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PXD015908

PXD015908 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleIntegrated Proteogenomic Characterization of Human High-Grade Serous Ovarian Cancer
DescriptionExplore This Study at the NCI Proteomic Data Commons

Zhang H, Liu T, Zhang Z, Payne SH, Zhang B, McDermott JE et al., Cell (2016), DOI: 10.1016/j.cell.2016.05.069, Published online June 29, 2016.

To provide a detailed analysis of the molecular components and underlying mechanisms associated with ovarian cancer, we performed a comprehensive mass-spectrometry-based proteomic characterization of 174 ovarian tumors previously analyzed by The Cancer Genome Atlas (TCGA), of which 169 were high-grade serous carcinomas (HGSCs). Integrating our proteomic measurements with the genomic data yielded a number of insights into disease, such as how different copy-number alternations influence the proteome, the proteins associated with chromosomal instability, the sets of signaling pathways that diverse genome rearrangements converge on, and the ones most associated with short overall survival. Specific protein acetylations associated with homologous recombination deficiency suggest a potential means for stratifying patients for therapy. In addition to providing a valuable resource, these findings provide a view of how the somatic genome drives the cancer proteome and associations between protein and post-translational modification levels and clinical outcomes in HGSC.

Information on the complete TCGA Ovarian Serous Cystadenocarcinoma (OV) cohort can be found here.
The Cancer Genome Atlas Research Network published on the Genomic characterization of the OV cohort in Nature on June 30, 2011

Genomic data for the 174 TCGA samples used in the CPTAC Proteome study can be downloaded from here.

Peptide-Spectrum-Matches and Protein Reports from the CPTAC Common Data Analysis Pipeline (CDAP) can be downloaded from here.

HostingRepositoryMassIVE
AnnounceDate2020-01-23
AnnouncementXMLSubmission_2020-01-23_16:38:40.xml
DigitalObjectIdentifier
ReviewLevelNon peer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterChristopher Kinsinger
SpeciesList scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606;
ModificationListiTRAQ4plex; Phospho
InstrumentLTQ Orbitrap Velos; Q Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-10-18 09:00:16ID requested
12020-01-23 16:38:41announced
Publication List
no publication
Keyword List
submitter keyword: CPTAC
Contact List
Richard Smith
contact affiliationPacific Northwest National Laboratory
contact emaildick.smith@pnnl.gov
lab head
Hui Zhang
contact affiliationAssociate Prosfessor, Johns Hopkins University, Department of Pathology Baltimore USA
contact emailhzhang32@jhmi.edu
lab head
Christopher Kinsinger
contact affiliationNIH/NCI
contact emailChristopher.kinsinger@nih.gov
dataset submitter
Full Dataset Link List
MassIVE dataset URI
Dataset FTP location
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