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STUDY SUMMARY

STUDY SUMMARY: TCGA Ovarian JHU Proteome

124
Cases
124
Aliquots
SUMMARY
PDC Study IdentifierPDC000113Analytical FractionProteome
Study IDba4e17a5-57b8-11e8-b07a-00a098d917f8Disease TypesOther;Ovarian Serous Cystadenocarcinoma
Study NameTCGA Ovarian JHU ProteomeProject IDCPTAC2 Retrospective
Experiment TypeiTRAQ4

Global proteome data have been acquired for 174 TCGA ovarian cancer tumor samples by 2 Proteome Characterization Centers (PCCs), Pacific Northwest National Laboratory (PNNL) and Johns Hopkins University (JHU). Both PCCs used iTRAQ (isobaric Tags for Relative and Absolute Quantification) protein quantification methods. Thirty-two of the 174 TCGA tumor samples were assayed at both sites yielding a total of 206 proteome characterizations. Glycoproteome (122 tumors) and phosphoproteome (69 tumors) analyses were also conducted, at JHU and PNNL respectively.

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

Additional processed data associated with publication for this study is available under supplementary data.

List of peptides and proteins from IDPicker - IDPicker_Proteome_PNNL_JHU.xlsx


Common Data Analysis Pipeline (PDC Harmonization) data
Data CategoryFiles (n=4404)
Raw Mass Spectra (Proprietary)1100
Processed Mass Spectra (Open Standard)1100
Peptide Spectral Matches (Open Standard)1100
Peptide Spectral Matches (Text)1100
Protein Assembly (Text)4
Supplementary data
Data CategoryFiles (n=8)
Other Metadata (Document)7
Publication Supplementary Material (Document)1
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Data Analysis pipeline (CDAP) through heatmaps
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