CPTAC Releases Largest-Ever Ovarian Cancer Proteome Dataset from Previously Genome Characterized Tumors

National Cancer Institute (NCI) Clinical Proteomic Tumor Analysis Consortium (CPTAC) scientists have just released a comprehensive dataset of the proteomic analysis of high grade serous ovarian tumor samples, previously genomically analyzed by The Cancer Genome Atlas (TCGA).  This is one of the largest public datasets covering the proteome, phosphoproteome and glycoproteome with complementary deep genomic sequencing data on the same tumor. The datasets as well as corresponding metadata are publicly available at the CPTAC Data Portal (data released on June 16, 2014).

Researchers from the Pacific Northwestern National Lab (PNNL) and Johns Hopkins University worked collaboratively to produce this comprehensive dataset.  The teams analyzed 174 TCGA samples, 32 of which were analyzed by both of the research groups.  Investigators at Johns Hopkins University analyzed the glycoproteome and proteome, while PNNL’s investigators analyzed the phosphoproteome and proteome.

Advancements in science and health care are made possible through widespread access to results from cutting-edge research, enabling scientists to use and build on this knowledge.  This principle was clearly demonstrated in the Human Genome Project, where researchers built upon the work of others to create a well-annotated collection of data resources for the community.  This latest release of proteomics data from NCI’s CPTAC program provides researchers the opportunity to develop and test novel proteogenomic integration tools and algorithms to extend our understanding of cancer biology and how genomic through proteomic changes interact to drive cancer, and identify clinical targets.

The ovarian dataset is the third large-scale data release by CPTAC investigators of tumors comprehensively characterized through deep proteomic analysis that were previously genomically analyzed by TCGA (colorectal and breast cancer datasets were released in 2013 and 2014, respectively).   The ovarian cancer proteomics data are embargoed for publications until the CPTAC global analysis paper is published or until May 26, 2015.