PXD051029

PXD051029 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Unveiling Endogenous Serum Peptides as Potential Biomarkers for Hepatocellular Carcinoma in Patients with Liver Cirrhosis
Description	In this study, we used a comprehensive approach involving endogenous peptidome along with bioinformatics analysis, to identify and evaluate potential biomarkers for HCC. Serum samples from 40 subjects, comprising 20 HCC cases and 20 patients with liver cirrhosis (CIRR), were analyzed. Among 2568 endogenous peptides, 68 showed significant differential expression between the HCC vs. CIRR. Further analysis revealed three endogenous peptides (VMHEALHNHYTQKSLSLSPG, NRFTQKSLSLSPG, and SARQSTLDKEL) that showed far better performance compared to AFP in terms of area under the receiver operating characteristic curve (AUC), showcasing their potential as biomarkers for HCC. Additionally, endogenous peptide IAVEWESNGQPENNYKT that belongs to precursor protein Immunoglobulin heavy constant gamma 4, was detected in 100% of the HCC group and completely absent in all samples of the CIRR group, suggesting a promising diagnostic biomarker. Gene ontology and pathway analysis revealed the potential involvement of these dysregulated peptides in HCC.
HostingRepository	PRIDE
AnnounceDate	2025-05-06
AnnouncementXML	Submission_2025-05-06_14:13:31.212.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Habtom Ressom
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2024-03-27 15:03:36	ID requested
⏵ 1	2025-05-06 14:13:32	announced

Publication List

10.1021/acs.jproteome.4c00269;
Sajid MS, Ding Y, Varghese RS, Kroemer A, Ressom HW, Unveiling Endogenous Serum Peptides as Potential Biomarkers for Hepatocellular Carcinoma in Patients with Liver Cirrhosis. J Proteome Res, 23(9):3974-3983(2024) [pubmed]

10.1021/acs.jproteome.4c00269;

Sajid MS, Ding Y, Varghese RS, Kroemer A, Ressom HW, Unveiling Endogenous Serum Peptides as Potential Biomarkers for Hepatocellular Carcinoma in Patients with Liver Cirrhosis. J Proteome Res, 23(9):3974-3983(2024) [pubmed]

Keyword List

submitter keyword: nano-LC-MS/MS,Liver cancer, Endogenous Peptides, Serum, Biomarker

submitter keyword: nano-LC-MS/MS,Liver cancer, Endogenous Peptides, Serum, Biomarker

Contact List

Habtom Ressom
contact affiliation	Georgetown University Medical Center
contact email	hwr@georgetown.edu
lab head
Habtom Ressom
contact affiliation	Georgetown University
contact email	hwr@georgetown.edu
dataset submitter

Full Dataset Link List

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/2025/05/PXD051029
PRIDE project URI

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/2025/05/PXD051029

PRIDE project URI

Repository Record List

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