PXD061482

PXD061482 is an original dataset announced via ProteomeXchange.

Title	Combination of extraction by acetonitrile and trichloroacetic acid with dithiothreitol increases plasma low molecular weight proteome coverage
Description	Low molecular weight (LMW) proteins, protein fragments and peptides in the peripheral circulation can serve as potential clinical diagnostic makers, however the coverage of the mass spectrometry-based plasma or serum LMW proteomic analysis is limited. We found that different high concentrations of acetonitrile and 10% trichloroacetic acid (TCA) with or without DTT in the plasma extracts resulted in identification of distinct subsets of peptides in the proteomic analyses. Here we used 60% and 80% acetonitrile and 10% TCA in the absence or presence of DTT respectively to extract the plasma, and combined the six extracted samples, followed by basic pH RPLC fractionation for in-depth proteomics analysis. This approach led to profiling of 5890 peptides and 820 proteins (including those usually present in plasma at low levels), significantly expanding the current plasma LMW proteome coverage for potential clinical biomarker discovery.
HostingRepository	iProX
AnnounceDate	2025-03-05
AnnouncementXML	Submission_2025-03-04_21:38:19.295.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Bing Bai
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2025-03-04 21:38:01	ID requested
⏵ 1	2025-03-04 21:38:19	announced

Dataset with its publication pending

submitter keyword: Plasma, low molecular weight proteome, peptidome, proteome, LC-MS/MS, acetonitrile, trichloroacetic acid, dithiothreitol

Bing Bai
contact affiliation	Nanjing University
contact email	bing.bai@nju.edu.cn
lab head
Bing Bai
contact affiliation	Nanjing University
contact email	bing.bai@nju.edu.cn
dataset submitter

iProX dataset URI