PXD050425

PXD050425 is an original dataset announced via ProteomeXchange.

Title	Frontiers in Plasma Proteome Profiling Platforms: Innovations and Applications.
Description	Biomarkers play a crucial role in advancing precision medicine by enabling more targeted and individualized approaches to diagnosis and treatment. Various biofluids, including serum, plasma, cerebrospinal fluid (CSF), saliva, tears, pancreatic cyst fluids, and urine, have been identified as rich sources of potential biomarkers. In this study, our focus is on comparing workflows for plasma proteomic profiling to establish a methodology that is not only sensitive and reproducible but also applicable for large cohort studies in biomarker discovery. Our investigation revealed that the SeerProteographXT workflow outperforms other workflows in terms of plasma proteome depth, quantitative accuracy, and reproducibility while offering complete automation of sample preparation. Notably, SeerProteographXT demonstrates versatility by applying it to various types of biofluids. Additionally, the proteins quantified widely cover secretory proteins in peripheral blood, and the pathway analysis enriched with relevant components such as interleukins, tissue necrosis factors, chemokines, and B and T cell receptors provides valuable insights. These proteins, often challenging to quantify in complex biological samples, hold potential as early detection markers for various diseases, thereby contributing to the improvement of patient care quality.
HostingRepository	PRIDE
AnnounceDate	2024-07-03
AnnouncementXML	Submission_2024-07-03_03:37:28.253.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Rajesh Soni
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Bruker Daltonics timsTOF series

Revision	Datetime	Status	ChangeLog Entry
0	2024-03-06 16:05:10	ID requested
⏵ 1	2024-07-03 03:37:29	announced

10.1186/s12014-024-09497-2;

Soni RK, Frontiers in plasma proteome profiling platforms: innovations and applications. Clin Proteomics, 21(1):43(2024) [pubmed]

submitter keyword: Biomarker, SP100 Instrument, Biofluids proteome profiling, PreOmics-iST, Seer Proteograph, timstofPro2, Secretome, Plasma proteome

Rajesh Kumar Soni
contact affiliation	Proteomics and Macromolecular Crystallography Shared Resource, Columbia University Irving Medical Center, New York, US
contact email	rs3869@cumc.columbia.edu
lab head
Rajesh Soni
contact affiliation	Columbia University Medical center
contact email	rs3869@cumc.columbia.edu
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/2024/07/PXD050425

PRIDE project URI

• PRIDE
  1. PXD050425
     1. Label: PRIDE project
     2. Name: Frontiers in Plasma Proteome Profiling Platforms: Innovations and Applications.