transl Med, PMID 32269163PXD014958 Dataset with its publication pending (from PRIDE) Dataset title: Slow growing behavior in African trypanosomes during adipose tissue colonization Possible reference: Trindade, S. et al. (2022) Slow growing behavior in African trypanosomes during adipose tissue colonization., Nat Commun, PMID 36481558PXD014905 Dataset with its publication pending (from jPOST) Dataset title: NC Table S3 Possible reference: Wingrove, JA. et al. (2018) Peripheral blood gene expression signatures which reflect smoking and aspirin exposure are associated with cardiovascular events., BMC Med Genomics, PMID 29329538PXD014904 Dataset with its publication pending (from jPOST) Dataset title: NC Table S4 Possible reference: Radusky, LG. et al. (2015) An integrated structural proteomics approach along the druggable genome of Corynebacterium pseudotuberculosis species for putative druggable targets., BMC Genomics, PMID 26041381PXD014886 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial reprogramming using dCas9 boosts glia-to-neuron conversion Possible reference: Russo, GL. et al. (2021) CRISPR-Mediated Induction of Neuron-Enriched Mitochondrial Proteins Boosts Direct Glia-to-Neuron Conversion., Cell Stem Cell, PMID 33202244PXD014823 Dataset with its publication pending (from PRIDE) Dataset title: Global proteomic profiling of meningioma cohort Possible reference: Papaioannou, MD. et al. (2019) Proteomic analysis of meningiomas reveals clinically distinct molecular patterns., Neuro Oncol, PMID 31077268PXD014817 Dataset with its publication pending (from iProX) Dataset title: TRIB3 Supports Breast Cancer Stemness by Suppressing FOXO1 Degradation and Enhancing SOX2 Transcription Possible reference: Yu, JM. et al. (2019) TRIB3 supports breast cancer stemness by suppressing FOXO1 degradation and enhancing SOX2 transcription., Nat Commun, PMID 31844113PXD014805 no publication (from MassIVE) Dataset title: Extended snake venomics on the newly discovered subspecies Vipera anatolica senliki Possible reference: Hempel, BF. et al. (2020) Extended Snake Venomics by Top-Down In-Source Decay: Investigating the Newly Discovered Anatolian Meadow Viper Subspecies, Vipera anatolica senliki., J Proteome Res, PMID 32073270PXD014798 Dataset with its publication pending (from PRIDE) Dataset title: Epigenetic reprogramming shapes the cellular landscape of schwannoma Possible reference: Liu, SJ. et al. (2024) Epigenetic reprogramming shapes the cellular landscape of schwannoma., Nat Commun, PMID 38216587PXD014791 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic cellular signatures of kinase inhibitor-induced cardiotoxicity Possible reference: Xiong, Y. et al. (2022) Proteomic cellular signatures of kinase inhibitor-induced cardiotoxicity., Sci Data, PMID 35058449PXD014787 Dataset with its publication pending (from PRIDE) Dataset title: Gene regulatory networks of kiwifruit response to Pseudomonas syringae pv. actinidiae Possible reference: Wang, Z. et al. (2017) Whole transcriptome sequencing of Pseudomonas syringae pv. actinidiae-infected kiwifruit plants reveals species-specific interaction between long non-coding RNA and coding genes., Sci Rep, PMID 28687784PXD014764 Dataset with its publication pending (from PRIDE) Dataset title: eIF4A2 drives repression of translation at initiation by Ccr4-Not through purine-rich motifs in the 5’UTR. Possible reference: Wilczynska, A. et al. (2019) eIF4A2 drives repression of translation at initiation by Ccr4-Not through purine-rich motifs in the 5'UTR., Genome Biol, PMID 31791371PXD014724 no publication (from MassIVE) Dataset title: Molecular and immunological interrogation of a live-attenuated enterotoxigenic Escherichia coli vaccine highlights features unique to wild type infection Possible reference: Chakraborty, S. et al. (2019) Interrogation of a live-attenuated enterotoxigenic Escherichia coli vaccine highlights features unique to wild-type infection., NPJ Vaccines, PMID 31482013PXD014713 Dataset with its publication pending (from PRIDE) Dataset title: Chemical labeling for fine mapping of IgG N-glycosylation by ETD-MS Possible reference: Yang, L. et al. (2019) Chemical labeling for fine mapping of IgG N-glycosylation by ETD-MS., Chem Sci, PMID 32110292PXD014694 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of extracellular vesicles derived from platelet concentrates treated with Mirasol identifies biomarkers of platelet storage lesion Possible reference: Hermida-Nogueira, L. et al. (2020) Proteomic analysis of extracellular vesicles derived from platelet concentrates treated with Mirasol identifies biomarkers of platelet storage lesion., J Proteomics, PMID 31605789PXD014666 Dataset with its publication pending (from PRIDE) Dataset title: Decoding the genomic basis of osteoarthritis Possible reference: Rahmioglu, N. et al. (2023) The genetic basis of endometriosis and comorbidity with other pain and inflammatory conditions., Nat Genet, PMID 36914876PXD014652 Dataset with its publication pending (from PRIDE) Dataset title: Multifunctional temozolomide-loaded lipid superparamagnetic nanovectors: dual targeting and disintegration of glioblastoma spheroids by synergic chemotherapy and hyperthermia treatment Possible reference: Marino, A. et al. (2019) Multifunctional temozolomide-loaded lipid superparamagnetic nanovectors: dual targeting and disintegration of glioblastoma spheroids by synergic chemotherapy and hyperthermia treatment., Nanoscale, PMID 31663592PXD014630 Dataset with its publication pending (from PRIDE) Dataset title: Microbial remineralization of particulate organic carbon in the ocean’s twilight zone Possible reference: Kong, LF. et al. (2021) Metaproteomics Reveals Similar Vertical Distribution of Microbial Transport Proteins in Particulate Organic Matter Throughout the Water Column in the Northwest Pacific Ocean., Front Microbiol, PMID 33841356PXD014525 Dataset with its publication pending (from PRIDE) Dataset title: Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition (DIA) without the need for spectral libraries Possible reference: Bekker-Jensen, DB. et al. (2020) Rapid and site-specific deep phosphoproteome profiling by data-independent acquisition without the need for spectral libraries., Nat Commun, PMID 32034161PXD014476 no publication (from MassIVE) Dataset title: A reference map of the human proinsulin biosynthetic interaction network Possible reference: Tran, DT. et al. (2020) Unbiased Profiling of the Human Proinsulin Biosynthetic Interaction Network Reveals a Role for Peroxiredoxin 4 in Proinsulin Folding., Diabetes, PMID 32457219PXD014463 no publication (from MassIVE) Dataset title: Defining how Pak1 regulates cell polarity and cell division in fission yeast Possible reference: Magliozzi, JO. et al. (2020) Fission yeast Pak1 phosphorylates anillin-like Mid1 for spatial control of cytokinesis., J Cell Biol, PMID 32421151PXD014425 Dataset with its publication pending (from PRIDE) Dataset title: Silver and platinum nanoparticles synergy Possible reference: Ranpariya, B. et al. (2020) Antimicrobial Synergy of Silver-Platinum Nanohybrids With Antibiotics., Front Microbiol, PMID 33597929PXD014368 Dataset with its publication pending (from PRIDE) Dataset title: Discovery of TBC1D7 as a potential driver for melanoma cell invasion. Possible reference: Qi, TF. et al. (2020) Discovery of TBC1D7 as a Potential Driver for Melanoma Cell Invasion., Proteomics, PMID 32510182PXD014323 Dataset with its publication pending (from PRIDE) Dataset title: Host cholesterol modulates the generation and enrichment of persister population during Mycobacterium tuberculosis infection. Possible reference: Talwar, S. et al. (2020) Role of VapBC12 Toxin-Antitoxin Locus in Cholesterol-Induced Mycobacterial Persistence., mSystems, PMID 33323416PXD014315 Dataset with its publication pending (from PRIDE) Dataset title: Active thrombin is produced by intestinal epithelium to control mucosal biofilm Possible reference: Motta, JP. et al. (2019) Active thrombin produced by the intestinal epithelium controls mucosal biofilms., Nat Commun, PMID 31324782PXD014280 no publication (from MassIVE) Dataset title: Profiling the surfaceome identifies therapeutic targets for cells with hyperactive mTORC1 signaling Possible reference: Wei, J. et al. (2020) Profiling the Surfaceome Identifies Therapeutic Targets for Cells with Hyperactive mTORC1 Signaling., Mol Cell Proteomics, PMID 31792071PXD014210 no publication (from MassIVE) Dataset title: Proteomic analysis reveals that topoisomerase 2A is associated with defective sperm head morphology Possible reference: Netherton, J. et al. (2020) Proteomic Analysis Reveals that Topoisomerase 2A is Associated with Defective Sperm Head Morphology., Mol Cell Proteomics, PMID 31848259PXD014209 Dataset with its publication pending (from iProX) Dataset title: Brown Algae Extracts inhibit lung cancer cell invasion and migration Possible reference: Wang, CH. et al. (2019) Dieckol inhibits non-small-cell lung cancer cell proliferation and migration by regulating the PI3K/AKT signaling pathway., J Biochem Mol Toxicol, PMID 31291034PXD014206 Dataset with its publication pending (from jPOST) Dataset title: In-gel digestion protocol to analyze proteome of Medaka after acute ionizing radiation exposure Possible reference: Prez-Glvez, Y. et al. (2019) An Effective Protocol for Proteome Analysis of Medaka (Oryzias latipes) after Acute Exposure to Ionizing Radiation., Methods Protoc, PMID 31366181PXD014155 Dataset with its publication pending (from PRIDE) Dataset title: Evaluation of in-house stabilized trypsin Possible reference: Gonzlez-Lpez, NM. et al. (2023) In-house standards derived from doping peptides: Enzymatic and serum stability and degradation profile of GHRP and GHRH-related peptides., Biomed Chromatogr, PMID 37688464PXD014055 Dataset with its publication pending (from PRIDE) Dataset title: Improving identification of in-organello protein-protein interactions using an affinity-enrichable, isotopically-coded, and mass spectrometry-cleavable chemical crosslinker Possible reference: Makepeace, KAT. et al. (2020) Improving Identification of In-organello Protein-Protein Interactions Using an Affinity-enrichable, Isotopically Coded, and Mass Spectrometry-cleavable Chemical Crosslinker., Mol Cell Proteomics, PMID 32051233PXD014034 Dataset with its publication pending (from PRIDE) Dataset title: mTOR-regulated phosphorylation of electrogenic sodium bicarbonate cotransporter 1, NBCe1, at S255-257 regulates NBCe1 functional expression in mouse cortical astrocyte Possible reference: Khakipoor, S. et al. (2019) Functional expression of electrogenic sodium bicarbonate cotransporter 1 (NBCe1) in mouse cortical astrocytes is dependent on S255-257 and regulated by mTOR., Glia, PMID 31318482PXD014033 Dataset with its publication pending (from PRIDE) Dataset title: Protein-tyrosine kinase 2-beta activates Interferon Regulatory Factor 5 to control inflammation Possible reference: Ryzhakov, G. et al. (2021) Defactinib inhibits PYK2 phosphorylation of IRF5 and reduces intestinal inflammation., Nat Commun, PMID 34795257PXD014018 no publication (from MassIVE) Dataset title: Quantitative proteomic analyses of Chlorella vulgaris NJ-7 and UTEX259 Possible reference: Wang, Y. et al. (2020) Early Stage Adaptation of a Mesophilic Green Alga to Antarctica: Systematic Increases in Abundance of Enzymes and LEA Proteins., Mol Biol Evol, PMID 31794607PXD013979 Dataset with its publication pending (from PRIDE) Dataset title: Rapid and culture free identification of Francisella in hare carcasses by high-resolution mass spectrometry Possible reference: Witt, N. et al. (2020) Rapid and Culture Free Identification of Francisella in Hare Carcasses by High-Resolution Tandem Mass Spectrometry Proteotyping., Front Microbiol, PMID 32457701PXD013961 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of L-carnitine-grown Eubacterium limosum ATCC 8486 Possible reference: Picking, JW. et al. (2019) MtpB, a member of the MttB superfamily from the human intestinal acetogen Eubacterium limosum, catalyzes proline betaine demethylation., J Biol Chem, PMID 31341018PXD013922 Dataset with its publication pending (from PRIDE) Dataset title: Proteogenomic Network Analysis of Context-Specific KRAS Signaling In Mouse-to-Human Cross-Species Translation Possible reference: Brubaker, DK. et al. (2019) Proteogenomic Network Analysis of Context-Specific KRAS Signaling in Mouse-to-Human Cross-Species Translation., Cell Syst, PMID 31521603PXD013917 no publication (from MassIVE) Dataset title: GBS Choroid Plexus Infection Proteomics Possible reference: Campeau, A. et al. (2020) Multidimensional Proteome Profiling of Blood-Brain Barrier Perturbation by Group B Streptococcus., mSystems, PMID 32843537PXD013907 Dataset with its publication pending (from PRIDE) Dataset title: The dynamic configuration and phosphorylation of the C-terminal HEAT domain of huntingtin modulates its function Possible reference: Jung, T. et al. (2020) The Polyglutamine Expansion at the N-Terminal of Huntingtin Protein Modulates the Dynamic Configuration and Phosphorylation of the C-Terminal HEAT Domain., Structure, PMID 32668197PXD013905 Dataset with its publication pending (from jPOST) Dataset title: The Correlation among Serum Proteomics and Clinical Profiles in Fibromyalgia Women Possible reference: Han, CL. et al. (2020) Serum proteome profiles revealed dysregulated proteins and mechanisms associated with fibromyalgia syndrome in women., Sci Rep, PMID 32704114PXD013894 Dataset with its publication pending (from PRIDE) Dataset title: The ER protein translocation channel subunit Sbh1 controls virulence of Cryptococcus neoformans Possible reference: Santiago-Tirado, FH. et al. (2023) The ER Protein Translocation Channel Subunit Sbh1 Controls Virulence of Cryptococcus neoformans., mBio, PMID 36749043PXD013886 no publication (from MassIVE) Dataset title: A dynamic charge:charge interaction modulates PP2A:B56 interactions Possible reference: Wang, X. et al. (2020) A dynamic charge-charge interaction modulates PP2A:B56 substrate recruitment., Elife, PMID 32195664PXD013858 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis of Volvariella volvacea after cold treatment Possible reference: Gong, M. et al. (2020) Chilling stress reduced protein translation by the ubiquitination of ribosomal proteins in Volvariella volvacea., J Proteomics, PMID 31982547PXD013852 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative comparative analysis of human erythrocyte surface proteins between individuals from two genetically distinct populations Possible reference: Ravenhill, BJ. et al. (2019) Quantitative comparative analysis of human erythrocyte surface proteins between individuals from two genetically distinct populations., Commun Biol, PMID 31552303PXD013806 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of lactate grown Eubacterium limosum ATCC 8486 Possible reference: Picking, JW. et al. (2019) MtpB, a member of the MttB superfamily from the human intestinal acetogen Eubacterium limosum, catalyzes proline betaine demethylation., J Biol Chem, PMID 31341018PXD013800 Dataset with its publication pending (from PRIDE) Dataset title: LARGE2 mediates O-glycosylation in HT-29 colorectal cancer cells Possible reference: Dietinger, V. et al. (2020) Wnt-driven LARGE2 mediates laminin-adhesive O-glycosylation in human colonic epithelial cells and colorectal cancer., Cell Commun Signal, PMID 32586342PXD013791 Dataset with its publication pending (from PRIDE) Dataset title: Adaptation of Dinoroseobacter shibae to different kinds of oxidative stress Possible reference: Beier, N. et al. (2021) Adaptation of Dinoroseobacter shibae to oxidative stress and the specific role of RirA., PLoS One, PMID 33780465PXD013727 Dataset with its publication pending (from PRIDE) Dataset title: Identifying the cellular interactome of Epstein-Barr virus lytic regulator Zta reveals cellular targets contributing to viral replication. Possible reference: Zhou, Y. et al. (2020) Identifying the Cellular Interactome of Epstein-Barr Virus Lytic Regulator Zta Reveals Cellular Targets Contributing to Viral Replication., J Virol, PMID 31694936PXD013699 no publication (from MassIVE) Dataset title: iTRAQ-based proteomics for Streptococcus thermophilus ASCC 1275 Possible reference: Wu, Q. et al. (2019) Functional Genomic Analyses of Exopolysaccharide-Producing Streptococcus thermophilus ASCC 1275 in Response to Milk Fermentation Conditions., Front Microbiol, PMID 31507577PXD013697 no publication (from MassIVE) Dataset title: Oxygen-dependent interaction between FBXL5 and CIA targeting complex regulates iron homeostasis Possible reference: Mayank, AK. et al. (2019) An Oxygen-Dependent Interaction between FBXL5 and the CIA-Targeting Complex Regulates Iron Homeostasis., Mol Cell, PMID 31229404PXD013689 Dataset with its publication pending (from PRIDE) Dataset title: Brain adiponectin signaling controls peripheral insulin response in Drosophila Possible reference: Arquier, N. et al. (2021) Brain adiponectin signaling controls peripheral insulin response in Drosophila., Nat Commun, PMID 34561451PXD013645 Dataset with its publication pending (from PRIDE) Dataset title: The O-GlcNAc transferase interaction network regulates the stress response Possible reference: Martinez, M. et al. (2021) Quantitative Proteomics Reveals that the OGT Interactome Is Remodeled in Response to Oxidative Stress., Mol Cell Proteomics, PMID 33716169PXD013602 Dataset with its publication pending (from PRIDE) Dataset title: Prochlorococcus extracellular vesicles: molecular composition and adsorption to diverse microbes Possible reference: Biller, SJ. et al. (2022) Prochlorococcus extracellular vesicles: molecular composition and adsorption to diverse microbes., Environ Microbiol, PMID 34766712PXD013540 Dataset with its publication pending (from jPOST) Dataset title: Anti-Influenza Activity of the Ribonuclease Binase in A549 cells Possible reference: Ulyanova, V. et al. (2020) Anti-Influenza Activity of the Ribonuclease Binase: Cellular Targets Detected by Quantitative Proteomics., Int J Mol Sci, PMID 33167434PXD013527 no publication (from MassIVE) Dataset title: Wigington_calcineurinphosphatasesignaling_2019 Possible reference: Wigington, CJ. et al. (2019) Tracking Public Health Workforce Retention: Observations From CDC's Public Health Associate Program., Am J Public Health, PMID 