TCGA GRCh38 data


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More information about the data in this release can be found in the GDC Data Release Notes.

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The Cancer Genome Atlas (TCGA) is one of the richest and most complete genomics datasets and was compiled to understand the molecular basis of cancers. Data collection for TCGA began in 2006 as a joint effort by the National Cancer Institute (NCI), National Human Genome Research Institute (NHGRI), the National Institutes of Health (NIH), and the U.S. Department of Health and Human Services.

Over the past decade, TCGA has grown to contain data on 33 different tumor types and over 11,000 cases (patients). Between 50 and 1500 cases have been sampled for each tumor type. For each case, multiple samples were analyzed, using microarray technology for genome characterization, and next-generation technology for sequencing. TCGA data currently represents more than 2.5 petabytes of information and is expected to grow as new samples are processed.

This page details data within TCGA GRCh38. Nomenclature for TCGA GRCh38 is in accordance with GDC. For instance, the category Data type for legacy TCGA data is renamed Data Category for harmonized TCGA GRCh38 data. Similarly, Data subtype in legacy TCGA data is Data type in harmonized GRCh38 data. For a full list of TCGA GRCh38 data available on CAVATICA, see the table below. The table details data categories and types, the data format of data subtypes, and the access level of each data type.

Data categoryData typeData formatData access tier
BiospecimenBiospecimen supplementBCR XMLOpen data
ClinicalClinical supplementBCR XMLOpen data
Copy Number VariationCopy Number SegmentTXTOpen data
Copy Number VariationMasked Copy Number SegmentTXTOpen data
DNA MethylationMethylation Beta ValueTXTOpen data
Raw Sequencing DataAligned readsBAMControlled data
Simple Nucleotide VariationAggregated Somatic MutationMAFControlled data
Simple Nucleotide VariationAnnotated Somatic MutationVCFControlled data
Simple Nucleotide VariationMasked Somatic MutationMAFControlled data
Simple Nucleotide VariationRaw Simple Somatic MutationVCFControlled data
Transcriptome profilingGene Expression QuantificationTXTOpen data
Transcriptome profilingIsoform Expression QuantificationTSVOpen data
Transcriptome profilingmiRNA Expression QuantificationTSVOpen data
BiospecimenSlide ImageSVSOpen data