PXD034184

PXD034184 is an original dataset announced via ProteomeXchange.

Title	Improved Profiling of Low Molecular Weight Serum Proteome for Gastric Carcinoma by Data-independent Acquisition
Description	Low molecular weight proteins (LMWPs) in the bloodstream participate in various biological processes and are closely associated with disease status, whereas identification of serous LMWPs remains a great technical challenge due to the wide dynamic range of protein components. In this study, we constructed an integrated LMWPs library by combining the LMWPs obtained by three enrichment methods (50% ACN, 20% ACN+20 mM ABC, and 30 kDa) and their fractions identified by data dependent acquisition method. With this newly constructed library, we comprehensively profiled LMWPs in serum using data-independent acquisition and reliably achieved quantitative results for 75% serous LMWPs. When applying this strategy to quantify LMWPs in human serum samples, we could identify 405 proteins on average per sample, of which 136 proteins were less than 30 kDa and 293 proteins were less than 65 kDa. Of note, pre- and post-operative gastric carcinoma (GC) patients showed differentially expressed serous LWMPs, which was also different from the pattern of LWMPs expression in healthy controls. In conclusion, our results showed that LMWPs could efficiently distinguish GC patients from healthy controls as well as between pre- and post- operative statuses, and more importantly, our newly developed LMWPs profiling platform could be used to discover candidate LMWPs biomarkers for disease diagnosis and status monitoring.
HostingRepository	PRIDE
AnnounceDate	2022-07-11
AnnouncementXML	Submission_2022-07-11_06:18:30.365.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Weifeng Li
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2022-05-29 14:06:06	ID requested
⏵ 1	2022-07-11 06:18:32	announced

Li W, Li M, Zhang X, Yue S, Xu Y, Jian W, Qin Y, Lin L, Liu W, Improved profiling of low molecular weight serum proteome for gastric carcinoma by data-independent acquisition. Anal Bioanal Chem, 414(22):6403-6417(2022) [pubmed]

submitter keyword: Low molecular weight proteins (LMWPs), data-independent acquisition (DIA), quantitative proteomics, gastric carcinoma (GC), mass spectrometer

Weifeng Li
contact affiliation	the First Affiliated Hospital of Shenzhen University
contact email	weifengli@email.szu.edu.cn
lab head
Weifeng Li
contact affiliation	the First Affiliated Hospital of Shenzhen University
contact email	weifengli@email.szu.edu.cn
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD034184
     1. Label: PRIDE project
     2. Name: Improved Profiling of Low Molecular Weight Serum Proteome for Gastric Carcinoma by Data-independent Acquisition