SCR TCGA

The Cancer Genome Atlas (TCGA) is an effort to generate and distribute high-throughput molecular data from more than 20 distinct cancers. For each cancer a variety of different molecular features are profiled for tens to hundreds of individual tumors. This data is a vital resource in the on-going fight against cancer.

Through the Synapse Commons Repository (SCR) we provide access to the unrestricted TCGA data available through their data portal.  We have also standardized the clinical phenotypes to our Synapse Ontology, simplifying integrating these data with other cancer data contributed to the SCR.

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Crawling TCGA

The TCGA data is organized by cancer-type, platform or technology, and then batch.  Our crawler creates a unique layer for each cancer-type, platform, and batch in Synapse. Read this for more information.

Standardizing Clinical Phenotypes

Read here for details on accessing clinical phenotype data: Handling Clinical Phenotype Data