31318602PXD013460 Dataset with its publication pending (from PRIDE) Dataset title: Sex and age specific adaptations of the hippocampal proteome to early-life stress Possible reference: Eagleson, KL. et al. (2020) Proteomic and mitochondrial adaptations to early-life stress are distinct in juveniles and adults., Neurobiol Stress, PMID 33344706PXD013453 Dataset with its publication pending (from PRIDE) Dataset title: R2-P2 rapid-robotic phosphoproteomics enables multidimensional cell signaling studies Possible reference: Leutert, M. et al. (2019) R2-P2 rapid-robotic phosphoproteomics enables multidimensional cell signaling studies., Mol Syst Biol, PMID 31885202PXD013410 Dataset with its publication pending (from jPOST) Dataset title: Age-associated mouse brown adipose tissue mitochondrial proteome Possible reference: Tajima, K. et al. (2019) Mitochondrial lipoylation integrates age-associated decline in brown fat thermogenesis., Nat Metab, PMID 32313871PXD013316 Dataset with its publication pending (from PRIDE) Dataset title: Cyclin-dependent-like kinase 5 is required for pain signalling in both human neurons and mouse models Possible reference: La Montanara, P. et al. (2020) Cyclin-dependent-like kinase 5 is required for pain signaling in human sensory neurons and mouse models., Sci Transl Med, PMID 32641489PXD013307 Dataset with its publication pending (from PRIDE) Dataset title: Metabolic remodeling during biofilm development of Bacillus subtilis Possible reference: Boersma, MJ. et al. (2015) Minimal Peptidoglycan (PG) Turnover in Wild-Type and PG Hydrolase and Cell Division Mutants of Streptococcus pneumoniae D39 Growing Planktonically and in Host-Relevant Biofilms., J Bacteriol, PMID 26303829PXD013272 no publication (from MassIVE) Dataset title: Paenibacillus larvae exoproteins of ERIC I-IV genotypes Possible reference: Erban, T. et al. (2019) Comprehensive proteomic analysis of exoproteins expressed by ERIC I, II, III and IV Paenibacillus larvae genotypes reveals a wide range of virulence factors., Virulence, PMID 30957692PXD013266 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of differentially expressed proteins in two Trypanosoma vivax strains with different patterns of virulence and pathogenicity in sheep. Possible reference: Ramirez-Barrios, R. et al. (2019) Trypanosoma vivax infection in sheep: Different patterns of virulence and pathogenicity associated with differentially expressed proteomes., Vet Parasitol, PMID 34311938PXD013215 Dataset with its publication pending (from PRIDE) Dataset title: APEX2-mediated proximity labeling of mitochondrial matrix and chromatin in budding yeast Possible reference: Singer-Krger, B. et al. (2020) APEX2-mediated proximity labeling resolves protein networks in Saccharomycescerevisiae cells., FEBS J, PMID 31323700PXD013199 no publication (from MassIVE) Dataset title: Analysis of brain and cerebrospinal fluid from mouse models of the three major forms of neuronal ceroid lipofuscinosis reveals changes in the lysosomal proteome. Possible reference: Sleat, DE. et al. (2019) Analysis of Brain and Cerebrospinal Fluid from Mouse Models of the Three Major Forms of Neuronal Ceroid Lipofuscinosis Reveals Changes in the Lysosomal Proteome., Mol Cell Proteomics, PMID 31501224PXD013185 Dataset with its publication pending (from jPOST) Dataset title: Species-specific quantitative proteomics profiles of sarcoma patient-derived models closely reflect their primary tumors Possible reference: Shiozawa, K. et al. (2019) Species-Specific Quantitative Proteomics Profiles of Sarcoma Patient-Derived Models Closely Reflect Their Primary Tumors., Proteomics Clin Appl, PMID 31419061PXD013131 Dataset with its publication pending (from PRIDE) Dataset title: Exploring the virulence gene interactome with CRISPR/dCas9 in the human malaria parasite Possible reference: Bryant, JM. et al. (2020) Exploring the virulence gene interactome with CRISPR/dCas9 in the human malaria parasite., Mol Syst Biol, PMID 32816370PXD013100 no publication (from MassIVE) Dataset title: Pancreatic beta cell proteome with increased proliferation in NOD mice Possible reference: Szabat, M. et al. (2016) Reduced Insulin Production Relieves Endoplasmic Reticulum Stress and Induces β Cell Proliferation., Cell Metab, PMID 26626461PXD013046 Dataset with its publication pending (from jPOST) Dataset title: Global role of the membrane protease LonB in Archaea: Potential protease targets revealed by quantitative proteome analysis of a lonB mutant in Haloferax volcanii Possible reference: Cerletti, M. et al. (2015) Global role of the membrane protease LonB in Archaea: Potential protease targets revealed by quantitative proteome analysis of a lonB mutant in Haloferax volcanii., J Proteomics, PMID 25829260PXD013043 no publication (from MassIVE) Dataset title: Proteomic analysis of synovial fluid identifies periostin as a biomarker for anterior cruciate ligament injury Possible reference: Brophy, RH. et al. (2019) Proteomic analysis of synovial fluid identifies periostin as a biomarker for anterior cruciate ligament injury., Osteoarthritis Cartilage, PMID 31430535PXD012925 Dataset with its publication pending (from PRIDE) Dataset title: DPPA2/4 and SUMO E3 ligase PIAS4 opposingly regulate the emergence of 2C-like cells and zygotic transcriptional program Possible reference: Yan, YL. et al. (2019) DPPA2/4 and SUMO E3 ligase PIAS4 opposingly regulate zygotic transcriptional program., PLoS Biol, PMID 31226106PXD012919 no publication (from MassIVE) Dataset title: Analysis of mitochondrial N termini by HUNTER (High-efficiency Undecanal-based N Termini EnRichment) Possible reference: Weng, SSH. et al. (2019) Sensitive Determination of Proteolytic Proteoforms in Limited Microscale Proteome Samples., Mol Cell Proteomics, PMID 31471496PXD012798 Dataset with its publication pending (from PRIDE) Dataset title: Variability in exosomal protein cargo of human lung adenocarcinoma cells Possible reference: Tiruvayipati, S. et al. (2020) Variability in protein cargo detection in technical and biological replicates of exosome-enriched extracellular vesicles., PLoS One, PMID 32119684PXD012759 Dataset with its publication pending (from PRIDE) Dataset title: Crosslinking Proteomics Indicates Effects of Simvastatin on the TLR2 interactome and Reveals ACTR1A as a Novel Regulator of the TLR2 Signal Cascade Possible reference: Kamal, AHM. et al. (2019) Cross-linking Proteomics Indicates Effects of Simvastatin on the TLR2 Interactome and Reveals ACTR1A as a Novel Regulator of the TLR2 Signal Cascade., Mol Cell Proteomics, PMID 31221720PXD012718 no publication (from MassIVE) Dataset title: RIT1 oncoproteins escape LZTR1-mediated proteolysis Possible reference: Castel, P. et al. (2019) RIT1 oncoproteins escape LZTR1-mediated proteolysis., Science, PMID 30872527PXD012696 no publication (from MassIVE) Dataset title: Sirtuin 5 regulates proximal tubule fatty acid oxidation to protect against acute kidney injury Possible reference: Chiba, T. et al. (2019) Sirtuin 5 Regulates Proximal Tubule Fatty Acid Oxidation to Protect against AKI., J Am Soc Nephrol, PMID 31575700PXD012601 Dataset with its publication pending (from jPOST) Dataset title: A Label Free Mass Spectrometry Method to Predict Endogenous Protein Complex Composition Possible reference: McBride, Z. et al. (2019) A Label-free Mass Spectrometry Method to Predict Endogenous Protein Complex Composition., Mol Cell Proteomics, PMID 31186290PXD012576 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of different types of immunity in potato Possible reference: Burra, DD. et al. (2018) Comparative Membrane-Associated Proteomics of Three Different Immune Reactions in Potato., Int J Mol Sci, PMID 29439444PXD012542 no publication (from MassIVE) Dataset title: Proteome profiling of triple negative breast cancer cells overexpressing NOD1 and NOD2 receptors unveils molecular signatures of malignant cell proliferation Possible reference: Velloso, FJ. et al. (2019) Proteome profiling of triple negative breast cancer cells overexpressing NOD1 and NOD2 receptors unveils molecular signatures of malignant cell proliferation., BMC Genomics, PMID 30791886PXD012540 Dataset with its publication pending (from jPOST) Dataset title: HDAC2 regulates site-specific acetylation of MDM2 and its ubiquitination signaling in tumor suppression Possible reference: Patel, N. et al. (2019) HDAC2 Regulates Site-Specific Acetylation of MDM2 and Its Ubiquitination Signaling in Tumor Suppression., iScience, PMID 30818224PXD012496 no publication (from MassIVE) Dataset title: The N-cadherin interactome in primary cardiomyocytes as defined by quantitative proximity proteomics Possible reference: Li, Y. et al. (2019) The N-cadherin interactome in primary cardiomyocytes as defined using quantitative proximity proteomics., J Cell Sci, PMID 30630894PXD012479 Dataset with its publication pending (from PRIDE) Dataset title: microbiome of methane hydrate sediments: Hydrate Ridge Possible reference: Glass, JB. et al. (2014) Geochemical, metagenomic and metaproteomic insights into trace metal utilization by methane-oxidizing microbial consortia in sulphidic marine sediments., Environ Microbiol, PMID 24148160PXD012336 Dataset with its publication pending (from PRIDE) Dataset title: Bermudagrass stolon and shoot comparative proteomics Possible reference: Zhang, B. et al. (2019) Comparative proteomic analysis provides new insights into the specialization of shoots and stolons in bermudagrass (Cynodon dactylon L.)., BMC Genomics, PMID 31510936PXD012205 no publication (from MassIVE) Dataset title: Quantitative Proteomics by SWATH-MS of Maternal Plasma Exosome Determine Pathways Associated with Term and Preterm Birth Possible reference: Menon, R. et al. (2019) Quantitative Proteomics by SWATH-MS of Maternal Plasma Exosomes Determine Pathways Associated With Term and Preterm Birth., Endocrinology, PMID 30668697PXD012198 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of glomerular organoid extracellular matrix Possible reference: Morais, MRPT. et al. (2022) Kidney organoids recapitulate human basement membrane assembly in health and disease., Elife, PMID 35076391PXD012177 Dataset with its publication pending (from PRIDE) Dataset title: Cassiopea xamachana: Cassiosomes Possible reference: Ames, CL. et al. (2020) Cassiosomes are stinging-cell structures in the mucus of the upside-down jellyfish Cassiopea xamachana., Commun Biol, PMID 32054971PXD012157 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic proximity mapping by rapamycin-dependent targeting of APEX2 to tail-anchored membrane proteins Possible reference: James, C. et al. (2019) Proteomic mapping by rapamycin-dependent targeting of APEX2 identifies binding partners of VAPB at the inner nuclear membrane., J Biol Chem, PMID 31519755PXD012129 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Profiling of Mammalian COPI Vesicles Possible reference: Haines, DS. et al. (2012) Protein interaction profiling of the p97 adaptor UBXD1 points to a role for the complex in modulating ERGIC-53 trafficking., Mol Cell Proteomics, PMID 22337587PXD012103 Dataset with its publication pending (from PRIDE) Dataset title: Toxoplasma HCE1 Immunoprecipitations Possible reference: Panas, MW. et al. (2019) Toxoplasma Controls Host Cyclin E Expression through the Use of a Novel MYR1-Dependent Effector Protein, HCE1., mBio, PMID 31040242PXD012062 Dataset with its publication pending (from PRIDE) Dataset title: Metaproteomics of plastic biofilms in marine environments Possible reference: Oberbeckmann, S. et al. (2021) Genomic and proteomic profiles of biofilms on microplastics are decoupled from artificial surface properties., Environ Microbiol, PMID 33876529PXD012041 Dataset with its publication pending (from PRIDE) Dataset title: Response of the Biomining Acidithiobacillus ferrooxidans to high Cadmium Concentrations Possible reference: Zheng, C. et al. (2012) Transcriptional and functional studies of a Cd(II)/Pb(II)-responsive transcriptional regulator(CmtR) from Acidithiobacillus ferrooxidans ATCC 23270., Curr Microbiol, PMID 22555344PXD012001 Dataset with its publication pending (from PRIDE) Dataset title: Systems level analysis of epithelial to mesenchymal transition reveals more alteration in phosphoproteome than proteome and identifies DNAJB4 and CD81 as EMT regulators Possible reference: Uretmen Kagiali, ZC. et al. (2019) Systems-level Analysis Reveals Multiple Modulators of Epithelial-mesenchymal Transition and Identifies DNAJB4 and CD81 as Novel Metastasis Inducers in Breast Cancer., Mol Cell Proteomics, PMID 31221721PXD011996 Dataset with its publication pending (from PRIDE) Dataset title: Depletion of high molecular mass proteins for the identification of small proteins and small open reading frame encoded peptides in cellular proteomes Possible reference: Cassidy, L. et al. (2019) Depletion of High-Molecular-Mass Proteins for the Identification of Small Proteins and Short Open Reading Frame Encoded Peptides in Cellular Proteomes., J Proteome Res, PMID 30779583PXD011981 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis of behavioral adaptation in zebrafish larvae Possible reference: Huang, KT. et al. (2023) Z-REX: shepherding reactive electrophiles to specific proteins expressed tissue specifically or ubiquitously, and recording the resultant functional electrophile-induced redox responses in larval fish., Nat Protoc, PMID 37020146PXD011945 no publication (from MassIVE) Dataset title: Xcc Pan Proteome Possible reference: Tvora, FTPK. et al. (2019) Pan Proteome of Xanthomonas campestris pv. campestris Isolates Contrasting in Virulence., Proteomics, PMID 31050381PXD011858 no publication (from MassIVE) Dataset title: Chemical Derivatization of Streptavidin Provides Protection from Tryptic Proteolysis Possible reference: Barshop, WD. et al. (2019) Chemical Derivatization of Affinity Matrices Provides Protection from Tryptic Proteolysis., J Proteome Res, PMID 31498634PXD011811 Dataset with its publication pending (from PRIDE) Dataset title: The biomolecular characterisation of an Early Neolithic finger ring from Syltholm, Denmark Possible reference: Trolle Jensen, TZ. et al. (2020) The biomolecular characterization of a finger ring contextually dated to the emergence of the Early Neolithic from Syltholm, Denmark., R Soc Open Sci, PMID 32218948PXD011749 Dataset with its publication pending (from PRIDE) Dataset title: Plasma proteome profiling to detect and avoid sample-related biases in biomarker studies Possible reference: Geyer, PE. et al. (2019) Plasma Proteome Profiling to detect and avoid sample-related biases in biomarker studies., EMBO Mol Med, PMID 31566909PXD011748 Chen A, Franks, A & Slavov, N. DART-ID increases single-cell proteome coverage. (submitted).; Chen A, Franks A & Slavov N. DART-ID increases single-cell proteome coverage. biorXiv, DOI: 10.1101/399121. PLOS Comp Bio (submitted). (from MassIVE) Dataset title: DART-ID increases single-cell proteome coverage Possible reference: Chen, AT. et al. (2019) DART-ID increases single-cell proteome coverage., PLoS Comput Biol, PMID 31260443PXD011739 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic SIP of the soil communities Possible reference: Lünsmann, V. et al. (2016) In situ protein-SIP highlights Burkholderiaceae as key players degrading toluene by para ring hydroxylation in a constructed wetland model., Environ Microbiol, PMID 26616584PXD011726 Dataset with its publication pending (from PRIDE) Dataset title: E. coli BW25113 proteomics in nutrient-rich and minimal medium Possible reference: Maser, A. et al. (2020) Amino acids are key substrates to Escherichia coli BW25113 for achieving high specific growth rate., Res Microbiol, PMID 32057959PXD011725 Dataset with its publication pending (from PRIDE) Dataset title: Benchmarking accuracy and precision of intensity-based absolute quantification of protein abundances in Saccharomyces cerevisiae Possible reference: Snchez, BJ. et al. (2021) Benchmarking accuracy and precision of intensity-based absolute quantification of protein abundances in Saccharomyces cerevisiae., Proteomics, PMID 33452728PXD011717 Dataset with its publication pending (from PRIDE) Dataset title: A Qualitative Proteome-wide Lysine Succinylation Profiling of Tea Revealed Its Involvement in Primary Metabolism Possible reference: Qiu, C. et al. (2020) [A Qualitative Proteome-Wide Lysine Succinylation Profiling of Tea Revealed its Involvement in Primary Metabolism]., Mol Biol (Mosk), PMID 32163400PXD011713 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of frontal cortex area 8 in frontotemporal lobar degeneration with c9orf72 mutation Possible reference: Andrs-Benito, P. et al. (2019) Combined Transcriptomics and Proteomics in Frontal Cortex Area 8 in Frontotemporal Lobar Degeneration Linked to C9ORF72 Expansion., J Alzheimers Dis, PMID 30909235PXD011703 Dataset with its publication pending (from PRIDE) Dataset title: A chemical probe for Tudor domain protein SPIN1 to investigate chromatin functions Possible reference: Fagan, V. et al. (2019) A Chemical Probe for Tudor Domain Protein Spindlin1 to Investigate Chromatin Function., J Med Chem, PMID 31550156PXD011693 Dataset with its publication pending (from PRIDE) Dataset title: Shotgun Proteomic Analysis of ESBL and non ESBL Producing Klebsiella Pneumoniae Clinical Isolates Possible reference: Enany, S. et al. (2020) Shotgun proteomic analysis of ESBL-producing and non-ESBL-producing Klebsiella Pneumoniae clinical isolates., Microbiol Res, PMID 32078895PXD011667 Dataset with its publication pending (from PRIDE) Dataset title: Dirhodium (II) Complex Interferes with Iron-Transport System to Exert Antibacterial Action against Streptococcus pneumoniae Possible reference: Yang, XY. et al. (2019) Dirhodium (II) complex interferes with iron-transport system to exert antibacterial action against Streptococcus pneumoniae., J Proteomics, PMID 30521977PXD011644 Dataset with its publication pending (from PRIDE) Dataset title: Nematostella vectensis argonautes Possible reference: Praher, D. et al. (2017) Characterization of the piRNA pathway during development of the sea anemone Nematostella vectensis., RNA Biol, PMID 28783426PXD011637 no publication (from MassIVE) Dataset title: Spatial and proteomic profiling reveals centrosome-independent features of centriolar satellites Possible reference: Gheiratmand, L. et al. (2019) Spatial and proteomic profiling reveals