Cancer genome data @

The Progenetix database provides an overview of mutation data in cancer, with a focus on copy number abnormalities (CNV / CNA), for all types of human malignancies. The data is based on individual sample data from currently 145265 samples.
Example for aggregated CNV data in 94 samples in Huang S, Gulzar ZG et al. (2012): Recurrent deletion of CHD1 in prostate....
Here the frequency of regional copy number gains and losses are displayed for all 22 autosomes.
Progenetix Use Cases

Local CNV Frequencies

A typical use case on Progenetix is the search for local copy number aberrations - e.g. involving a gene - and the exploration of cancer types with these CNVs. The [ Search Page ] provides example use cases for designing queries. Results contain basic statistics as well as visualization and download options.

Cancer CNV Profiles

The progenetix resource contains data of 834 different cancer types (NCIt neoplasm classification), mapped to a variety of biological and technical categories. Frequency profiles of regional genomic gains and losses for all categories (diagnostic entity, publication, cohort ...) can be accessed through the [ Cancer Types ] page with direct visualization and options for sample retrieval and plotting options.

Cancer Genomics Publications

Through the [ Publications ] page Progenetix provides annotated references to research articles from cancer genome screening experiments (WGS, WES, aCGH, cCGH). The numbers of analyzed samples and possible availability in the Progenetix sample collection are indicated.