PXD054649-1

PXD054649 is an original dataset announced via ProteomeXchange.

Title	Of mice and models: Investigating proteogenomic divergence in patient-derived xenograft models of ovarian cancer
Description	- Within ovarian cancer research, patient-derived xenograft (PDX) models recapitulate histologic features and genomic aberrations found in original tumors. However, conflicting data from published studies have demonstrated significant transcriptional differences between PDXs and original tumors, which challenges the fidelity of these models. We employed a quantitative mass spectrometry-based proteomic approach coupled with the generation of patient-specific databases using RNA-seq data to investigate the proteogenomic landscape of serially-passaged PDX models established from two patients with distinct subtypes of ovarian cancer.
HostingRepository	PRIDE
AnnounceDate	2025-04-07
AnnouncementXML	Submission_2025-04-07_10:06:58.645.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jesenia Perez
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-06 12:30:12	ID requested
⏵ 1	2025-04-07 10:06:59	announced

10.1038/s41598-024-84874-3;

Perez JM, Duda JM, Ryu J, Shetty M, Mehta S, Jagtap PD, Nelson AC, Winterhoff B, Griffin TJ, Starr TK, Thomas SN, Investigating proteogenomic divergence in patient-derived xenograft models of ovarian cancer. Sci Rep, 15(1):813(2025) [pubmed]

submitter keyword: proteogenomics, proteomics, mass spectrometry,patient-derived xenograft models (PDX), ovarian cancer

Stefani N. Thomas
contact affiliation	Department of Laboratory Medicine and Pathology, University of Minnesota
contact email	stefanit@umn.edu
lab head
Jesenia Perez
contact affiliation	University of Minnesota
contact email	perez888@umn.edu
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/2025/04/PXD054649

PRIDE project URI

• PRIDE
  1. PXD054649
     1. Label: PRIDE project
     2. Name: Of mice and models: Investigating proteogenomic divergence in patient-derived xenograft models of ovarian cancer