centrosome-independent features of centriolar satellites., EMBO J, PMID 31304627PXD011632 Dataset with its publication pending (from PRIDE) Dataset title: Tks5 protein Interactome . Possible reference: Swayampakula, M. et al. (2017) The interactome of metabolic enzyme carbonic anhydrase IX reveals novel roles in tumor cell migration and invadopodia/MMP14-mediated invasion., Oncogene, PMID 28692057PXD011630 Dataset with its publication pending (from PRIDE) Dataset title: Integrative analysis identifies key molecular signatures underlying neurodevelopmental deficits in fragile X syndrome Possible reference: Utami, KH. et al. (2020) Integrative Analysis Identifies Key Molecular Signatures Underlying Neurodevelopmental Deficits in Fragile X Syndrome., Biol Psychiatry, PMID 32653109PXD011624 Dataset with its publication pending (from PRIDE) Dataset title: Validation expression of nine proteins by parallel reaction monitoring Possible reference: Tennstaedt, A. et al. (2015) In Vivo Fate Imaging of Intracerebral Stem Cell Grafts in Mouse Brain., PLoS One, PMID 26641453PXD011611 Dataset with its publication pending (from PRIDE) Dataset title: Lipopolysaccharide-regulated secretion of soluble and vesicle-based colorectal cancer cell proteins Possible reference: Garcia de Durango, CR. et al. (2021) Lipopolysaccharide-regulated secretion of soluble and vesicle-based proteins from a panel of colorectal cancer cell lines., Proteomics Clin Appl, PMID 33587312PXD011571 Dataset with its publication pending (from PRIDE) Dataset title: Selective autophagy degrades nuclear pore complexes Possible reference: Simioni, C. et al. (2016) Synergistic effects of selective inhibitors targeting the PI3K/AKT/mTOR pathway or NUP214-ABL1 fusion protein in human Acute Lymphoblastic Leukemia., Oncotarget, PMID 27821800PXD011560 Dataset with its publication pending (from PRIDE) Dataset title: Emiliania Huxleyi exposed to 4 treatments of HHQ Possible reference: Garrett, O. et al. (2023) A bacterial quorum sensing signal is a potent inhibitor of de novo pyrimidine biosynthesis in the globally abundant Emiliania huxleyi., Front Microbiol, PMID 37869665PXD011544 no publication (from MassIVE) Dataset title: Sequential Windowed Acquisition of Reporter Masses for Quantitation-First Proteomics Possible reference: Barshop, WD. et al. (2019) Sequential Windowed Acquisition of Reporter Masses for Quantitation-First Proteomics., J Proteome Res, PMID 30781952PXD011534 Dataset with its publication pending (from PRIDE) Dataset title: Deacetylation inhibition reverses PABPN1-dependent muscle wasting Possible reference: Olie, CS. et al. (2019) Deacetylation Inhibition Reverses PABPN1-Dependent Muscle Wasting., iScience, PMID 30739015PXD011476 no publication (from MassIVE) Dataset title: Extended sialylated O-glycan repertoire of human urinary glycoproteins discovered and characterized using EThcD Possible reference: Darula, Z. et al. (2019) Extended Sialylated O-Glycan Repertoire of Human Urinary Glycoproteins Discovered and Characterized Using Electron-Transfer/Higher-Energy Collision Dissociation., J Proteome Res, PMID 30407017PXD011475 Dataset with its publication pending (from PRIDE) Dataset title: espB deletion mutant of Mycobacterium tuberculosis Possible reference: Soler-Arnedo, P. et al. (2020) Polarly Localized EccE1 Is Required for ESX-1 Function and Stabilization of ESX-1 Membrane Proteins in Mycobacterium tuberculosis., J Bacteriol, PMID 31843799PXD011459 Dataset with its publication pending (from PRIDE) Dataset title: Sequential digestion with Trypsin and Elastase in cross-linking/mass spectrometry Possible reference: Dau, T. et al. (2019) Sequential Digestion with Trypsin and Elastase in Cross-Linking Mass Spectrometry., Anal Chem, PMID 30817130PXD011382 Dataset with its publication pending (from PRIDE) Dataset title: The GTPase Nog1 co-ordinates assembly, maturation and quality control of distant ribosomal functional centers Possible reference: Klingauf-Nerurkar, P. et al. (2020) The GTPase Nog1 co-ordinates the assembly, maturation and quality control of distant ribosomal functional centers., Elife, PMID 31909713PXD011352 Dataset with its publication pending (from iProX) Dataset title: Histone-lysine N-methyltransferase SETD7 is a potential serum biomarker for colorectal cancer patients Possible reference: Duan, B. et al. (2018) Histone-lysine N-methyltransferase SETD7 is a potential serum biomarker for colorectal cancer patients., EBioMedicine, PMID 30361067PXD011338 Dataset with its publication pending (from jPOST) Dataset title: Degradation of OPG by HtrA1 Possible reference: Ochiai, N. et al. (2019) Murine osteoclasts secrete serine protease HtrA1 capable of degrading osteoprotegerin in the bone microenvironment., Commun Biol, PMID 30854478PXD011304 Dataset with its publication pending (from PRIDE) Dataset title: Macromolecular connectivity landscape of mammalian brain Possible reference: Pourhaghighi, R. et al. (2020) BraInMap Elucidates the Macromolecular Connectivity Landscape of Mammalian Brain., Cell Syst, PMID 32325033PXD011298 no publication (from MassIVE) Dataset title: Multi-omics of azacitidine-treated AML cells reveals variable and convergent targets that remodel the cell surface proteome Possible reference: Leung, KK. et al. (2019) Multiomics of azacitidine-treated AML cells reveals variable and convergent targets that remodel the cell-surface proteome., Proc Natl Acad Sci U S A, PMID 30584089PXD011281 Dataset with its publication pending (from PRIDE) Dataset title: proteogenomic and metabolic adaptations of Staphylococcus aureus Possible reference: Busche, T. et al. (2018) Comparative Secretome Analyses of Human and Zoonotic Staphylococcus aureus Isolates CC8, CC22, and CC398., Mol Cell Proteomics, PMID 30201737PXD011251 Dataset with its publication pending (from PRIDE) Dataset title: AML1-ETO induced leukemia stem cell self-renewal depends on Plcg1 Possible reference: Schnoeder, TM. et al. (2022) PLCG1 is required for AML1-ETO leukemia stem cell self-renewal., Blood, PMID 34695195PXD011223 Dataset with its publication pending (from PRIDE) Dataset title: Gen organ engagement in lipid metabolism revealed by a combined transcriptomic and proteomic approach Possible reference: Xavier, MA. et al. (2019) Tick Gen's organ engagement in lipid metabolism revealed by a combined transcriptomic and proteomic approach., Ticks Tick Borne Dis, PMID 30904537PXD011221 Dataset with its publication pending (from PRIDE) Dataset title: Improved SILAC Method for Double Labeling of Bacterial Proteome Possible reference: Han, J. et al. (2019) Improved SILAC method for double labeling of bacterial proteome., J Proteomics, PMID 30553074PXD011211 Dataset with its publication pending (from PRIDE) Dataset title: Chaperonin CCT Checkpoint Function in Basal Transcription Factor TFIID Assembly Possible reference: Antonova, SV. et al. (2018) Chaperonin CCT checkpoint function in basal transcription factor TFIID assembly., Nat Struct Mol Biol, PMID 30510221PXD011209 Dataset with its publication pending (from PRIDE) Dataset title: Two of a kind: Transmissible Schwann cell cancers in the endangered Tasmanian devil. Possible reference: Patchett, AL. et al. (2020) Two of a kind: transmissible Schwann cell cancers in the endangered Tasmanian devil (Sarcophilus harrisii)., Cell Mol Life Sci, PMID 31375869PXD011151 Dataset with its publication pending (from PRIDE) Dataset title: Mitochondrial proteome analysis from LC-MS/MS glioblastoma cell lines Possible reference: Gómez-Caudillo, L. et al. (2020) Principal component analysis on LC‑MS/MS and 2DE‑MALDI‑TOF in glioblastoma cell lines reveals that mitochondria act as organelle sensors of the metabolic state in glioblastoma., Oncol Rep, PMID 32468038PXD011143 Dataset with its publication pending (from PRIDE) Dataset title: Proteome Profiling of PBMC-originated, iPSC-derived Lentoid Bodies at differentiation day 25 Possible reference: Ali, M. et al. (2020) Generation and proteome profiling of PBMC-originated, iPSC-derived lentoid bodies., Stem Cell Res, PMID 32474394PXD011132 Dataset with its publication pending (from PRIDE) Dataset title: Apple SWATH-MS - Apple is one of the most popular fruit crops world-wide and its skin color is an important quality consideration essential for commercial value Possible reference: Chen, MX. et al. (2019) SWATH-MS-facilitated proteomic profiling of fruit skin between Fuji apple and a red skin bud sport mutant., BMC Plant Biol, PMID 31651235PXD011039 Dataset with its publication pending (from PRIDE) Dataset title: Microautophagy of storage proteins in maize aleurone cells. Possible reference: Ding, X. et al. (2022) Microautophagy Mediates Vacuolar Delivery of Storage Proteins in Maize Aleurone Cells., Front Plant Sci, PMID 35251104PXD011023 Dataset with its publication pending (from PRIDE) Dataset title: Heat and pressure resistance relates to protein folding and aggregation Possible reference: Li, H. et al. (2020) Heat and Pressure Resistance in Escherichia coli Relates to Protein Folding and Aggregation., Front Microbiol, PMID 32117137PXD010996 Dataset with its publication pending (from PRIDE) Dataset title: Identification of Covalent Modifications Regulating Immune Signaling Complex Composition and Phenotype Possible reference: Frauenstein, A. et al. (2021) Identification of covalent modifications regulatingimmune signaling complex composition and phenotype., Mol Syst Biol, PMID 34318608PXD010970 Dataset with its publication pending (from PRIDE) Dataset title: Reprograming of Trypanosoma cruzi metabolism triggered by parasite interaction with the host cell extracellular matrix Possible reference: Mattos, EC. et al. (2019) Reprogramming of Trypanosoma cruzi metabolism triggered by parasite interaction with the host cell extracellular matrix., PLoS Negl Trop Dis, PMID 30726203PXD010901 Dataset with its publication pending (from PRIDE) Dataset title: Further evidence for sustainable alternatives to replace threatened animal horn based on quantitative proteomic analysis Possible reference: Liu, R. et al. (2018) Further evidence for sustainable alternatives to replace threatened animal horn based on quantitative proteomic analysis., Electrophoresis, PMID 30192403PXD010874 Dataset with its publication pending (from PRIDE) Dataset title: A 6-Month Systems Toxicology Inhalation/Cessation Study in ApoE-/- Mice to Investigate Cardiovascular and Respiratory Exposure Effects of the Modified-Risk Tobacco Products CHTP1.2 and THS2.2 Compared with the Effects of Conventional Cigarettes [Liver iTR Possible reference: Phillips, B. et al. (2019) A six-month systems toxicology inhalation/cessation study in ApoE-/- mice to investigate cardiovascular and respiratory exposure effects of modified risk tobacco products, CHTP 1.2 and THS 2.2, compared with conventional cigarettes., Food Chem Toxicol, PMID 30763686PXD010873 Dataset with its publication pending (from PRIDE) Dataset title: A 6-Month Systems Toxicology Inhalation/Cessation Study in ApoE-/- Mice to Investigate Cardiovascular and Respiratory Exposure Effects of the Modified-Risk Tobacco Products CHTP1.2 and THS2.2 Compared with the Effects of Conventional Cigarettes [Heart iTR Possible reference: Phillips, B. et al. (2019) A six-month systems toxicology inhalation/cessation study in ApoE-/- mice to investigate cardiovascular and respiratory exposure effects of modified risk tobacco products, CHTP 1.2 and THS 2.2, compared with conventional cigarettes., Food Chem Toxicol, PMID 30763686PXD010857 no publication (from MassIVE) Dataset title: Venom proteomics of Vipera kaznakovi Possible reference: Kovalchuk, SI. et al. (2016) Quantitative Proteomic Analysis of Venoms from Russian Vipers of Pelias Group: Phospholipases A₂ are the Main Venom Components., Toxins (Basel), PMID 27077884PXD010849 Dataset with its publication pending (from PRIDE) Dataset title: Reactive oxygen species (ROS) production activates unconventional secretion of antioxidant proteins Possible reference: Canli, . et al. (2016) Glutathione peroxidase 4 prevents necroptosis in mouse erythroid precursors., Blood, PMID 26463424PXD010836 Dataset with its publication pending (from PRIDE) Dataset title: Proteome of the cellulose degradation system of Cytophaga hutchinsonii and Sporocytophaga myxococcoides Possible reference: Taillefer, M. et al. (2018) Proteomic Dissection of the Cellulolytic Machineries Used by Soil-Dwelling Bacteroidetes., mSystems, PMID 30505945PXD010817 Dataset with its publication pending (from PRIDE) Dataset title: Detergent-resistant microdomains in Saprolegnia parasitica Possible reference: Mlida, H. et al. (2024) Quantitative proteomic analysis of plasma membranes from the fish pathogen Saprolegnia parasitica reveals promising targets for disease control., Microbiol Spectr, PMID 38888349PXD010814 no publication (from MassIVE) Dataset title: Proteomic Manifestations of Genetic Defects in Autosomal Recessive Congenital Ichthyosis Possible reference: Karim, N. et al. (2019) Proteomic manifestations of genetic defects in autosomal recessive congenital ichthyosis., J Proteomics, PMID 30978464PXD010812 Dataset with its publication pending (from PRIDE) Dataset title: A comprehensive and combined analysis of transcriptome and proteome reveals key factors of ischemia-reperfusion injury in human liver transplantation Possible reference: Huang, S. et al. (2019) Comprehensive and combined omics analysis reveals factors of ischemia-reperfusion injury in liver transplantation., Epigenomics, PMID 30700158PXD010805 Dataset with its publication pending (from PRIDE) Dataset title: Dynamic proteomics reveals unexpected plasticity of cellular proteome Possible reference: Budzik, JM. et al. (2020) Dynamic post-translational modification profiling of Mycobacterium tuberculosis-infected primary macrophages., Elife, PMID 31951200PXD010766 no publication (from MassIVE) Dataset title: Delayed effect of early-life exposure to 17-alpha-ethinylestradiol on brain proteome of adult mangrove rivulus fish Possible reference: Voisin, AS. et al. (2019) Early-life exposure to the endocrine disruptor 17-α-ethinylestradiol induces delayed effects in adult brain, liver and ovotestis proteomes of a self-fertilizing fish., J Proteomics, PMID 30550985PXD010765 no publication (from MassIVE) Dataset title: Delayed effect of early-life exposure to 17-alpha-ethinylestradiol on brain proteome of adult mangrove rivulus fish Possible reference: Voisin, AS. et al. (2019) Early-life exposure to the endocrine disruptor 17-α-ethinylestradiol induces delayed effects in adult brain, liver and ovotestis proteomes of a self-fertilizing fish., J Proteomics, PMID 30550985PXD010764 no publication (from MassIVE) Dataset title: Delayed effect of early-life exposure to 17-alpha-ethinylestradiol on brain proteome of adult mangrove rivulus fish Possible reference: Voisin, AS. et al. (2019) Early-life exposure to the endocrine disruptor 17-α-ethinylestradiol induces delayed effects in adult brain, liver and ovotestis proteomes of a self-fertilizing fish., J Proteomics, PMID 30550985PXD010754 Dataset with its publication pending (from jPOST) Dataset title: human feces metaproteome from 81 persons Possible reference: Ferrer, M. et al. (2013) Microbiota from the distal guts of lean and obese adolescents exhibit partial functional redundancy besides clear differences in community structure., Environ Microbiol, PMID 22891823PXD010753 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of Asrij perturbed Drosophila lymph glands as a resource for identification of new regulators of hematopoiesis Possible reference: Sinha, S. et al. (2019) Proteomics of Asrij Perturbation in Drosophila Lymph Glands for Identification of New Regulators of Hematopoiesis., Mol Cell Proteomics, PMID 30923041PXD010718 no publication (from MassIVE) Dataset title: A cross-linking-aided PRM mass spectrometry for EGFR proteome Possible reference: Chen, Y. et al. (2019) A Cross-Linking-Aided Immunoprecipitation/Mass Spectrometry Workflow Reveals Extensive Intracellular Trafficking in Time-Resolved, Signal-Dependent Epidermal Growth Factor Receptor Proteome., J Proteome Res, PMID 31442056PXD010717 no publication (from MassIVE) Dataset title: A cross-linking-aided mass spectrometry workflow reveals extensive intracellular trafficking in time-resolved, signal-dependent EGFR proteome Possible reference: Chen, Y. et al. (2019) A Cross-Linking-Aided Immunoprecipitation/Mass Spectrometry Workflow Reveals Extensive Intracellular Trafficking in Time-Resolved, Signal-Dependent Epidermal Growth Factor Receptor Proteome., J Proteome Res, PMID 31442056PXD010716 Dataset with its publication pending (from jPOST) Dataset title: Isolated peroxisome-division machinery Possible reference: Imoto, Y. et al. (2013) Single-membrane-bounded peroxisome division revealed by isolation of dynamin-based machinery., Proc Natl Acad Sci U S A, PMID 23696667PXD010706 no publication (from MassIVE) Dataset title: Venomics of the horned desert Viper (Cerastes Cerastes) and the mangrove pit viper (Cryptelytrops purpureomaculatus) Possible reference: Ozverel, CS. et al. (2019) Investigating the cytotoxic effects of the venom proteome of two species of the Viperidae family (Cerastes cerastes and Cryptelytrops purpureomaculatus) from various habitats., Comp Biochem Physiol C Toxicol Pharmacol, PMID 30825636PXD010682 Dataset with its publication pending (from jPOST) Dataset title: Total proteome of Andrographis paniculata Possible reference: Talei, D. et al. (2015) Salt stress-induced protein pattern associated with photosynthetic parameters and andrographolide content in Andrographis paniculata Nees., Biosci Biotechnol Biochem, PMID 25384250PXD010681 Dataset with its publication pending (from jPOST) Dataset title: Shotgun proteomics of Mn (II)-oxidizing Serratia marcescens Possible reference: Queiroz, PS. et al. (2018) Alterations in the proteomic composition of Serratia marcescens in response to manganese (II)., BMC Biotechnol, PMID 30594179PXD010628 Dataset with its publication pending (from PRIDE) Dataset title: Nitric oxide modulates metabolic remodelling and immunometabolism in inflammatory murine macrophages Possible reference: Bailey, JD. et al. (2019) Nitric Oxide Modulates Metabolic Remodeling in Inflammatory Macrophages through TCA Cycle Regulation and Itaconate Accumulation., Cell Rep, PMID 31269442PXD010588 Dataset with its publication pending (from PRIDE) Dataset