TCGA Copy Number Portal (TCGA)

This portal is designed to facilitate the use and understanding of high resolution copy number data amassed from cancer samples in the TCGA. All data in this portal were generated at the Broad Institute TCGA Genome Characterization Center. This portal is modeled after the original Tumorscape web site which contained copy number data from non-TCGA projects (Beroukhim et al., 2010), now available here under '2011-02-01 Tumorscape'.)


Gene-Centric GISTIC Analyses

Genes (including miRNAs) can be individually queried by Gene Symbol here. The available data include:

  1. A summary statement of the significance of copy number alterations affecting that gene or transcript.
  2. For amplifications and deletions separately, a table representing the results of GISTIC analyses pertaining to that gene across the entire dataset and within cancer types that are well-represented in the dataset.
  3. Clicking on the chromosome region links displayed on the analyses pages will launch the Integrative Genomics Viewer (IGV) on the data for that region.

More details on available analyses    More details on gene-centric analyses    Explore data by gene now


Cancer-Centric GISTIC Analyses

Cancer types can be individually queried here. The available data include:

  1. A summary statement of the number of specimens analyzed.
  2. For amplifications and deletions separately, a table representing the results of GISTIC analyses pertaining to that cancer type. The significantly aberrant peak regions of the genome are listed.
  3. Clicking on the chromosome region links displayed on the analyses pages will launch the Integrative Genomics Viewer (IGV) on the data for that region.

More details on available analyses    More details on cancer-centric analyses    Explore data by cancer type now

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