PXD034838-1

PXD034838 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Proteomic analysis of prostate cancer FFPE samples reveals markers of disease progression and aggressiveness
Description	Prostate cancer (PCa) is the second most common cancer in men. Diagnosis and risk assessment are widely based on serum Prostate Specific Antigen (PSA) and biopsy which have low accuracy. Towards the discovery of biomarkers for better patient stratification, we performed proteomic analysis of Formalin Fixed Paraffin Embedded (FFPE) prostate tissue specimens following optimized sample preparation protocol and LC-MS/MS. Comparative analysis of 86 PCa samples among grade groups 1-5 identified 301 differentially expressed proteins involved in metabolism, angiogenesis, response to stress and cytoskeleton organization. Additional analysis based on biochemical recurrence (BCR; BCR+ n=14, BCR- n=51) revealed 197 differentially expressed proteins that indicate disease persistence. Filtering the overlapping proteins of these analyses, seven proteins (NPM1, UQCRH, HSPA9, MRPL3, VCAN, SERBP1, HSPE1) had increased expression in advanced grades and in BCR+/BCR- and may play a critical role in PCa aggressiveness and persistence. Notably, our observations for NPM1, UQCRH and VCAN were validated in The Cancer Genome Atlas (TCGA), where they were upregulated in BCR+/BCR-. UQCRH levels were also associated with 5-year survival. Our study provides valuable insights on the key regulators of PCa progression and aggressiveness. The seven selected proteins could be used for the development of risk assessment tools.
HostingRepository	MassIVE
AnnounceDate	2022-08-01
AnnouncementXML	Submission_2022-08-01_12:19:59.600.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Vasiliki
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationList	iodoacetamide - site C; S-carboxamidomethyl-L-cysteine
Instrument	Q Exactive

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-22 08:49:02	ID requested
⏵ 1	2022-08-01 12:19:59	announced

Publication List

no publication

no publication

Keyword List

submitter keyword: Prostate cancer, proteomics, biochemical recurrence, biomarkers, FFPE samples, geLC-MS/MS

submitter keyword: Prostate cancer, proteomics, biochemical recurrence, biomarkers, FFPE samples, geLC-MS/MS

Contact List

Antonia Vlahou
contact affiliation	Biomedical Research Foundation, Academy of Athens
contact email	vlahoua@bioacademy.gr
lab head
Vasiliki
contact affiliation	Biomedical Research Foundation, Academy of Athens
contact email	vlygirou@bioacademy.gr
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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MassIVE dataset 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://massive.ucsd.edu/MSV000089707/