title: Discerning strain specific beta-lactam drug resistance of P. aeruginosa Possible reference: Jorgensen, SCJ. et al. (2018) Meropenem and Vaborbactam: Stepping up the Battle against Carbapenem-resistant Enterobacteriaceae., Pharmacotherapy, PMID 29427523PXD010502 Dataset with its publication pending (from jPOST) Dataset title: Digestion of mother’s milk and fortifier proteins in the infant stomach Possible reference: Perrella, SL. et al. (2015) Influences of breast milk composition on gastric emptying in preterm infants., J Pediatr Gastroenterol Nutr, PMID 25313848PXD010484 Mu A, Tak Shun Fung, Arminja N. Kettenbach, Rajarshi Chakrabarti, Henry Higgs. A complex containing lysine-acetylated actin inhibits the formin INF2. . (from MassIVE) Dataset title: A complex containing lysine-acetylated actin inhibits the formin INF2 Possible reference: A, M. et al. (2019) A complex containing lysine-acetylated actin inhibits the formin INF2., Nat Cell Biol, PMID 30962575PXD010481 Dataset with its publication pending (from PRIDE) Dataset title: Cross-Linking/mass spectrometry (CLMS) analysis of RNA polymerase II Possible reference: Luo, J. et al. (2019) Identification of Cross-linked Peptides Using Isotopomeric Cross-linkers., J Am Soc Mass Spectrom, PMID 31168746PXD010448 Dataset with its publication pending (from jPOST) Dataset title: Proteomic analysis of soluble and surface-enriched proteins from Acanthamoeba castellanii trophozoites Possible reference: Maschio, VJ. et al. (2018) Comparative proteomic analysis of soluble and surface-enriched proteins from Acanthamoeba castellanii trophozoites., Mol Biochem Parasitol, PMID 30205118PXD010381 Dataset with its publication pending (from PRIDE) Dataset title: Systems-based approaches enable the development of industrial yeast strains with improved phenotypesSystems-based approaches enable the development of industrial yeast strains with improved phenotypes Possible reference: Varela, C. et al. (2018) Systems-based approaches enable identification of gene targets which improve the flavour profile of low-ethanol wine yeast strains., Metab Eng, PMID 30138679PXD010366 no publication (from MassIVE) Dataset title: Selective Permeability of Mouse Blood-Aqueous Barrier as Determined by 15N-Heavy Isotope Tracing and Mass Spectrometry Possible reference: Liu, P. et al. (2018) Selective permeability of mouse blood-aqueous barrier as determined by 15N-heavy isotope tracing and mass spectrometry., Proc Natl Acad Sci U S A, PMID 30127000PXD010346 no publication (from MassIVE) Dataset title: Proteomics reveals localization of cuticular proteins in Anopheles gambiae Possible reference: Zhou, Y. et al. (2019) Proteomics reveals localization of cuticular proteins in Anopheles gambiae., Insect Biochem Mol Biol, PMID 30278207PXD010328 Dataset with its publication pending (from PRIDE) Dataset title: Identification and validation of stage-associated serum biomarkers in colorectal cancer_discovery phase C Possible reference: Marn-Vicente, C. et al. (2020) Identification and Validation of Stage-Associated Serum Biomarkers in Colorectal Cancer Using MS-Based Procedures., Proteomics Clin Appl, PMID 31502404PXD010302 Dataset with its publication pending (from iProX) Dataset title: Hepatoma-derived growth factor and high mobility group protein HMGI-C upregulated expression promote the papillary thyroid microcarcinoma metastasis Possible reference: Jin, S. et al. (2019) Proteomic analysis of the papillary thyroid microcarcinoma., Ann Endocrinol (Paris), PMID 31606199PXD010236 no publication (from MassIVE) Dataset title: Time-Course Mass Spectrometry Data of Adipose Mesenchymal Stem Cells Acquiring Chondrogenic Phenotype Possible reference: Janus, JR. et al. (2018) Time-course mass spectrometry data of adipose mesenchymal stem cells acquiring chondrogenic phenotype., BMC Res Notes, PMID 30208918PXD010205 no publication (from MassIVE) Dataset title: Protein Acetylation and Succinylation in Brown Adipose Tissue Possible reference: Doan, MT. et al. (2022) Direct anabolic metabolism of three-carbon propionate to a six-carbon metabolite occurs invivo across tissues and species., J Lipid Res, PMID 35568254PXD010185 Dataset with its publication pending (from PRIDE) Dataset title: Metaproteomic analysis of glacial ecosystem Possible reference: Martinez-Alonso, E. et al. (2019) Taxonomic and functional characterization of a microbial community from a volcanic englacial ecosystem in Deception Island, Antarctica., Sci Rep, PMID 31434915PXD010170 Dataset with its publication pending (from jPOST) Dataset title: Comparative phosphoproteomic analysis of barley grains Possible reference: Ishikawa, S. et al. (2019) Comparative Phosphoproteomic Analysis of Barley Embryos with Different Dormancy during Imbibition., Int J Mol Sci, PMID 30669653PXD010151 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of candidate Desulfatiglans TRIP_1 and identification of enzymes involved in anaerobic degradation of phenanthrene Possible reference: Kraiselburd, I. et al. (2019) Metabolic reconstruction of the genome of candidate Desulfatiglans TRIP_1 and identification of key candidate enzymes for anaerobic phenanthrene degradation., Environ Microbiol, PMID 30680888PXD010135 Dataset with its publication pending (from PRIDE) Dataset title: In vitro - in vivo correlation of gut microbiome response to metformin Possible reference: Li, L. et al. (2019) An in vitro model maintaining taxon-specific functional activities of the gut microbiome., Nat Commun, PMID 31515476PXD010123 Dataset with its publication pending (from PRIDE) Dataset title: Drosophila BAF complex crosslinking ( Possible reference: Mashtalir, N. et al. (2018) Modular Organization and Assembly of SWI/SNF Family Chromatin Remodeling Complexes., Cell, PMID 30343899PXD010063 no publication (from MassIVE) Dataset title: USP7 Regulates Cytokinesis through FBXO38 and KIF20B Possible reference: Georges, A. et al. (2019) USP7 Regulates Cytokinesis through FBXO38 and KIF20B., Sci Rep, PMID 30804394PXD010060 Dataset with its publication pending (from PRIDE) Dataset title: Metaproteomic analysis of glacial ecosystem Possible reference: Martinez-Alonso, E. et al. (2019) Taxonomic and functional characterization of a microbial community from a volcanic englacial ecosystem in Deception Island, Antarctica., Sci Rep, PMID 31434915PXD010050 Dataset with its publication pending (from jPOST) Dataset title: In presence Manganese of Meyerozyma guilliermondii Possible reference: Ruas, FAD. et al. (2019) Manganese alters expression of proteins involved in the oxidative stress of Meyerozyma guilliermondii., J Proteomics, PMID 30414513PXD010026 no publication (from MassIVE) Dataset title: Classification of Single Particles from Human Cell Extract Reveals Distinct Structures Possible reference: Verbeke, EJ. et al. (2018) Classification of Single Particles from Human Cell Extract Reveals Distinct Structures., Cell Rep, PMID 29972786PXD009990 Dataset with its publication pending (from PRIDE) Dataset title: Direct proteome labelling in fruit flies with SILAF reveals differential phosphorylation of mitochondrial proteins upon loss of OXPHOS subunits Possible reference: Rosenberger, FA. et al. (2021) Stable Isotope Labeling of Amino Acids in Flies (SILAF) Reveals Differential Phosphorylation of Mitochondrial Proteins Upon Loss of OXPHOS Subunits., Mol Cell Proteomics, PMID 33640490PXD009985 no publication (from MassIVE) Dataset title: MYC dephosphorylation by the PP1/PNUTS phosphatase complex regulates chromatin binding and protein stability Possible reference: Dingar, D. et al. (2018) MYC dephosphorylation by the PP1/PNUTS phosphatase complex regulates chromatin binding and protein stability., Nat Commun, PMID 30158517PXD009872 no publication (from MassIVE) Dataset title: SET1A-mediated mono-methylation at K342 regulates YAP activation by blocking its nuclear export and promotes tumorigenesis Possible reference: Fang, L. et al. (2018) SET1A-Mediated Mono-Methylation at K342 Regulates YAP Activation by Blocking Its Nuclear Export and Promotes Tumorigenesis., Cancer Cell, PMID 30008322PXD009653 Dataset with its publication pending (from jPOST) Dataset title: Histone Middle Down UVPD Possible reference: Greer, SM. et al. (2018) Extensive Characterization of Heavily Modified Histone Tails by 193 nm Ultraviolet Photodissociation Mass Spectrometry via a Middle-Down Strategy., Anal Chem, PMID 30063333PXD009633 Dataset with its publication pending (from PRIDE) Dataset title: Proteome Profiling of PBMC-originated, iPSC-derived Lentoid Bodies at differentiation day 35 Possible reference: Ali, M. et al. (2020) Generation and proteome profiling of PBMC-originated, iPSC-derived lentoid bodies., Stem Cell Res, PMID 32474394PXD009615 no publication (from MassIVE) Dataset title: Global interactomics of Zika Virus Possible reference: Coyaud, E. et al. (2018) Global Interactomics Uncovers Extensive Organellar Targeting by Zika Virus., Mol Cell Proteomics, PMID 30037810PXD009547 no publication (from MassIVE) Dataset title: A novel differential ion mobility interface expands the depth of proteome coverage and the sensitivity of multiplex proteomic measurements Possible reference: Pfammatter, S. et al. (2018) A Novel Differential Ion Mobility Device Expands the Depth of Proteome Coverage and the Sensitivity of Multiplex Proteomic Measurements., Mol Cell Proteomics, PMID 30007914PXD009545 no publication (from MassIVE) Dataset title: Alcohol-driven changes in fetal cerebral artery proteome Possible reference: Bukiya, AN. et al. (2019) Fetal Cerebral Artery Mitochondrion as Target of Prenatal Alcohol Exposure., Int J Environ Res Public Health, PMID 31067632PXD009523 Dataset with its publication pending (from PRIDE) Dataset title: JEV and ZIKV NS5 interactome . Possible reference: Kovanich, D. et al. (2019) Analysis of the Zika and Japanese Encephalitis Virus NS5 Interactomes., J Proteome Res, PMID 31199156PXD009506 Dataset with its publication pending (from PRIDE) Dataset title: Snake Venom Extracellular vesicles (SVEVs) reveal wide molecular and functional proteome diversity Possible reference: Carregari, VC. et al. (2018) Snake Venom Extracellular vesicles (SVEVs) reveal wide molecular and functional proteome diversity., Sci Rep, PMID 30104604PXD009486 no publication (from MassIVE) Dataset title: Hemocyanin facilitates lignocellulose digestion by marine wood-boring crustaceans Possible reference: Besser, K. et al. (2018) Hemocyanin facilitates lignocellulose digestion by wood-boring marine crustaceans., Nat Commun, PMID 30510200PXD009420 Dataset with its publication pending (from PRIDE) Dataset title: A proteome-integrated, carbon source dependent genetic regulatory network in Saccharomyces cerevisiae Possible reference: Garcia-Albornoz, M. et al. (2020) A proteome-integrated, carbon source dependent genetic regulatory network in Saccharomyces cerevisiae., Mol Omics, PMID 31868867PXD009386 Dataset with its publication pending (from iProX) Dataset title: Quantitative S-nitrosylation proteome reveals the susceptibility of translational machinery to oxidized low-density lipoprotein in vascular endothelial cells Possible reference: Xu, X. et al. (2019) The protein S-nitrosylation of splicing and translational machinery in vascular endothelial cells is susceptible to oxidative stress induced by oxidized low-density lipoprotein., J Proteomics, PMID 30630120PXD009381 Dataset with its publication pending (from PRIDE) Dataset title: Chikungunya virus phosphoproteomics Possible reference: Treffers, EE. et al. (2023) The alphavirus nonstructural protein 2 NTPase induces a host translational shut-off through phosphorylation of eEF2 via cAMP-PKA-eEF2K signaling., PLoS Pathog, PMID 36848386PXD009356 Dataset with its publication pending (from PRIDE) Dataset title: Comparative platelet releasate proteome profiling of acute coronary syndrome versus stable coronary artery disease Possible reference: Maguire, PB. et al. (2020) Comparative Platelet Releasate Proteomic Profiling of Acute Coronary Syndrome versus Stable Coronary Artery Disease., Front Cardiovasc Med, PMID 32671099PXD009347 no publication (from MassIVE) Dataset title: Proteomics analysis of phage phiR201 infecting Yersinia enterocolitica Possible reference: Skurnik, M. et al. (2012) Characterization of the genome, proteome, and structure of yersiniophage ϕR1-37., J Virol, PMID 22973030PXD009313 no publication (from MassIVE) Dataset title: Noordermeer_Shieldin_2018 Possible reference: Noordermeer, SM. et al. (2018) The shieldin complex mediates 53BP1-dependent DNA repair., Nature, PMID 30022168PXD009290 Dataset with its publication pending (from PRIDE) Dataset title: Interruption of p53-MDM2 Interaction by Nutlin-3a in Human Lymphoma Cell Models Initiates a Cell-Dependent Global Effect on Transcriptome and Proteome Level Possible reference: Psatha, K. et al. (2023) Interruption of p53-MDM2 Interaction by Nutlin-3a in Human Lymphoma Cell Models Initiates a Cell-Dependent Global Effect on Transcriptome and Proteome Level., Cancers (Basel), PMID 37568720PXD009270 Dataset with its publication pending (from PRIDE) Dataset title: Comprehensive analysis of proteomic landscape remodeling during carcinogenesis Possible reference: Xie, F. et al. (2022) The genomic and proteomic landscape in oral lichen planus versus oral squamous cell carcinoma: a scoping review., Int J Dermatol, PMID 35575880PXD009263 no publication (from MassIVE) Dataset title: (3S)-Lysyl hydroxylation of TRAFAC GTPases is catalyzed by the 1 Jumonji-C oxygenase JMJD7 Possible reference: Markolovic, S. et al. (2018) The Jumonji-C oxygenase JMJD7 catalyzes (3S)-lysyl hydroxylation of TRAFAC GTPases., Nat Chem Biol, PMID 29915238PXD009245 Dataset with its publication pending (from jPOST) Dataset title: TGFβ-Induced Proteins in Non-Endocrine Mouse Pituitary Cell Line TtT/GF Possible reference: Tsukada, T. et al. (2018) TGFβ signaling reinforces pericyte properties of the non-endocrine mouse pituitary cell line TtT/GF., Cell Tissue Res, PMID 29274061PXD009200 Dataset with its publication pending (from PRIDE) Dataset title: Global hyperactivation of enhancers stabilizes human and mouse nave pluripotency Possible reference: Lynch, CJ. et al. (2020) Global hyperactivation of enhancers stabilizes human and mouse naive pluripotency through inhibition of CDK8/19 Mediator kinases., Nat Cell Biol, PMID 32989249PXD009160 Dataset with its publication pending (from PRIDE) Dataset title: BXD Mouse Aging Liver Proteomics Possible reference: Williams, EG. et al. (2018) Quantifying and Localizing the Mitochondrial Proteome Across Five Tissues in A Mouse Population., Mol Cell Proteomics, PMID 29945935PXD009152 Dataset with its publication pending (from PRIDE) Dataset title: Phosphotyrosine profiling of human cerebrospinal fluid Possible reference: Sathe, G. et al. (2018) Phosphotyrosine profiling of human cerebrospinal fluid., Clin Proteomics, PMID 30220890PXD009124 Dataset with its publication pending (from PRIDE) Dataset title: Label-free quantitative proteomic approach to investigate the effect of heat stress on Panax ginseng leaves Possible reference: Kim, SW. et al. (2019) Label-free quantitative proteomic analysis of Panax ginseng leaves upon exposure to heat stress., J Ginseng Res, PMID 30662303PXD009031 no publication (from MassIVE) Dataset title: UC_Severity_Multiomics Possible reference: Trapecar, M. et al. (2020) Gut-Liver Physiomimetics Reveal Paradoxical Modulation of IBD-Related Inflammation by Short-Chain Fatty Acids., Cell Syst, PMID 32191873PXD009017 Dataset with its publication pending (from PRIDE) Dataset title: Myristic acid induces proteomic changes in primary murine hepatocytes Possible reference: Speziali, G. et al. (2018) Myristic acid induces proteomic and secretomic changes associated with steatosis, cytoskeleton remodeling, endoplasmic reticulum stress, protein turnover and exosome release in HepG2 cells., J Proteomics, PMID 29654920PXD008974 Dataset with its publication pending (from PRIDE) Dataset title: Complexome Profiling of the mitochondrial proteome from Viscum album Possible reference: Schrder, L. et al. (2022) Complexome Profiling of Plant Mitochondrial Fractions., Methods Mol Biol, PMID 34545489PXD008947 Dataset with its publication pending (from jPOST) Dataset title: In depth phosphoproteomeic analysis reveal the underlying signaling of antibiotic resistance Possible reference: Steenwyk, JL. et al. (2023) Evolutionary origin, population diversity, and diagnostics for a cryptic hybrid pathogen., bioRxiv, PMID 37461539PXD008927 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Alterations in Multiple Myeloma: A Comprehensive Study Using Bone Marrow Interstitial Fluid and Serum Samples Possible reference: Chanukuppa, V. et al. (2020) Proteomic Alterations in Multiple Myeloma: A Comprehensive Study Using Bone Marrow Interstitial Fluid and Serum Samples., Front Oncol, PMID 33585190PXD008921 Dataset with its publication pending (from jPOST) Dataset title: A new tool to reveal bacterial signaling mechanisms in antibiotic treatment and resistance Possible reference: Lin, MH. et al. (2018) A New Tool to Reveal Bacterial Signaling Mechanisms in Antibiotic Treatment and Resistance., Mol Cell Proteomics, PMID 30232125PXD008874 Dataset with its publication pending (from PRIDE) Dataset title: Eukaryotic translation initiation factor 5A regulates autophagy via translation of ATG3 Possible reference: Frankel, LB. et al. (2018) EIF5A mediates autophagy via translation of ATG3., Autophagy, PMID 29973124PXD008812 Dataset with its publication pending (from PRIDE) Dataset title: The formation of a camalexin-biosynthetic metabolon Possible reference: Mucha, S. et al. (2019) The Formation of a Camalexin Biosynthetic Metabolon., Plant Cell, PMID 31511315PXD008714 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics of CLIC4 overexpressing human pulmonary artery endothelial cells Possible reference: Abdul-Salam, VB. et al. (2019) CLIC4/Arf6 Pathway., Circ Res, PMID 30582444PXD008709 Dataset with its publication pending (from PRIDE) Dataset title: CLIC4 interacting proteins - To identify proteins in human pulmonary artery endothelial cells that interact with CLIC4 Possible reference: Abdul-Salam, VB. et al. (2019) CLIC4/Arf6 Pathway., Circ Res, PMID 30582444PXD008705 Dataset with its publication pending (from jPOST) Dataset title: DiPIUS_Fbxw7 Possible reference: Yumimoto, K. et