TCGA Data Types

Table below shows TCGA data currently available on the CGC. The table details data types and subtypes, the data format of data subtypes, and the access level of each data subtype.

Data type	Data subtype	Data format	Data Access Tier
Clinical	Clinical Data	XML	Open Data
Clinical	Biospecimen Data	XML	Open Data
Raw Sequencing Data	Aligned Reads	BAM	Controlled Data
Raw Sequencing Data	Unaligned Reads	TARGZ, TAR	Controlled Data
Raw Sequencing Data	Sequencing Tag	DGE-Tag	Open Data
Raw Sequencing Data	Sequencing Tag Counts	TXT	Open Data
Raw Microarray Data	Raw Intensities	Idat, CEL, TXT, TIF	Open and Controlled Data
Raw Microarray Data	Intensities Log2Ratio	TXT	Open Data
Raw Microarray Data	Intensities	TXT	Open Data
Raw Microarray Data	Normalized Intensities	TXT, Dat	Open and Controlled Data
Simple Nucleotide Variation	Genotypes	TXT, Dat	Controlled Data
Simple Nucleotide Variation	Simple Somatic Mutation	MAF	Open and Controlled Data
Simple Nucleotide Variation	Simple Nucleotide Variation	VCF	Controlled Data
Gene Expression	Gene Expression Quantification	TXT	Open Data
Gene Expression	miRNA Quantification	TXT	Open Data
Gene Expression	Isoform Expression Quantification	TXT	Open Data
Gene Expression	Exon Junction Quantification	TXT	Open Data
Gene Expression	Exon Quantification	TXT	Open Data
Structural Rearrangement	Structural Variation	VCF, FA	Controlled Data
DNA Methylation	Bisulfite Sequence Alignment	VCF	Controlled Data
DNA Methylation	Methylation Beta Value	TXT	Open Data
DNA Methylation	Methylation Percentage	BED	Open Data
Copy Number Variation	Copy Number Segmentation	TXT, Dat	Open Data
Copy Number Variation	Copy Number Estimate	TXT	Controlled Data
Copy Number Variation	LOH	TXT	Open Data
Copy Number Variation	Copy Number Variation	VCF	Controlled Data
Copy Number Variation	Normalized Copy Numbers	TXT	Controlled Data
Protein Expression	Protein Expression Quantification	TXT	Open Data
Other	Microsatellite Instability	FSA, TXT	Controlled Data