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 category	Data type	Data format	Data access tier
Biospecimen	Biospecimen supplement	BCR XML	Open data
Clinical	Clinical supplement	BCR XML	Open data
Copy Number Variation	Copy Number Segment	TXT	Open data
Copy Number Variation	Masked Copy Number Segment	TXT	Open data
DNA Methylation	Methylation Beta Value	TXT	Open data
Raw Sequencing Data	Aligned reads	BAM	Controlled data
Simple Nucleotide Variation	Aggregated Somatic Mutation	MAF	Controlled data
Simple Nucleotide Variation	Annotated Somatic Mutation	VCF	Controlled data
Simple Nucleotide Variation	Masked Somatic Mutation	MAF	Controlled data
Simple Nucleotide Variation	Raw Simple Somatic Mutation	VCF	Controlled data
Transcriptome profiling	Gene Expression Quantification	TXT	Open data
Transcriptome profiling	Isoform Expression Quantification	TSV	Open data
Transcriptome profiling	miRNA Expression Quantification	TSV	Open data
Biospecimen	Slide Image	SVS	Open data