al. (2013) F-box and WD repeat domain-containing-7 (Fbxw7) protein targets endoplasmic reticulum-anchored osteogenic and chondrogenic transcriptional factors for degradation., J Biol Chem, PMID 23955342PXD008653 Dataset with its publication pending (from PRIDE) Dataset title: Docosahexaenoic and Arachidonic Free Fatty Acids Exert Different Antitumor Activities on Colorectal Cancer Cells Possible reference: Ramos-Bueno, RP. et al. (2016) Various Acylglycerols from Common Oils Exert Different Antitumor Activities on Colorectal Cancer Cells., Nutr Cancer, PMID 27007804PXD008618 no publication (from MassIVE) Dataset title: Diet-Induced Acetylation and Succinylation Possible reference: Wang, F. et al. (2020) Diet-induced obesity is associated with altered expression of sperm motility-related genes and testicular post-translational modifications in a mouse model., Theriogenology, PMID 32980686PXD008564 Dataset with its publication pending (from PRIDE) Dataset title: Aberrant Glycosylation Promotes Pancreatic Inflammation Possible reference: Bhalerao, N. et al. (2023) ST6GAL1 sialyltransferase promotes acinar to ductal metaplasia and pancreatic cancer progression., JCI Insight, PMID 37643018PXD008563 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative Analysis of Global Proteome and Lysine Acetylome for Human CD4+ T Follicular Helper Cells Possible reference: Zhao, M. et al. (2021) Comparative Analysis of Global Proteome and Lysine Acetylome Between Naive CD4+ T Cells and CD4+ T Follicular Helper Cells., Front Immunol, PMID 33841426PXD008557 no publication (from MassIVE) Dataset title: Quantifying homologous proteins and proteoforms Possible reference: Enk, VM. et al. (2016) Regulation of highly homologous major urinary proteins in house mice quantified with label-free proteomic methods., Mol Biosyst, PMID 27464909PXD008550 Dataset with its publication pending (from PRIDE) Dataset title: An integrated workflow for cross-linking/mass spectrometry Possible reference: Liu, F. et al. (2015) Proteome-wide profiling of protein assemblies by cross-linking mass spectrometry., Nat Methods, PMID 26414014PXD008489 Dataset with its publication pending (from iProX) Dataset title: Proteomic profile of ET-1 induced dysfunctional hiPS-C cells Possible reference: Vignon-Zellweger, N. et al. (2014) Endothelin-1 overexpression and endothelial nitric oxide synthase knock-out induce different pathological responses in the heart of male and female mice., Life Sci, PMID 24355292PXD008476 Dataset with its publication pending (from PRIDE) Dataset title: Mutant calreticulin binders analysis Possible reference: Achyutuni, S. et al. (2021) Hematopoietic expression of a chimeric murine-human CALR oncoprotein allows the assessment of anti-CALR antibody immunotherapies in vivo., Am J Hematol, PMID 33761144PXD008457 no publication (from MassIVE) Dataset title: Proteomic and biochemical comparison of the cellular interaction partners of human VPS33A and VPS33B Possible reference: Hunter, MR. et al. (2018) Proteomic and Biochemical Comparison of the Cellular Interaction Partners of Human VPS33A and VPS33B., J Mol Biol, PMID 29778605PXD008439 Dataset with its publication pending (from PRIDE) Dataset title: Changes in the proteome of mediterranean sea urchin Paracentrotus lividus due to activation of its immune system Possible reference: Inguglia, L. et al. (2020) Changes in the proteome of sea urchin Paracentrotus lividus coelomocytes in response to LPS injection into the body cavity., PLoS One, PMID 32074628PXD008416 no publication (from MassIVE) Dataset title: Xiong_NDR1_2017 Possible reference: Xiong, S. et al. (2017) Regulation of Protein Interactions by Mps One Binder (MOB1) Phosphorylation., Mol Cell Proteomics, PMID 28373297PXD008390 no publication (from MassIVE) Dataset title: Galectins control mTOR in response to endomembrane damage Possible reference: Kumar, S. et al. (2017) Galectins and TRIMs directly interact and orchestrate autophagic response to endomembrane damage., Autophagy, PMID 28368693PXD008384 Dataset with its publication pending (from PRIDE) Dataset title: Micro-metastases regression following primary tumor excision: a critical role for primary tumor secretome Possible reference: Shaashua, L. et al. (2020) Spontaneous regression of micro-metastases following primary tumor excision: a critical role for primary tumor secretome., BMC Biol, PMID 33158447PXD008313 Dataset with its publication pending (from PRIDE) Dataset title: Absolute quantification of selected photosynthetic electron transfer proteins in Chlamydomonas reinhardtii in the presence and absence of oxygen Possible reference: Nikolova, D. et al. (2018) Absolute quantification of selected photosynthetic electron transfer proteins in Chlamydomonas reinhardtii in the presence and absence of oxygen., Photosynth Res, PMID 29594952PXD008295 no publication (from MassIVE) Dataset title: High throughput and accurate serum proteome profiling by integrated sample preparation technology and single-run data independent mass spectrometry analysis Possible reference: Lin, L. et al. (2018) High throughput and accurate serum proteome profiling by integrated sample preparation technology and single-run data independent mass spectrometry analysis., J Proteomics, PMID 29278786PXD008282 Dataset with its publication pending (from jPOST) Dataset title: HeLa, Orbitrap Fusion Lumos, Parameter optimization Possible reference: Greguš, M. et al. (2024) Improved Data Acquisition Settings on Q Exactive HF-X and Fusion Lumos Tribrid Orbitrap-Based Mass Spectrometers for Proteomic Analysis of Limited Samples., J Proteome Res, PMID 38690845PXD008277 Dataset with its publication pending (from PRIDE) Dataset title: Proteome and phosphoproteome of Wip1-knockout mouse testis Possible reference: Wei, Y. et al. (2019) Integrative Proteomic and Phosphoproteomic Profiling of Testis from Wip1 Phosphatase-Knockout Mice: Insights into Mechanisms of Reduced Fertility., Mol Cell Proteomics, PMID 30361445PXD008214 Dataset with its publication pending (from PRIDE) Dataset title: Host-pathogen dynamics through secretome analysis of stimulated macrophages Possible reference: Khan, MM. et al. (2018) Host-pathogen dynamics through targeted secretome analysis of stimulated macrophages., J Proteomics, PMID 29572161PXD008180 no publication (from MassIVE) Dataset title: The Functions of the COPII Gene Paralogs SEC23A and SEC23B Are Interchangeable In Vivo Possible reference: Khoriaty, R. et al. (2018) Functions of the COPII gene paralogs SEC23A and SEC23B are interchangeable in vivo., Proc Natl Acad Sci U S A, PMID 30065114PXD008045 no publication (from MassIVE) Dataset title: Acinetobacter baumannii 17978 growth temperature proteomics analysis Possible reference: De Silva, PM. et al. (2018) Effect of Incubation Temperature on Antibiotic Resistance and Virulence Factors of Acinetobacter baumannii ATCC 17978., Antimicrob Agents Chemother, PMID 29061747PXD007997 no publication (from MassIVE) Dataset title: Proteome of Gastrointestinal Stromal Tumor-Derived Exosomes Possible reference: Atay, S. et al. (2018) Insights into the Proteome of Gastrointestinal Stromal Tumors-Derived Exosomes Reveals New Potential Diagnostic Biomarkers., Mol Cell Proteomics, PMID 29242380PXD007974 Dataset with its publication pending (from PRIDE) Dataset title: Deep Multilayer Tissue Proteomics Identifies Molecular Networks in Alzheimer’s Disease Progression Possible reference: Bai, B. et al. (2020) Deep Multilayer Brain Proteomics Identifies Molecular Networks in Alzheimer's Disease Progression., Neuron, PMID 31926610PXD007973 Dataset with its publication pending (from PRIDE) Dataset title: Moss proteomes, LC-MS/MS - proteome data analysis Possible reference: Guihur, A. et al. (2021) Quantitative proteomic analysis to capture the role of heat-accumulated proteins in moss plant acquired thermotolerance., Plant Cell Environ, PMID 33314263PXD007922 Dataset with its publication pending (from PRIDE) Dataset title: Moss endogenous peptides, LC-MS/MS Possible reference: Fesenko, I. et al. (2018) Analysis of Endogenous Peptide Pools of Physcomitrella patens Moss., Methods Mol Biol, PMID 29476527PXD007899 no publication (from MassIVE) Dataset title: Integrated in vivo quantitative proteomics and nutrient tracing reveals age-related metabolic rewiring of pancreatic B-cell function Possible reference: Wortham, M. et al. (2018) Integrated In Vivo Quantitative Proteomics and Nutrient Tracing Reveals Age-Related Metabolic Rewiring of Pancreatic β Cell Function., Cell Rep, PMID 30517875PXD007870 no publication (from MassIVE) Dataset title: Insights into the evolution of host association through the isolation and characterization of a human periodontal pathogen, Desulfobulbus oralis Possible reference: Cross, KL. et al. (2018) Insights into the Evolution of Host Association through the Isolation and Characterization of a Novel Human Periodontal Pathobiont, Desulfobulbus oralis., mBio, PMID 29535201PXD007779 Dataset with its publication pending (from PRIDE) Dataset title: Effect of acadesine and overexpression of the karyopherin Kap123 on nuclear abundance of yeast proteins Possible reference: Douillet, DC. et al. (2019) Metabolomics and proteomics identify the toxic form and the associated cellular binding targets of the anti-proliferative drug AICAR., J Biol Chem, PMID 30478173PXD007736 no publication (from MassIVE) Dataset title: Critical Period Inhibition of NKCC1 Rectifies Synapse Development and Restores Adult Tactile Response Maps in Fragile X Mice Possible reference: He, Q. et al. (2019) Critical period inhibition of NKCC1 rectifies synapse plasticity in the somatosensory cortex and restores adult tactile response maps in fragile X mice., Mol Psychiatry, PMID 29703945PXD007670 Dataset with its publication pending (from PRIDE) Dataset title: Vitis vinifera rhizosphere characterization: a metaproteome approach Possible reference: Bona, E. et al. (2019) Metaproteomic characterization of theVitis vinifera rhizosphere., FEMS Microbiol Ecol, PMID 30307579PXD007631 no publication (from MassIVE) Dataset title: Smith_AF6-RAS_2017 Possible reference: Smith, MJ. et al. (2017) Evolution of AF6-RAS association and its implications in mixed-lineage leukemia., Nat Commun, PMID 29062045PXD007541 no publication (from MassIVE) Dataset title: Characterization of indole-3-acetic acid biosynthesis and the effects of IAA exposure on the proteome of the plant-associated microbe Pantoea sp. YR343 Possible reference: Estenson, K. et al. (2018) Characterization of Indole-3-acetic Acid Biosynthesis and the Effects of This Phytohormone on the Proteome of the Plant-Associated Microbe Pantoea sp. YR343., J Proteome Res, PMID 29464956PXD007531 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics based identification and validation of biomarkers for AMD Possible reference: Kim, HJ. et al. (2016) Proteomics-based identification and validation of novel plasma biomarkers phospholipid transfer protein and mannan-binding lectin serine protease-1 in age-related macular degeneration., Sci Rep, PMID 27605007PXD007248 no publication (from MassIVE) Dataset title: Blood from GAS- and mock-infected mice Possible reference: Almeida-Souza, F. et al. (2016) Morinda citrifolia Linn. Reduces Parasite Load and Modulates Cytokines and Extracellular Matrix Proteins in C57BL/6 Mice Infected with Leishmania (Leishmania) amazonensis., PLoS Negl Trop Dis, PMID 27579922PXD007213 no publication (from MassIVE) Dataset title: Defining Host Responses During Systemic Bacterial Infection Through Construction of a Murine Organ Proteome Atlas Possible reference: Lapek, JD. et al. (2018) Defining Host Responses during Systemic Bacterial Infection through Construction of a Murine Organ Proteome Atlas., Cell Syst, PMID 29778837PXD007204 Dataset with its publication pending (from PRIDE) Dataset title: Arabidopsis thaliana Col-0 wild type, deg10-1, deg10-2 and catr3-1 root proteome Possible reference: Maeda, S. et al. (2014) Nitrite transport activity of a novel HPP family protein conserved in cyanobacteria and chloroplasts., Plant Cell Physiol, PMID 24904028PXD007197 no publication (from MassIVE) Dataset title: Comparison of genomes and proteomes of whole genome-sequenced Campylobacter jejuni from different phylogenetic backgrounds Possible reference: Clark, CG. et al. (2018) Comparison of genomes and proteomes of four whole genome-sequenced Campylobacter jejuni from different phylogenetic backgrounds., PLoS One, PMID 29293692PXD007067 no publication (from MassIVE) Dataset title: Quantitative proteomics for dcas9 captured proteins Possible reference: Gao, XD. et al. (2019) Adapting dCas9-APEX2 for subnuclear proteomic profiling., Methods Enzymol, PMID 30691651PXD007047 no publication (from MassIVE) Dataset title: Proteomic analysis of antigen-specific serum and gut antibodies in celiac disease patients Possible reference: Iversen, R. et al. (2017) Strong Clonal Relatedness between Serum and Gut IgA despite Different Plasma Cell Origins., Cell Rep, PMID 28877470PXD006933 Dataset with its publication pending (from PRIDE) Dataset title: THE PROTEOME SPECIATION OF AN IMMORTALIZED CYSTIC FIBROSIS CELL LINE: NEW PERSPECTIVES ON THE PATHOPHYSIOLOGY OF THE DISEASE. Possible reference: Puglia, M. et al. (2018) The proteome speciation of an immortalized cystic fibrosis cell line: New perspectives on the pathophysiology of the disease., J Proteomics, PMID 28970102PXD006925 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of extracellular vesicles from a Plasmodium falciparum Kenyan clinical isolate defines a core parasite secretome Possible reference: Abdi, A. et al. (2017) Proteomic analysis of extracellular vesicles from a Plasmodium falciparum Kenyan clinical isolate defines a core parasite secretome., Wellcome Open Res, PMID 28944300PXD006883 Dataset with its publication pending (from PRIDE) Dataset title: A proteomics analysis of adventitious root formation after leaf removal in lotus (Nelumbo nucifera Gaertn.) Possible reference: Cheng, L. et al. (2018) A proteomics analysis of adventitious root formation after leaf removal in lotus (Nelumbo nucifera Gaertn.)., Z Naturforsch C J Biosci, PMID 29794259PXD006843 no publication (from MassIVE) Dataset title: GeLC-MS/MS of H37Rv and two clinical isolates of Mycobacterium tuberculosis Possible reference: Heunis, T. et al. (2017) Proteogenomic Investigation of Strain Variation in Clinical Mycobacterium tuberculosis Isolates., J Proteome Res, PMID 28820946PXD006794 no publication (from MassIVE) Dataset title: Profiling of proteins secreted in the bovine oviduct reveals diverse functions of this luminal microenvironment Possible reference: Pillai, VV. et al. (2017) Profiling of proteins secreted in the bovine oviduct reveals diverse functions of this luminal microenvironment., PLoS One, PMID 29155854PXD006782 no publication (from MassIVE) Dataset title: Mechanisms connecting the conserved protein kinases Kin1, Pom1, and Ssp1 in fission yeast cell polarity and division Possible reference: Lee, ME. et al. (2018) Mechanisms Connecting the Conserved Protein Kinases Ssp1, Kin1, and Pom1 in Fission Yeast Cell Polarity and Division., Curr Biol, PMID 29249658PXD006721 no publication (from MassIVE) Dataset title: Mechanisms of subzero growth in the cryophile Planococcus halocryophilus determined through proteomic analysis Possible reference: Raymond-Bouchard, I. et al. (2017) Mechanisms of subzero growth in the cryophile Planococcus halocryophilus determined through proteomic analysis., Environ Microbiol, PMID 28834033PXD006681 no publication (from MassIVE) Dataset title: Omega-6 and omega-3 oxylipins are implicated in soybean oil-induced obesity in mice Possible reference: Deol, P. et al. (2017) Omega-6 and omega-3 oxylipins are implicated in soybean oil-induced obesity in mice., Sci Rep, PMID 28970503PXD006680 Dataset with its publication pending (from PRIDE) Dataset title: Chemoproteomics Reveals Chemical Diversity and Dynamics of 4-Oxo-2-nonenal Modifications in Cells Possible reference: Sun, R. et al. (2017) Chemoproteomics Reveals Chemical Diversity and Dynamics of 4-Oxo-2-nonenal Modifications in Cells., Mol Cell Proteomics, PMID 28814509PXD006640 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics analysis of amyloid corneal aggregates from lattice corneal dystrophy patients Possible reference: Karring, H. et al. (2013) Serine protease HtrA1 accumulates in corneal transforming growth factor beta induced protein (TGFBIp) amyloid deposits., Mol Vis, PMID 23592924PXD006629 no publication (from MassIVE) Dataset title: Mitochondrial H+-ATP synthase in human skeletal muscle: contribution to dyslipidemia and insulin resistance Possible reference: Formentini, L. et al. (2017) Mitochondrial H+-ATP synthase in human skeletal muscle: contribution to dyslipidaemia and insulin resistance., Diabetologia, PMID 28770317PXD006628 no publication (from MassIVE) Dataset title: LINE-1 and the cell cycle: protein localization and functional dynamics Possible reference: Hatanaka, Y. et al. (2013) GSE is a maternal factor involved in active DNA demethylation in zygotes., PLoS One, PMID 23560077PXD006612 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Analyses of Cysteine Redox in High-fat-fed and Fasted Mouse Livers: Implications for Liver Metabolic Homeostasis Possible reference: Li, Y. et al. (2018) Proteomic Analyses of Cysteine Redox in High-Fat-Fed and Fasted Mouse Livers: Implications for Liver Metabolic Homeostasis., J Proteome Res, PMID 29098862PXD006586 no publication (from MassIVE) Dataset title: Blue light and CO2 signals converge to regulate light-induced stomatal opening Possible reference: Hiyama, A. et al. (2017) Blue light and CO2 signals converge to regulate light-induced stomatal opening., Nat Commun, PMID 29101334PXD006567 Dataset with its publication pending (from PRIDE) Dataset title: An Insight into Glyco-microheterogeneity of Plasma von Willebrand Factor (vWF) by Mass Spectrometry Possible reference: Gashash, EA. et al. (2017) An Insight into Glyco-Microheterogeneity of Plasma von Willebrand Factor by Mass Spectrometry., J Proteome Res, PMID 28696719PXD006565 Dataset with its publication pending (from jPOST) Dataset title: CEBPbeta interacting partners identification. Possible reference: Nishimura, R. et al. (2018) Transcriptional network systems in cartilage development and disease., Histochem Cell Biol, PMID 29308531PXD006548 Dataset with its