PXD041005-1

PXD041005 is an original dataset announced via ProteomeXchange.

Title	Proteomic-based computational stratification of intermediate-risk prostate cancer patients.
Description	Gleason grading is an important prognostic indicator for prostate adenocarcinoma and is crucial for patient treatment decisions. However, intermediate-risk patients diagnosed in Gleason Grade Groups (GG) 2 and GG3 can harbour either aggressive or non-aggressive disease, resulting in under- or over-treatment of a significant number of patients. Here, we performed proteomic, differential expression, machine learning, and survival analyses for 1,348 matched tumour and benign samples from 278 patients. Three proteins (F5, TMEM126B and EARS2) were identified as candidate biomarkers in patients with biochemical recurrence. Multivariate Cox regression yielded 18 proteins, from which a risk score was constructed to dichotomise prostate cancer patients into low- and high-risk groups. This 18-protein signature is prognostic for the risk of biochemical recurrence and completely independent of the intermediate GG. Our results suggest that markers generated by computational proteomic profiling have the potential for clinical applications including integration into prostate cancer management.
HostingRepository	PRIDE
AnnounceDate	2023-12-04
AnnouncementXML	Submission_2023-12-03_21:21:55.424.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zainab Noor
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	TripleTOF 6600

Revision	Datetime	Status	ChangeLog Entry
0	2023-03-21 07:07:02	ID requested
⏵ 1	2023-12-03 21:21:55	announced

Dataset with its publication pending

submitter keyword: Survival analysis, Mass spectrometry, SWATH-MS, Data analysis,Prostate adenocarcinoma, Gleason grading

Qing Zhong
contact affiliation	ProCan, Children's Medical Research Institute, University of Sydney
contact email	qzhong@cmri.org.au
lab head
Zainab Noor
contact affiliation	ProCan, Children's Medical Research Institute, Faculty of Medicine and Health, The University of Sydney, Westmead, New South Wales, Australia
contact email	znoor@cmri.org.au
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/2023/11/PXD041005

PRIDE project URI

• PRIDE
  1. PXD041005
     1. Label: PRIDE project
     2. Name: Proteomic-based computational stratification of intermediate-risk prostate cancer patients.