UCSC XenaXena

Explore TCGA, GDC, and other public cancer genomics resources

Mary Goldman6 March 2019

Discover new trends and validate your findings with 1500+ datasets and 50+ cancer types.

We provide interactive online visualization of seminal cancer genomics datasets, including data from The Cancer Genome Atlas (TCGA), International Cancer Genome Consortium (ICGC), Genomic Data Commons (GDC), and UCSC RNA-seq compendium.

Xena supports virtually any functional genomics data, including SNVs, INDELs, large structural variants, copy number variation, gene-, transcript-, exon-, miRNA-, LncRNA-, protein-expressions, DNA methylation, ATAC-seq signals, phenotypic annotations, and higher-level derived genomic parameters.

Public Xena Hubs Samples Data Types
TCGA 12,470 copy number, gene-, exon-, miRNA-, and protein-expression, somatic mutation, DNA methylation, survival, and clinical data
Pan-Cancer Atlas 12,591 copy number, gene-, miRNA-, and protein-expression, somatic mutation, DNA methylation, molecular subtypes, multiple curated survival endpoints
ICGC 17,697 copy number, gene expression, somatic mutation
UCSC RNA-seq compendium 19,131 TCGA, TARGET, and GTEx gene- and transcript-expression
GDC 20,157 TCGA and TARGET copy number, somatic mutations, gene- and miRNA-expression, DNA methylation, overall survival, and clinical data
TCGA ATAC-seq 404  ATAC-seq peak signal
Collected from the literature * various, study-dependent

Table: Summary of data hosted on Public Xena Hubs as of October 26, 2018.

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