publication pending (from PRIDE) Dataset title: Potential molecular mechanisms of overgrazing-induced plant dwarf of sheepgrass (Leymus chinensis) analyzed using proteome data Possible reference: Ren, W. et al. (2018) Potential molecular mechanisms of overgrazing-induced dwarfism in sheepgrass (Leymus chinensis) analyzed using proteomic data., BMC Plant Biol, PMID 29739327PXD006521 no publication (from MassIVE) Dataset title: Massey Dolin Hepatology 2017 Hepatic matrisome response to injury Possible reference: Massey, VL. et al. (2017) The hepatic "matrisome" responds dynamically to injury: Characterization of transitional changes to the extracellular matrix in mice., Hepatology, PMID 28035785PXD006485 no publication (from MassIVE) Dataset title: CDK7/TFIIH regulates SETD1A/B activity Possible reference: Ebmeier, CC. et al. (2017) Human TFIIH Kinase CDK7 Regulates Transcription-Associated Chromatin Modifications., Cell Rep, PMID 28768201PXD006452 Dataset with its publication pending (from PRIDE) Dataset title: CDK5 and GSK3 mediate neuroinflammation-induced neurodegeneration Possible reference: Reinhardt, L. et al. (2019) Dual Inhibition of GSK3β and CDK5 Protects the Cytoskeleton of Neurons from Neuroinflammatory-Mediated Degeneration In Vitro and In Vivo., Stem Cell Reports, PMID 30773488PXD006411 Dataset with its publication pending (from MassIVE) Dataset title: The histone variant macroH2A1 is a BRCA1 ubiquitin ligase substrate Possible reference: Kim, BJ. et al. (2017) The Histone Variant MacroH2A1 Is a BRCA1Ubiquitin Ligase Substrate., Cell Rep, PMID 28564596PXD006361 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics Reveal Global Regulation of Protein SUMOylation by ATM and ATR Kinases during Replication Stress Possible reference: Munk, S. et al. (2017) Proteomics Reveals Global Regulation of Protein SUMOylation by ATM and ATR Kinases during Replication Stress., Cell Rep, PMID 29020638PXD006357 Dataset with its publication pending (from MassIVE) Dataset title: Cerebrospinal fluid markers to distinguish bacterial meningitis from cerebral malaria in children Possible reference: Njunge, JM. et al. (2017) Cerebrospinal fluid markers to distinguish bacterial meningitis from cerebral malaria in children., Wellcome Open Res, PMID 29181450PXD006230 John D. Lapek, Jr., Mary K Lewinski, Jacob M Wozniak, John Guatelli, and David J Gonzalez. Quantitative temporal viromics of an inducible HIV-1 model yields insight to global host targets and phospho-dynamics associated with Vpr. Mol Cell Proteomics mcp.M (from MassIVE) Dataset title: Proteomics and Phosphoproteomics of an Inducible HIV Possible reference: Wojcechowskyj, JA. et al. (2013) Quantitative phosphoproteomics reveals extensive cellular reprogramming during HIV-1 entry., Cell Host Microbe, PMID 23684312PXD006229 Dataset with its publication pending (from MassIVE) Dataset title: O-GlcNAcylation of fumarase maintains tumour growth under glucose deficiency Possible reference: Wang, T. et al. (2017) O-GlcNAcylation of fumarase maintains tumour growth under glucose deficiency., Nat Cell Biol, PMID 28628081PXD006228 Dataset with its publication pending (from MassIVE) Dataset title: Distribution of Cuticular Proteins in Different Structures of Adult Anopheles Gambiae Possible reference: Vannini, L. et al. (2014) Temporal and spatial expression of cuticular proteins of Anopheles gambiae implicated in insecticide resistance or differentiation of M/S incipient species., Parasit Vectors, PMID 24428871PXD006150 Dataset with its publication pending (from MassIVE) Dataset title: Trans-kingdom mimicry underlies ribosome customization by a poxvirus kinase Possible reference: Jha, S. et al. (2017) Trans-kingdom mimicry underlies ribosome customization by a poxvirus kinase., Nature, PMID 28636603PXD006101 Dataset with its publication pending (from MassIVE) Dataset title: Chlamydia trachomatis ChxR is a transcriptional regulator of virulence factors that function in in vivo host pathogen interactions Possible reference: Yang, C. et al. (2017) Chlamydia trachomatis ChxR is a transcriptional regulator of virulence factors that function in in vivo host-pathogen interactions., Pathog Dis, PMID 28369275PXD006094 no publication (from MassIVE) Dataset title: C. elegans SUP-46, an HNRNPM family RNA-binding protein that prevents paternally-mediated epigenetic sterility Possible reference: Johnston, WL. et al. (2017) C. elegans SUP-46, an HNRNPM family RNA-binding protein that prevents paternally-mediated epigenetic sterility., BMC Biol, PMID 28716093PXD006051 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of the β-catenin oncogenic interactome Possible reference: Huang, SS. et al. (2013) Linking proteomic and transcriptional data through the interactome and epigenome reveals a map of oncogene-induced signaling., PLoS Comput Biol, PMID 23408876PXD005983 Dataset with its publication pending (from MassIVE) Dataset title: Properties of the Cuticular Proteins of Anopheles Gambiae as Revealed by Serial Extraction of Adults Possible reference: Zhou, Y. et al. (2017) Properties of the cuticular proteins of Anopheles gambiae as revealed by serial extraction of adults., PLoS One, PMID 28419115PXD005830 Dataset with its publication pending (from PRIDE) Dataset title: Proteome Analysis of Non-Small Cell Lung Cancer Cell Line Secretomes and Patient Sputum Reveals Biofluid Biomarker Candidates for Cisplatin Response Prediction Possible reference: Bttger, F. et al. (2019) Proteome analysis of non-small cell lung cancer cell line secretomes and patient sputum reveals biofluid biomarker candidates for cisplatin response prediction., J Proteomics, PMID 30710758PXD005829 Dataset with its publication pending (from PRIDE) Dataset title: The 3’-UTR of MYC couples RNA polymerase II function to ribonucleotide levels Possible reference: Dejure, FR. et al. (2017) The MYC mRNA 3'-UTR couples RNA polymerase II function to glutamine and ribonucleotide levels., EMBO J, PMID 28408437PXD005811 Dataset with its publication pending (from MassIVE) Dataset title: Kinobead and single-shot LC-MS profiling identifies selective PKD inhibitors Possible reference: Golkowski, M. et al. (2017) Kinobead and Single-Shot LC-MS Profiling Identifies Selective PKD Inhibitors., J Proteome Res, PMID 28102076PXD005802 Dataset with its publication pending (from PRIDE) Dataset title: Signaling and crosstalk of the angiotensin AT2-receptor and the receptor MAS Possible reference: Horiuchi, M. et al. (2012) Regulation of angiotensin II receptors beyond the classical pathway., Clin Sci (Lond), PMID 22548405PXD005799 no publication (from MassIVE) Dataset title: Zika Proteomic Interactome Possible reference: Garcez, PP. et al. (2017) Zika virus disrupts molecular fingerprinting of human neurospheres., Sci Rep, PMID 28112162PXD005797 Dataset with its publication pending (from PRIDE) Dataset title: Extensive Peptide Fractionation and y1 Ion-based Interference Detection Enable Accurate Quantification by Isobaric Labeling and Mass Spectrometry Possible reference: Niu, M. et al. (2017) Extensive Peptide Fractionation and y1 Ion-Based Interference Detection Method for Enabling Accurate Quantification by Isobaric Labeling and Mass Spectrometry., Anal Chem, PMID 28194965PXD005770 Dataset with its publication pending (from MassIVE) Dataset title: Mass-spectrometry of single mammalian cells quantifies proteome heterogeneity during cell differentiation Possible reference: Budnik, B. et al. (2018) SCoPE-MS: mass spectrometry of single mammalian cells quantifies proteome heterogeneity during cell differentiation., Genome Biol, PMID 30343672PXD005758 Dataset with its publication pending (from PRIDE) Dataset title: A method for spatially and temporally resolved protein network interrogation in living cells Possible reference: Lobingier, BT. et al. (2017) An Approach to Spatiotemporally Resolve Protein Interaction Networks in Living Cells., Cell, PMID 28388416PXD005720 Dataset with its publication pending (from PRIDE) Dataset title: Reference dataset for EnCOUNTer tool development Possible reference: Macey, R. et al. (2021) Transillumination and optical coherence tomography for the detection and diagnosis of enamel caries., Cochrane Database Syst Rev, PMID 33502759PXD005617 Alexander S. Dowdell, Maxwell D. Murphy, Christina Azodi, Selene K. Swanson , Laurence Florens, Shiyong Chenac & Wolfram R. Z�ckert. Comprehensive Spatial Analysis of the Borrelia burgdorferi Lipoproteome Reveals a Compartmentalization Bias Toward the B (from MassIVE) Dataset title: Comprehensive Spatial Analysis of the Borrelia burgdorferi Lipoproteome Possible reference: Dowdell, AS. et al. (2017) Comprehensive Spatial Analysis of the Borrelia burgdorferi Lipoproteome Reveals a Compartmentalization Bias toward the Bacterial Surface., J Bacteriol, PMID 28069820PXD005608 Dataset with its publication pending (from MassIVE) Dataset title: Quantitative proteomic profiling of the extracellular matrix of pancreatic islets during the angiogenic switch and insulinoma progression Possible reference: Naba, A. et al. (2017) Quantitative proteomic profiling of the extracellular matrix of pancreatic islets during the angiogenic switch and insulinoma progression., Sci Rep, PMID 28071719PXD005595 no publication (from MassIVE) Dataset title: Alzheimer's disease proteomics Possible reference: Zhang, L. et al. (2021) [Mechanism of puerarin reversing SH-SY5Y cell injury induced by Aβ_(1-42) based on proteomics]., Zhongguo Zhong Yao Za Zhi, PMID 34402289PXD005591 no publication (from MassIVE) Dataset title: Nucleoredoxin Guards against Oxidative Stress by Protecting Antioxidant Enzymes Possible reference: Kneeshaw, S. et al. (2017) Nucleoredoxin guards against oxidative stress by protecting antioxidant enzymes., Proc Natl Acad Sci U S A, PMID 28724723PXD005560 no publication (from MassIVE) Dataset title: Identification of oxidative modifications of hemopexin and their physiological relevance Possible reference: Hahl, P. et al. (2017) Identification of oxidative modifications of hemopexin and their predicted physiological relevance., J Biol Chem, PMID 28596380PXD005474 no publication (from MassIVE) Dataset title: Proteomic analysis of pemphigus autoantibodies indicates a much larger, more diverse, and dynamic repertoire than determined by B-cell genetics Possible reference: Chen, J. et al. (2017) Proteomic Analysis of Pemphigus Autoantibodies Indicates a Larger, More Diverse, and More Dynamic Repertoire than Determined by B Cell Genetics., Cell Rep, PMID 28052253PXD005460 Dataset with its publication pending (from MassIVE) Dataset title: Ethological principles predict the neuropeptides co-opted to influence parenting Possible reference: Cunningham, CB. et al. (2017) Ethological principles predict the neuropeptides co-opted to influence parenting., Nat Commun, PMID 28145404PXD005438 Takashi Nakasuji, Narumi Ogonuki, Tomoki Chiba, Tomomi Kato, Kumiko Shiozawa, Kenji Yamatoya, Hiromitsu Tanaka, Tadashi Kondo, Kenji Miyado, Naoyuki Miyasaka, Toshiro Kubota, Atsuo Ogura, and Hiroshi Asahara. Complementary critical functions of Zfy1 and Z (from MassIVE) Dataset title: Complementary critical functions of Zfy1 and Zfy2 in mouse spermatogenesis and reproduction Possible reference: Nakasuji, T. et al. (2017) Complementary Critical Functions of Zfy1 and Zfy2 in Mouse Spermatogenesis and Reproduction., PLoS Genet, PMID 28114340PXD005347 Dataset with its publication pending (from PRIDE) Dataset title: Alzheimer Disease model detergent insoluble proteomes Possible reference: Ayyadevara, S. et al. (2016) Proteins that mediate protein aggregation and cytotoxicity distinguish Alzheimer's hippocampus from normal controls., Aging Cell, PMID 27448508PXD005328 Dataset with its publication pending (from MassIVE) Dataset title: Mouse islet IRE-BP1 transgene LC-MS/MS study Possible reference: Villafuerte, BC. et al. (2017) Over-expression of insulin-response element binding protein-1 (IRE-BP1) in mouse pancreatic islets increases expression of RACK1 and TCTP: Beta cell markers of high glucose sensitivity., Biochim Biophys Acta Proteins Proteom, PMID 27816562PXD005279 Dataset with its publication pending (from MassIVE) Dataset title: macroH2A is a BRCA1 ubiquitin ligase substrate Possible reference: Kim, BJ. et al. (2017) The Histone Variant MacroH2A1 Is a BRCA1Ubiquitin Ligase Substrate., Cell Rep, PMID 28564596PXD005232 Dataset with its publication pending (from PRIDE) Dataset title: N-GlycositeAtlas, a database resource for mass spectrometry-based human N-linked glycoproteins and glycosylation sites Possible reference: Sun, S. et al. (2019) N-GlycositeAtlas: a database resource for mass spectrometry-based human N-linked glycoprotein and glycosylation site mapping., Clin Proteomics, PMID 31516400PXD005222 Dataset with its publication pending (from PRIDE) Dataset title: Tapered-tip Capillary Electrophoresis Nano-electrospray Ionization Mass Spectrometry for Ultrasensitive Proteomics: The Mouse Cortex Possible reference: Choi, SB. et al. (2017) Tapered-Tip Capillary Electrophoresis Nano-Electrospray Ionization Mass Spectrometry for Ultrasensitive Proteomics: the Mouse Cortex., J Am Soc Mass Spectrom, PMID 27853976PXD005203 Dataset with its publication pending (from MassIVE) Dataset title: Staphylococcus aureus Secretome Profiling using Label Free Quantitation Possible reference: Burian, M. et al. (2015) Quantitative proteomics of the human skin secretome reveal a reduction in immune defense mediators in ectodermal dysplasia patients., J Invest Dermatol, PMID 25347115PXD005181 Dataset with its publication pending (from PRIDE) Dataset title: Specific mixing facilitates the comparative quantification of phosphorylation sites with significant dysregulations Possible reference: Liu, J. et al. (2017) Specific mixing facilitates the comparative quantification of phosphorylation sites with significant dysregulations., Anal Chim Acta, PMID 27916117PXD005171 Dataset with its publication pending (from jPOST) Dataset title: Quantitative phosphoproteomics of colorectal cancer tissues Possible reference: Hekmat, O. et al. (2013) TIMP-1 increases expression and phosphorylation of proteins associated with drug resistance in breast cancer cells., J Proteome Res, PMID 23909892PXD005104 Dataset with its publication pending (from PRIDE) Dataset title: The CVSC mechanically reinforces HSV-1 Possible reference: Snijder, J. et al. (2017) Vertex-Specific Proteins pUL17 and pUL25 Mechanically Reinforce Herpes Simplex Virus Capsids., J Virol, PMID 28381566PXD005089 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic profiling of brain and testis reveals the diverse changes in ribosome proteins in fmr1 knockout mice Possible reference: Xu, B. et al. (2018) Proteomic Profiling of Brain and Testis Reveals the Diverse Changes in Ribosomal Proteins in fmr1 Knockout Mice., Neuroscience, PMID 29292077PXD005037 Dataset with its publication pending (from MassIVE) Dataset title: Progeroid Syndrome Patients with ZMPSTE24 Deficiency Could Benefit When Treated with Rapamycin and Dimethylsulfoxide Possible reference: Akinci, B. et al. (2017) Progeroid syndrome patients with ZMPSTE24 deficiency could benefit when treated with rapamycin and dimethylsulfoxide., Cold Spring Harb Mol Case Stud, PMID 28050601PXD004949 Dataset with its publication pending (from PRIDE) Dataset title: Proteogenomics of adenosine-to-inosine RNA editing in fruit fly Possible reference: Kuznetsova, KG. et al. (2018) Proteogenomics of Adenosine-to-Inosine RNA Editing in the Fruit Fly., J Proteome Res, PMID 30298734PXD004679 Dataset with its publication pending (from PRIDE) Dataset title: Transcriptome and proteome studies during the development of barnacle amphitrite Possible reference: Han, Z. et al. (2013) iTRAQ-based proteomic profiling of the barnacle Balanus amphitrite in response to the antifouling compound meleagrin., J Proteome Res, PMID 23540395PXD004677 Dataset with its publication pending (from MassIVE) Dataset title: Characterization of site-specific N-glycopeptide isoforms of alpha-1-acid glycoprotein from an interlaboratory study using LC-MS/MS Possible reference: Lee, JY. et al. (2016) Characterization of Site-Specific N-Glycopeptide Isoforms of α-1-Acid Glycoprotein from an Interlaboratory Study Using LC-MS/MS., J Proteome Res, PMID 27760464PXD004648 Dataset with its publication pending (from PRIDE) Dataset title: ER-RIME in wt-MCF7 and MCF7-LTED Possible reference: Ribas, R. et al. (2014) Identification of chemokine receptors as potential modulators of endocrine resistance in oestrogen receptor-positive breast cancers., Breast Cancer Res, PMID 25358600PXD004629 Dataset with its publication pending (from PRIDE) Dataset title: Cancer proteome and metabolite changes linked to SHMT2 Possible reference: Tong, J. et al. (2020) Cancer proteome and metabolite changes linked to SHMT2., PLoS One, PMID 32903271PXD004590 Dataset with its publication pending (from PRIDE) Dataset title: Characterisation of the human hemostatic O-glycoproteome Possible reference: King, SL. et al. (2017) Characterizing the O-glycosylation landscape of human plasma, platelets, and endothelial cells., Blood Adv, PMID 29296958PXD004570 Aaron R. Goldman, Benjamin G. Bitler, Zachary Schug, Jose R. Conejo-Garcia, Rugang Zhang, and David W. Speicher. The Primary Effect on the Proteome of ARID1A-Mutated Ovarian Clear Cell Carcinoma is Downregulation of the Mevalonate Pathway at the Post (from MassIVE) Dataset title: Proteome analyses of two ovarian clear cell carcinoma cell lines with or without ARID1A manipulation Possible reference: Ambati, S. et al. (2016) Adipocyte nuclei captured from VAT and SAT., BMC Obes, PMID 27462403PXD004495 Dataset with its publication pending (from PRIDE) Dataset title: Detection of Aggressive Prostate Cancer-Associated Glycoproteins in Urine using Glycoproteomics and Mass Spectrometry Possible reference: Jia, X. et al. (2016) Detection of aggressive prostate cancer associated glycoproteins in urine using glycoproteomics and mass spectrometry., Proteomics, PMID 27749016PXD004384 Jihye, et al. (submitted) (from PeptideAtlas) Dataset title: MRM analysis of serological markers for lung cancer Possible reference: Wu, HY. et al. (2015) Qualification and Verification of Serological Biomarker Candidates for Lung Adenocarcinoma by Targeted Mass Spectrometry., J Proteome Res, PMID 26120931PXD004383 Yoneyama, et al. (submitted) (from PeptideAtlas) Dataset