PXD059683

PXD059683 is an original dataset announced via ProteomeXchange.

Title	SpLICE: A reference database enabling in depth proteome and PTM analysis of mouse immune cells
Description	Spectral libraries fulfill multiple functions in biological and analytical applications. For biologists, these libraries provide a valuable resource to verify the presence and abundance of proteins or pathways within a selected cell type thus determine the feasibility of further experiments. Despite advances, existing libraries are incomplete and provide researchers only a limited amount of information. To address this, we introduce the Spectral Library of Immune Cells (SpLICe), a resource covering B-cells, CD4 and CD8 T-cells, macrophages and dendritic cells containing nearly 9,000 protein groups and > 100000 proteotypic peptides. Additionally, we provide data on > 20000 modified peptides (Oxidation, Phosphorylation, Methylation, Acetylation, Deamidation and N-Glycosylation) across the selected immune cell populations. SpLICe supports the quantification of more than half of total murine proteins annotated by UniProtKB/Swiss-Prot, enabling monitoring of selected proteins or pathways from Reactome pathways and Gene Ontology databases. The platform provides relative protein abundances and supports the generation of targeted mass spectrometry assays by identifying and scoring proteotypic peptides. Additionally, spectral libraries allow for deeper coverage of the proteome with minimal amounts of material, such as single-cell proteomes as well as for cell type deconvolution in single-cell proteomic experiments.
HostingRepository	PRIDE
AnnounceDate	2025-03-06
AnnouncementXML	Submission_2025-03-06_09:37:51.662.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Laxmikanth Kollipara
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	monomethylated residue; phosphorylated residue; acetylated residue; monohydroxylated residue; complex glycosylation; deamidated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-01-12 09:31:47	ID requested
⏵ 1	2025-03-06 09:37:52	announced

Dataset with its publication pending

submitter keyword: T-Cell, BMDM, PTM, Spectral library, Glycoproteomics, BMDC, CD8,SpLICE, CD4, B-Cell, Immune cells

Prof. Dr. Albert Sickmann
contact affiliation	Leibniz-Institut für Analytische Wissenschaften – ISAS – e.V. Otto-Hahn-Straße 6b 44227 Dortmund, Germany P: +49 (0)2 31.13 92-100 F: +49 (0)2 31.13 92-200 Albert.Sickmann@isas.de www.isas.de
contact email	sickmann@isas.de
lab head
Laxmikanth Kollipara
contact affiliation	Leibniz – Institut für Analytische Wissenschaften - ISAS - e.V.
contact email	laxmikanth.kollipara@isas.de
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2025/03/PXD059683

PRIDE project URI

• PRIDE
  1. PXD059683
     1. Label: PRIDE project
     2. Name: SpLICE: A reference database enabling in depth proteome and PTM analysis of mouse immune cells