title: SRM analysis of human plasma for pancreatic cancer diagnosis Possible reference: Yoneyama, T. et al. (2013) Quantitative targeted absolute proteomics-based large-scale quantification of proline-hydroxylated α-fibrinogen in plasma for pancreatic cancer diagnosis., J Proteome Res, PMID 23298340PXD004379 Shelly Rozen, et al., CSNAP Is a Stoichiometric Subunit of the COP9Signalosome 2015 13(3):585-598 (from PeptideAtlas) Dataset title: CSNAP is a novel subunit of the COP9 signalosome Possible reference: Barth, E. et al. (2016) The Evolution of COP9 Signalosome in Unicellular and Multicellular Organisms., Genome Biol Evol, PMID 27044515PXD004374 Kopylov, et al., submitted (from PeptideAtlas) Dataset title: Quantitative proteomics of astronaut candidates plasma Possible reference: Kopylov, AT. et al. (2016) Targeted Quantitative Screening of Chromosome 18 Encoded Proteome in Plasma Samples of Astronaut Candidates., J Proteome Res, PMID 27457493PXD004356 Dataset with its publication pending (from PRIDE) Dataset title: Defining the interactome of human adenine nucleotide translocases Possible reference: Lu, YW. et al. (2017) Human adenine nucleotide translocases physically and functionally interact with respirasomes., Mol Biol Cell, PMID 28404750PXD004263 Dataset with its publication pending (from MassIVE) Dataset title: An Anatomically Resolved Comprehensive Mouse Brain Proteome Possible reference: Seeley, EH. et al. (2014) Co-registration of multi-modality imaging allows for comprehensive analysis of tumor-induced bone disease., Bone, PMID 24487126PXD004234 79) J.G. Meyer, A.K. D?Souza, D.J. Sorensen, M.J. Rardin, A.J. Wolfe, B.W. Gibson, B. Schilling. Quantification of Lysine Acetylation and Succinylation Stoichiometry in Proteins Using Mass Spectrometric Data-Independent Acquisitions (SWATH). J. Amer. Soc. (from MassIVE) Dataset title: Quantification of Lysine Acetylation and Succinylation Stoichiometry in Proteins Using Mass Spectrometric Data-Independent Acquisitions (SWATH) Possible reference: Meyer, JG. et al. (2016) Quantification of Lysine Acetylation and Succinylation Stoichiometry in Proteins Using Mass Spectrometric Data-Independent Acquisitions (SWATH)., J Am Soc Mass Spectrom, PMID 27590315PXD004182 Dataset with its publication pending (from PRIDE) Dataset title: HCD fragmentation of glycated peptides Possible reference: Keilhauer, EC. et al. (2016) HCD Fragmentation of Glycated Peptides., J Proteome Res, PMID 27425404PXD004160 Dataset with its publication pending (from MassIVE) Dataset title: Top-down venomics Mapping proteoforms and protein complexes from king cobra venom Possible reference: Melani, RD. et al. (2016) Mapping Proteoforms and Protein Complexes From King Cobra Venom Using Both Denaturing and Native Top-down Proteomics., Mol Cell Proteomics, PMID 27178327PXD004140 Dataset with its publication pending (from PRIDE) Dataset title: Chronic p53-independent p21 expression deregulates replication licensing, leading to genomic instability Possible reference: Galanos, P. et al. (2016) Chronic p53-independent p21 expression causes genomic instability by deregulating replication licensing., Nat Cell Biol, PMID 27323328PXD004136 Dataset with its publication pending (from MassIVE) Dataset title: Post-transcriptional program governing the proteome of the green alga Micromonas pusilla Possible reference: Waltman, PH. et al. (2016) Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla., PLoS One, PMID 27434306PXD004071 Dataset with its publication pending (from PRIDE) Dataset title: Targeting tumor mitochondrial metabolism overcomes resistance to antiangiogenics Possible reference: Navarro, P. et al. (2016) Targeting Tumor Mitochondrial Metabolism Overcomes Resistance to Antiangiogenics., Cell Rep, PMID 27292634PXD004038 Dataset with its publication pending (from MassIVE) Dataset title: Lysine acetylation in Mycobacterium abscessus GZ002 Possible reference: Guo, J. et al. (2016) Identification of Lysine Acetylation in Mycobacterium abscessus Using LC-MS/MS after Immunoprecipitation., J Proteome Res, PMID 27323652PXD004009 Dataset with its publication pending (from PRIDE) Dataset title: A whole proteome inventory of background photocrosslinker binding Possible reference: Kleiner, P. et al. (2017) A Whole Proteome Inventory of Background Photocrosslinker Binding., Angew Chem Int Ed Engl, PMID 27981680PXD003862 Dataset with its publication pending (from MassIVE) Dataset title: Top-down venomics of the East African green mamba and the black mamba Possible reference: Petras, D. et al. (2016) Top-down venomics of the East African green mamba, Dendroaspis angusticeps, and the black mamba, Dendroaspis polylepis, highlight the complexity of their toxin arsenals., J Proteomics, PMID 27318176PXD003834 Dataset with its publication pending (from PRIDE) Dataset title: Role of CLRC complex in telomeric assembly of shelterin proteins Possible reference: Shi, S. et al. (2021) Ccq1-Raf2 interaction mediates CLRC recruitment to establish heterochromatin at telomeres., Life Sci Alliance, PMID 34493579PXD003741 Dataset with its publication pending (from MassIVE) Dataset title: UPJO_Discovery Possible reference: Mesrobian, HG. et al. (2013) Urinary proteome analysis in patients with stable SFU grade 4 ureteropelvic junction obstruction differs from normal., Urology, PMID 23987180PXD003704 Dataset with its publication pending (from PRIDE) Dataset title: Thermal proteome profiling of MCF-7 breast cancer cell line Possible reference: Bailey, MA. et al. (2023) Comparative Analysis of Protein Folding Stability-Based Profiling Methods for Characterization of Biological Phenotypes., J Am Soc Mass Spectrom, PMID 36802530PXD003681 Dataset with its publication pending (from MassIVE) Dataset title: Identification of CDK1 substrates in mitosis by quantitative phosphoproteomics Possible reference: Petrone, A. et al. (2016) Identification of Candidate Cyclin-dependent kinase 1 (Cdk1) Substrates in Mitosis by Quantitative Phosphoproteomics., Mol Cell Proteomics, PMID 27134283PXD003626 Dataset with its publication pending (from MassIVE) Dataset title: Transcriptomic and proteomic insights into innate immunity and adaptations to a symbiotic lifestyle in the gutless marine worm Olavius algarvensis Possible reference: Wippler, J. et al. (2016) Transcriptomic and proteomic insights into innate immunity and adaptations to a symbiotic lifestyle in the gutless marine worm Olavius algarvensis., BMC Genomics, PMID 27871231PXD003571 Dataset with its publication pending (from MassIVE) Dataset title: THP_1 and human fibroblast secretomes Possible reference: Starr, AE. et al. (2012) Biochemical characterization and N-terminomics analysis of leukolysin, the membrane-type 6 matrix metalloprotease (MMP25): chemokine and vimentin cleavages enhance cell migration and macrophage phagocytic activities., J Biol Chem, PMID 22367194PXD003481 Kai-Ting Fan, Aaron K. Rendahl, Wen-Ping Chen, Dana M. Freund, William M. Gray, Jerry D. Cohen, and Adrian D. Hegeman. Proteome scale-protein turnover analysis using high resolution mass spectrometric data from stable-isotope labeled plants. J. Proteome R (from MassIVE) Dataset title: Proteome turnover of Arabidopsis root soluble fraction Possible reference: Fan, KT. et al. (2016) Proteome Scale-Protein Turnover Analysis Using High Resolution Mass Spectrometric Data from Stable-Isotope Labeled Plants., J Proteome Res, PMID 26824330PXD003460 Dataset with its publication pending (from MassIVE) Dataset title: Using the ubiquitin-modified proteome to monitor distinct and spatially restricted protein homeostasis dysfunction Possible reference: Gendron, JM. et al. (2016) Using the Ubiquitin-modified Proteome to Monitor Distinct and Spatially Restricted Protein Homeostasis Dysfunction., Mol Cell Proteomics, PMID 27185884PXD003436 Dataset with its publication pending (from PRIDE) Dataset title: FOXE3 Contributes to Peters Anomaly through Transcriptional Regulation of an Autophagy Associated Protein termed DNAJB1 Possible reference: Khan, SY. et al. (2016) FOXE3 contributes to Peters anomaly through transcriptional regulation of an autophagy-associated protein termed DNAJB1., Nat Commun, PMID 27218149PXD003400 Dataset with its publication pending (from PRIDE) Dataset title: Filter-aided sample preparation depends on filter unit shape Possible reference: Lipecka, J. et al. (2016) Sensitivity of mass spectrometry analysis depends on the shape of the filtration unit used for filter aided sample preparation (FASP)., Proteomics, PMID 27219663PXD003369 Dataset with its publication pending (from MassIVE) Dataset title: Identification and Quantification of Site-Specific N-Glycosylation in Human Plasma Possible reference: Lee, JY. et al. (2016) Characterization of Site-Specific N-Glycopeptide Isoforms of α-1-Acid Glycoprotein from an Interlaboratory Study Using LC-MS/MS., J Proteome Res, PMID 27760464PXD003344 Robert T. Lawrence, Brian C. Searle, Ariadna Llovet, Judit Villén. Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry. Nature Methods. 2016 Mar. doi: 10.1038/nmeth.3811. (from MassIVE) Dataset title: Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry Possible reference: Lawrence, RT. et al. (2016) Plug-and-play analysis of the human phosphoproteome by targeted high-resolution mass spectrometry., Nat Methods, PMID 27018578PXD003261 Dataset with its publication pending (from PRIDE) Dataset title: Vibrio cholerae VesB Analysis-posttranslational modifications Possible reference: Gadwal, S. et al. (2018) C-terminal processing of GlyGly-CTERM containing proteins by rhombosortase in Vibrio cholerae., PLoS Pathog, PMID 30352106PXD003227 Dataset with its publication pending (from MassIVE) Dataset title: Identification and Quantification of Site-Specific N-Glycosylation in Human Plasma Possible reference: Lee, JY. et al. (2016) Characterization of Site-Specific N-Glycopeptide Isoforms of α-1-Acid Glycoprotein from an Interlaboratory Study Using LC-MS/MS., J Proteome Res, PMID 27760464PXD003119 Dataset with its publication pending (from PRIDE) Dataset title: Protein stable isotope fingerprinting (P-SIF): Chocolate Pots (Yellowstone) biomass Possible reference: Gonzalez-Nayeck, AC. et al. (2022) Absence of canonical trophic levels in a microbial mat., Geobiology, PMID 35831948PXD002923 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of Pennisetum glaucum under drought stress Possible reference: Ghatak, A. et al. (2016) Comprehensive tissue-specific proteome analysis of drought stress responses in Pennisetum glaucum (L.) R. Br. (Pearl millet)., J Proteomics, PMID 26944736PXD002791 Dataset with its publication pending (from MassIVE) Dataset title: Ubiquitin-activated interaction traps (UBAITs) identify E3 ligase binding partners Possible reference: O'Connor, HF. et al. (2015) Ubiquitin-Activated Interaction Traps (UBAITs) identify E3 ligase binding partners., EMBO Rep, PMID 26508657PXD002764 Dataset with its publication pending (from PRIDE) Dataset title: A combined proteomic and targeted analysis unravels new toxic mechanisms for zinc oxide nanoparticles in macrophages Possible reference: Aude-Garcia, C. et al. (2016) A combined proteomic and targeted analysis unravels new toxic mechanisms for zinc oxide nanoparticles in macrophages., J Proteomics, PMID 26710724PXD002730 Dataset with its publication pending (from MassIVE) Dataset title: Multicopy single-stranded DNA directs intestinal colonization of enteric pathogens Possible reference: Elfenbein, JR. et al. (2015) Multicopy Single-Stranded DNA Directs Intestinal Colonization of Enteric Pathogens., PLoS Genet, PMID 26367458PXD002719 Dataset with its publication pending (from PRIDE) Dataset title: Quantitative proteomic analysis of duck lung tissue during infection of avian influenza Possible reference: Ye, Y. et al. (2022) Differential proteome response to H5N1 highly pathogenic avian influenza (HPAI) viruses infection in duck., Front Immunol, PMID 36059479PXD002609 Dataset with its publication pending (from MassIVE) Dataset title: Quantitative Phosphoproteomics reveals new roles for PP6 in chromosome condensation and segregation Possible reference: Rusin, SF. et al. (2015) Quantitative phosphoproteomics reveals new roles for the protein phosphatase PP6 in mitotic cells., Sci Signal, PMID 26462736PXD002603 Dataset with its publication pending (from PRIDE) Dataset title: Proteomics Analyses of Mycelium and Cysts of Phytophthora capsici Possible reference: Pang, Z. et al. (2017) Quantitative proteomics links metabolic pathways to specific developmental stages of the plant-pathogenic oomycete Phytophthora capsici., Mol Plant Pathol, PMID 27019332PXD002497 Dataset with its publication pending (from MassIVE) Dataset title: Growth condition-dependent cell surface proteome analysis of Enterococcus faecium Possible reference: Sinnige, JC. et al. (2015) Growth condition-dependent cell surface proteome analysis of Enterococcus faecium., Proteomics, PMID 26316380PXD002447 Dataset with its publication pending (from MassIVE) Dataset title: Hydrophilic Interaction Chromatography Using a Meter-Scale Monolithic Silica Capillary Column Possible reference: Horie, K. et al. (2014) Hydrophilic interaction chromatography using a meter-scale monolithic silica capillary column for proteomics LC-MS., Anal Chem, PMID 24666247PXD002392 Dataset with its publication pending (from PRIDE) Dataset title: Dithiothreitol (DTT) acts as a specific, UV-inducible cross-linker in elucidation of protein-RNA interactions Possible reference: Zaman, U. et al. (2015) Dithiothreitol (DTT) Acts as a Specific, UV-inducible Cross-linker in Elucidation of Protein-RNA Interactions., Mol Cell Proteomics, PMID 26450613PXD002288 Dataset with its publication pending (from PRIDE) Dataset title: PTSD mouse amygdala proteome . Possible reference: Kao, CY. et al. (2016) Fluoxetine Treatment Rescues Energy Metabolism Pathway Alterations in a Posttraumatic Stress Disorder Mouse Model., Mol Neuropsychiatry, PMID 27606320PXD002112 Dataset with its publication pending (from PRIDE) Dataset title: Feedback circuitry between miR-218 repression and RTK activation in glioblastoma Possible reference: Mathew, LK. et al. (2015) Feedback circuitry between miR-218 repression and RTK activation in glioblastoma., Sci Signal, PMID 25943352PXD002096 Dataset with its publication pending (from PRIDE) Dataset title: The influence of simulated microgravity on the proteome of Daphnia magna Possible reference: Trotter, B. et al. (2015) The influence of simulated microgravity on the proteome of Daphnia magna., NPJ Microgravity, PMID 28725717PXD002027 Dataset with its publication pending (from PRIDE) Dataset title: Plasma membrane proteomics in the maize primary root elongation zone under water stress conditions Possible reference: Voothuluru, P. et al. (2016) Plasma membrane proteomics in the maize primary root growth zone: novel insights into root growth adaptation to water stress., Plant Cell Environ, PMID 27341663PXD002017 Dataset with its publication pending (from MassIVE) Dataset title: Proteomic Mapping of Mitochondria in Living Cells via Spatially Restricted Enzymatic Tagging Possible reference: Rhee, HW. et al. (2013) Proteomic mapping of mitochondria in living cells via spatially restricted enzymatic tagging., Science, PMID 23371551PXD002016 Dataset with its publication pending (from MassIVE) Dataset title: EMRE is an Essential Component of the Mitochondrial Calcium Uniporter Complex Possible reference: Sancak, Y. et al. (2013) EMRE is an essential component of the mitochondrial calcium uniporter complex., Science, PMID 24231807PXD002008 Dataset with its publication pending (from MassIVE) Dataset title: MS1 Peptide Ion Intensity Chromatograms in MS2 (SWATH) Data Independent Acquisitions Possible reference: Rardin, MJ. et al. (2015) MS1 Peptide Ion Intensity Chromatograms in MS2 (SWATH) Data Independent Acquisitions. Improving Post Acquisition Analysis of Proteomic Experiments., Mol Cell Proteomics, PMID 25987414PXD001748 no publication (from PeptideAtlas) Dataset title: Candidate Biomarkers for Invasive Aspergillosis, Verification Possible reference: Brasier, AR. et al. (2015) Improved Detection of Invasive Pulmonary Aspergillosis Arising during Leukemia Treatment Using a Panel of Host Response Proteins and Fungal Antigens., PLoS One, PMID 26581097PXD001746 Graaf, et al. (from PeptideAtlas) Dataset title: Signal transduction reaction monitoring deciphers site-specific PI3K-mTOR/MAPK pathway dynamics Possible reference: de Graaf, EL. et al. (2015) Signal Transduction Reaction Monitoring Deciphers Site-Specific PI3K-mTOR/MAPK Pathway Dynamics in Oncogene-Induced Senescence., J Proteome Res, PMID 26011226PXD001745 Unpublished (from PeptideAtlas) Dataset title: Automated Absolute and Relative Quantification of SRM Data Possible reference: Nasso, S. et al. (2015) Ariadne's Thread: A Robust Software Solution Leading to Automated Absolute and Relative Quantification of SRM Data., J Proteome Res, PMID 26123309PXD001711 Dataset with its publication pending (from PRIDE) Dataset title: Casein kinase 2 (CK2) phosphorylates the deubiquitylase OTUB1 at Ser16 to trigger its nuclear localisation. Possible reference: Herhaus, L. et al. (2015) Casein kinase 2 (CK2) phosphorylates the deubiquitylase OTUB1 at Ser16 to trigger its nuclear localization., Sci Signal, PMID 25872870PXD001634 Dataset with its publication pending (from MassIVE) Dataset title: KCMF1 links RAD6 to UBR4 and lysosome-mediated degradation Possible reference: Hong, JH. et al. (2015) KCMF1 (potassium channel modulatory factor 1) Links RAD6 to UBR4 (ubiquitin N-recognin domain-containing E3 ligase 4) and lysosome-mediated degradation., Mol Cell Proteomics, PMID 25582440PXD001618 Dataset with its publication pending (from PRIDE) Dataset title: Phosphatase POPX2 secretome SILAC Possible reference: Zhang, S. et al. (2017) Phosphatase POPX2 Exhibits Dual Regulatory Functions in Cancer Metastasis., J Proteome Res, PMID 27976581PXD001614 Dataset with its publication pending (from MassIVE) Dataset title: Potato Aphid Salivary Proteome: Identification of Aphid Phosphoproteins and Tomato Host Proteins Possible reference: Chaudhary, R. et al. (2015) Potato aphid salivary proteome: enhanced salivation using resorcinol and identification of aphid phosphoproteins., J Proteome Res, PMID 25722084PXD001491 Dataset with its publication pending (from PRIDE) Dataset title: The metabolic background is a global player in Saccharomyces gene expression epistasis Possible reference: Alam, MT. et al. (2016) The metabolic background is a global player in Saccharomyces gene expression epistasis., Nat Microbiol, PMID 27572163PXD001306 Dataset with its publication pending (from PRIDE) Dataset title: Cell line adaptation Changes in the proteome level during a step-wise adaptation of an adherent Madin Darby canine kidney (MDCK) cell line Possible reference: Kluge, S. et al. (2015) Monitoring changes in proteome during stepwise adaptation of a MDCK cell line from adherence to growth in suspension., Vaccine, PMID 25891398PXD001092 Dataset with its publication pending (from MassIVE) Dataset title: Extracellular Matrix Signatures of Human Primary Metastatic Colon Cancers and their Liver Metastases Possible reference: Naba, A. et al. (2014) Extracellular matrix signatures of human primary metastatic colon cancers and their metastases to liver., BMC Cancer, PMID 25037231PXD000976 Dataset with its publication pending (from PRIDE) Dataset title: Rat Neural Stem Cell Phosphoproteome Possible reference: Wang, S. et al. (2016) Quantitative Phosphoproteomic Study Reveals that Protein Kinase A Regulates Neural Stem Cell Differentiation Through Phosphorylation of Catenin Beta-1 and Glycogen Synthase Kinase 3β., Stem Cells, PMID 27097102PXD000812 Dataset with its publication pending (from PRIDE) Dataset title: Analysis of WRN protein interactome Possible reference: Abbasi, S. et al. (2019) Mapping the Ku Interactome Using Proximity-Dependent Biotin Identification in Human Cells., J Proteome Res, PMID 30585729PXD000728 Dataset with its publication pending (from PRIDE) Dataset title: Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics Possible reference: Tsai, CF. et al. (2015) Large-scale determination of absolute phosphorylation stoichiometries in human cells by motif-targeting quantitative proteomics., Nat Commun, PMID 25814448PXD000703 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic Analysis of Artemisia annua Possible reference: Lu, JJ. et al. (2012) Dihydroartemisinin-induced inhibition of proliferation in BEL-7402 cells: an analysis of the mitochondrial proteome., Mol Med Rep, PMID 22580600PXD000614 no publication (from PeptideAtlas) Dataset title: Investigation of proximal phosphorylation and lysine acetylation crosstalk Possible reference: Parker, BL. et al. (2014) Structural basis for phosphorylation and lysine acetylation cross-talk in a kinase motif associated with myocardial ischemia and cardioprotection., J Biol Chem, PMID 25008320PXD000234 Dataset with its publication pending (from PRIDE) Dataset title: Proteomic analysis of serum from Chikungunya patients Possible reference: Mishra, N. et al. (2018) Diagnosis of Zika Virus Infection by Peptide Array and Enzyme-Linked Immunosorbent Assay., mBio, PMID 29511073
Summary of results:
24805 Datasets already with an assoctiated PubMed ID
1 Datasets of status ' Aaron R. Goldman, Benjamin G. Bitler, Zachary Schug, Jose R. Conejo-Garcia, Rugang Zhang, and David W. Speicher. The Primary Effect on the Proteome of ARID1A-Mutated Ovarian Clear Cell Carcinoma is Downregulation of the Mevalonate Pathway at the Post' with a possible article found
4 Datasets of status '' with a possible article found
30 Datasets of status '' with no articles found
1 Datasets of status ', Next Generation Sequencing identifies CDH11 and MRC1 as novel translational biomarkers of kidney fibrosis' with no articles found
1 Datasets of status '. . .' with a possible article found
1 Datasets of status '. Endophyte-Promoted Phosphorus Solubilization in Populus. Frontiers in Plant Science (accepted).' with no articles found
1 Datasets of status '79) J.G. Meyer, A.K. D?Souza, D.J. Sorensen, M.J. Rardin, A.J. Wolfe, B.W. Gibson, B. Schilling. Quantification of Lysine Acetylation and Succinylation Stoichiometry in Proteins Using Mass Spectrometric Data-Independent Acquisitions (SWATH). J. Amer. Soc.' with a possible article found
1 Datasets of status 'A workflow for targeted proteomics assay development using a versatile linear ion trap. Ariana E. Shannon, Rachael N. Teodorescu, Nojoon Soon, Lilian R. Heil, Cristina C. Jacob, Philip M. Remes, Mark P. Rubinstein, Brian C. Searle
bioRxiv 2024.05.31.5968' with a possible article found
1 Datasets of status 'A. Katherine Hatstat Hannah D. Ahrendt Matthew W. Foster Leland Mayne M. Arthur Moseley S. Walter Englander Dewey G. McCafferty. Characterization of Small-Molecule-Induced Changes in Parkinson's-Related Trafficking via the Nedd4 Ubiquitin Signaling Cascad' with no articles found
1 Datasets of status 'Acar IE, Willems E, Kersten E, Keizer-Garritsen J, Kragt E, Bakker B, Galesloot TE, Hoyng CB, Fauser S, van Gool AJ, Lechanteur YTE, Koertvely E, Nogoceke E, Gloerich J, de Jonge MI, Lors-Motta L, den Hollander AI. Semi-Quantitative Multiplex Profiling o' with no articles found
1 Datasets of status 'Alessio Adamiano Stefania Scialla Francesca Carella Marialuisa Casella Serena Camerini Alessandra Quarta Alexandra Muntiu Francesca Ferrari Alberto Vitali Michele Iafisco Clara Piccirillo. Simultaneous extraction of calcium phosphates and proteins from fi' with no articles found
1 Datasets of status 'Alexander S. Dowdell, Maxwell D. Murphy, Christina Azodi, Selene K. Swanson , Laurence Florens, Shiyong Chenac & Wolfram R. Z�ckert. Comprehensive Spatial Analysis of the Borrelia burgdorferi Lipoproteome Reveals a Compartmentalization Bias Toward the B' with a possible article found
1 Datasets of status 'Andrew Frando, Vishant Boradia, Marina Gritsenko, Michael-Claude Beltejar, Le Day, David R. Sherman, Shuyi Ma, Jon M. Jacobs, Christoph Grundner. The Mycobacterium tuberculosis protein O-phosphorylation landscape. bioRxiv. Epub 2022 Feb 17. doi: https://d' with a possible article found
1 Datasets of status 'Angew. Chem. Int. Ed. 2024, e202409220' with no articles found
1 Datasets of status 'Anna Lisa Montemari, Valeria Marzano, Nour Essa, Stefano Levi Mortera, Martina Rossitto, Simone Gardini, Laura Selan, Gianluca Vrenna, Andrea Onetti Muda, Lorenza Putignani, Ersilia Vita Fiscarelli. A shaving proteomic approach to unveil surface proteins ' with no articles found
1 Datasets of status 'Banerjee D, Eng T, Lau AK, Sasaki Y, Wang B, Chen Y, Prahl J-P, Singan VR, Herbert RA, Liu Y, Tanjore D, Petzold CJ, Keasling JD, Mukhopadhyay A. Genome-scale metabolic rewiring improves titers rates and yields of the non-native product indigoidine at sca' with no articles found
1 Datasets of status 'Bhosale SD, Moulder R, Suomi T, et al (2024) Serum proteomics of mother-infant dyads carrying HLA-conferred type 1 diabetes risk. iScience 110048. https://doi.org/https://doi.org/10.1016/j.isci.2024.110048' with a possible article found
1 Datasets of status 'Bleem, Alissa; Kuatsjah, Eugene; Presley, Gerald N.; Hinchen, Daniel J.; Zahn, Michael; Garcia, David C.; Michener, William E.; Knig, Gerhard; Tornesakis, Konstantinos; Allemann, Marco N.; Giannone, Richard J.; McGeehan, John E.; Beckham, Gregg T.; Miche' with no articles found
1 Datasets of status 'Borteen T, Mller T, Krijgsveld J. An integrated workflow for quantitative analysis of the newly synthesized proteome. bioRxiv [Internet]. 2023 Jan 1;2023.03.03.530942. Available from: http://biorxiv.org/content/early/2023/03/03/2023.03.03.530942.abstrac' with no articles found
1 Datasets of status 'Brianna Bibel, Elad Elkayam, Steven Silletti, Elizabeth A Komives, and Leemor Joshua-Tor. Target binding triggers hierarchical phosphorylation of human Argonaute-2 to promote target release. eLife (in press).' with no articles found
1 Datasets of status 'Budnik B., Levy E., Harmange G., Slavov N. Mass-spectrometry of single mammalian cells quantifies proteome heterogeneity during cell differentiation. https://doi.org/10.1101/102681.' with no articles found
2 Datasets of status 'Caesar LK, Kellogg JJ, Kvalheim OM, Cech RA, Cech NB. Integration of Biochemometrics and Molecular Networking to Identify Antimicrobials in Angelica keiskei. Planta Med. 2018 Jul;84(9-10):721-728. doi: 10.1055/a-0590-5223.' with no articles found
1 Datasets of status 'Caroline Solazzo, William W. Fitzhugh. Proteomics identify bowhead whale muscle tissue and baleen in cinder residues at a 16th c. Basque whaling site. https://doi.org/10.1016/j.jasrep.2024.104691.' with no articles found
1 Datasets of status 'Chaitanya Dingare, Jenny Yang, Ben Steventon. Mannose is crucial for mesoderm specification and symmetry breaking in gastruloids. https://www.biorxiv.org/content/10.1101/2023.06.05.543730v2.full.' with no articles found
1 Datasets of status 'Chen A, Franks, A & Slavov, N. DART-ID increases single-cell proteome coverage. (submitted).; Chen A, Franks A & Slavov N. DART-ID increases single-cell proteome coverage. biorXiv, DOI: 10.1101/399121. PLOS Comp Bio (submitted).' with a possible article found
1 Datasets of status 'Christopher B. Lietz, Thomas Toneff, Charles Mosier, Sonia Podvin, Anthony J. O’Donoghue, Vivian Hook. Phosphopeptidomics Reveals Differential Phosphorylation States and Novel SxE Phosphosite Motifs of Neuropeptides in Dense Core Secretory Vesicles. J. ' with no articles found
1 Datasets of status 'Christopher, et al., submitted' with no articles found
1 Datasets of status 'Corey M. Nemec, Fan Yang, Joshua M. Gilmore, Corinna Hintermair, Yi-Hsuan Ho, Sandra C. Tseng, Martin Heidemann, Ying Zhang, Laurence Florens, Audrey P. Gasch, Dirk Eick, Michael P. Washburn, Gabriele Varani, and Aseem Z. Ansari. Different phosphoisoforms' with no articles found
1 Datasets of status 'Cruz-Mireles N, Oss-Ruiz M, Derbyshire P, Jgousse C, Ryder LS, Bautista MJ, Eseola AB, Sklenar J, Tang B, Yan X, Ma W, Findlay KC, Were V, MacLean D, Talbot NJ, Menke FLH. The phosphorylation landscape of infection-related development by the rice blast ' with a possible article found
1 Datasets of status 'Cucina, A., Schmidt, A.L., Di Gianvincenzo, F. et al. Paleoproteomic identification of the species used in fourteenth century gut-skin garments from the archaeological site of Nuulliit, Greenland. Scientific Reports 2024 14(13431). doi: 10.1038/s41598-024' with a possible article found
1 Datasets of status 'D. Salvacha, A.Z. Werner, I. Pardo, M. Michalska, B.A. Black, B.S. Donohoe, S. Haugen, R. Katahira, S. Notonier, K.J. Ramirez, S.O. Purvine, E.M. Zink, Paul Abraham, R.J. Giannone, S. Poudel, P. Laible, R.L. Hettich, G.T. Beckham. Outer membrane vesicles' with a possible article found
3116 Datasets of status 'Dataset with its publication pending' with a possible article found
7872 Datasets of status 'Dataset with its publication pending' with no articles found
1 Datasets of status 'Dhamija B, Marathe S, Sawant V, Basu M, Attrish D, Mukherjee D, Kumar S, Pai MGJ, Wad S, Sawant A, Nayak C, Venkatesh KV, Srivastava S, Barthel SR, Purwar R. IL-17A Orchestrates Reactive Oxygen Species/HIF1α-Mediated Metabolic Reprogramming in Psoriasis.' with no articles found
1 Datasets of status 'Donghua Hu, Min Tan, Dongliang Lu, Brian Kleiboeker, Xuejing Liu, Hongsuk Park, Alexxai V. Kravitz, Kooresh I. Shoghi, Yu-Hua Tseng, Babak Razani, Akihiro Ikeda, and Irfan J. Lodhi. TMEM135 Links Peroxisomes to the Regulation of Brown Fat Mitochondrial Fi' with no articles found
1 Datasets of status 'Duriez, et al. (submitted)' with no articles found
1 Datasets of status 'Eliza A. Zalis, Austin S. Nuxoll, Sylvie Manuse,G eremy Clair, Lauren C. Radlinski, Brian P. Conlon, Joshua Adkins, Kim Lewis. Stochastic Variation in Expression of the Tricarboxylic Acid Cycle Produces Persister Cells. mBio 10:e01930-19. doi: 10.1128/mBi' with no articles found
1 Datasets of status 'Gollan PJ, Trotta A, Bajwa AA, Mancini I, Aro E-M. Characterization of the Free and Membrane-Associated Fractions of the Thylakoid Lumen Proteome in Arabidopsis thaliana. Vol. 22, International Journal of Molecular Sciences . 2021.' with no articles found
1 Datasets of status 'Gonzlez-Gmez, P., Echeverria, V., Estades, C.F., Perez, J.H., Krause, J.S., Sabat, P., Li, J., Kltz, D., Wingfield, J.C. Proteome and endocrine traits in relattion to timing of stages of the annual cycle and body condition in seasonal and aseasonal env' with no articles found
1 Datasets of status 'Graaf, et al.' with a possible article found
1 Datasets of status 'Hadisurya, M., Li, L., Kuwaranancharoen, K. et al. Quantitative proteomics and phosphoproteomics of urinary extracellular vesicles define putative diagnostic biosignatures for Parkinson’s disease. Commun Med 3, 64 (2023). https://doi.org/10.1038/s43856-' with a possible article found
1 Datasets of status 'Hana Antonicka, Zhen-Yuan Lin, Alexandre Janer, Mari J. Aaltonen, Woranontee Weraarpachai, Anne-Claude Gingras, Eric A. Shoubridge. A high-density human mitochondrial proximity interaction network. Cell Metabolism (pre-acceptance).' with no articles found
1 Datasets of status 'Hartman, K.; Steiner, G.; Siegel, M.; Looney, C.M.; Hickling, T.P.; Bray-French, K.; Springer, S.; Marban-Doran, C.; Ducret, A. Expanding the MAPPs Assay to Accommodate MHC-II Pan Receptors for Improved Predictability of Potential T Cell Epitopes. accep' with no articles found
1 Datasets of status 'Hempel, B.-F.; Damm, M.; Gmen, B.; Karis, M.; Oguz, M.A.; Nalbantsoy, A.; Sssmuth, R.D. Comparative Venomics of the Vipera ammodytes transcaucasiana and Vipera ammodytes montandoni from Turkey Provides Insights into Kinship. Toxins 2018, 10 (1), 23. do' with no articles found
1 Datasets of status 'Hillestad Nel T, Peters C, Korzow Richter K, Henshilwood C, van Niekerk K, Douka K. Peptide mass fingerprinting as a tool to assess micromammal biodiversity in Pleistocene South Africa: The case of Klipdrift Shelter. Quat. Sci. Rev. 2023 Dec; 322; 108380.' with no articles found
1 Datasets of status 'Ho, T.C., Blackburn, K., Goshe, M.B., and Williamson, J.D. Identification of multiple proteins whose interaction with mannitol dehydrogenase is induced by salicylic acid: Implications for unconventional secretion. Proteomics, [O1] DOI: 10.1002/pmic.202100' with no articles found
1 Datasets of status 'J. Li, B.B. Levitan, S. Gomez-Jimenez and D. Kültz. Development of a gill assay library for ecological proteomics of threespine sticklebacks (Gasterosteus aculeatus). Mol. Cell. Proteomics (2018) in press.' with no articles found
4 Datasets of status 'Jean-Philippe Lambert, Sarah Picaud, Takao Fujisawa, Huayun Hou, Pavel Savitsky, Liis Uuskla-Reimand, Gagan D. Gupta, Hala Abdouni, Zhen-Yuan Lin, Monika Tucholska, James D.R. Knight, Beatriz Gonzalez-Badillo, Nicole St-Denis, Joseph A. Newman, Manuel St' with no articles found
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1 Datasets of status 'Jinglin L. Xie, Iryna Bohovych, Erin O.Y. Wong, Jean-Philippe Lambert, Anne-Claude Gingras, Oleh Khalimonchuk, Leah E. Cowen and Michelle D. Leach. Ydj1 governs fungal morphogenesis and stress response, and facilitates mitochondrial protein import via Mas' with no articles found
1 Datasets of status 'John D. Lapek, Jr., Mary K Lewinski, Jacob M Wozniak, John Guatelli, and David J Gonzalez. Quantitative temporal viromics of an inducible HIV-1 model yields insight to global host targets and phospho-dynamics associated with Vpr. Mol Cell Proteomics mcp.M' with a possible article found
1 Datasets of status 'Josiah Hardesty, Le Day, Jeffrey Warner, Dennis Warner, Marina Gritsenko, Aliya Asghar, Andrew Stolz, Timothy Morgan, Craig McClain, Jon Jacobs, Irina Kirpich. Hepatic Protein and Phosphoprotein Signatures of Alcohol-Associated Cirrhosis and Hepatitis. Am' with no articles found
1 Datasets of status 'Justin Sanders, Bo Wen, Paul Rudnick, Rich Johnson, Christine C. Wu, Sewoong Oh, Michael J. MacCoss, William Stafford Noble A transformer model for de novo sequencing of data-independent acquisition mass spectrometry data bioRxiv 2024.06.03.597251; doi: h' with no articles found
1 Datasets of status 'Kai-Ting Fan, Aaron K. Rendahl, Wen-Ping Chen, Dana M. Freund, William M. Gray, Jerry D. Cohen, and Adrian D. Hegeman. Proteome scale-protein turnover analysis using high resolution mass spectrometric data from stable-isotope labeled plants. J. Proteome R' with a possible article found
2 Datasets of status 'Kai-Ting Fan, Aaron K. Rendahl, Wen-Ping Chen, Dana M. Freund, William M. Gray, Jerry D. Cohen, and Adrian D. Hegeman. Proteome scale-protein turnover analysis using high resolution mass spectrometric data from stable-isotope labeled plants. J. Proteome R' with no articles found
1 Datasets of status 'Kankuri E, Finckenberg P, Leinonen J, Tarkia M, Bjrk S, Purhonen J, Kallijrvi J, Kankainen M, Soliymani R, Lalowski M, Mervaala E. Altered acylcarnitine metabolism and inflexible mitochondrial fuel utilization characterize the loss of neonatal myocardia' with no articles found
1 Datasets of status 'Kevin W. Cormier, Brett Larsen, Anne-Claude Gingras, James R. Woodgett. Interactomes of Glycogen Synthase Kinase-3 Isoforms. J. Proteome Res. 2023 (in preparation).' with no articles found
1 Datasets of status 'Kopylov, et al., submitted' with a possible article found
1 Datasets of status 'Kuchaříková H, Dobrovolná P, Lochmanová G, Zdráhal Z. Trimethylacetic anhydride-based derivatization facilitates quantification of histone marks at the MS1 level. Mol Cell Proteomics [Internet]. 2021;100114. Available from: https://www.sciencedirect' with no articles found
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1 Datasets of status 'Logan G. Johnson, Chaoyu Zhai, Kitty Brown, Jessica E. Prenni, Mahesh N. Nair., Elisabeth Huff-Lonergan, and Steven M. Lonergan. Secondary Lipid Oxidation Products as Modulators of Calpain-2 Functionality In Vitro. J. Agric. Food Chem. 2024. doi: 10.1021/' with no articles found
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2 Datasets of status 'Montaser AB, Gao F, Peters D, Vainionp K, Zhibin N, Skowronska-Krawczyk D, Figeys D, Palczewski K, Leinonen H. Retinal proteome profiling of inherited retinal degeneration across three different mouse models suggests common drug targets in retinitis pig' with a possible article found
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1 Datasets of status 'Xiaowei Gao ,Bhagyashree N. Swarge, Henk L. Dekker, Winfried Roseboom, Stanley Brul, and Gertjan Kramer. The Membrane Proteome of Spores and Vegetative Cells of the Food-Borne Pathogen Bacillus cereus. Int. J. Mol. Sci. 2021, 22(22), 12475.' with a possible article found
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