Ovarian Cancer (TCGA)

Ovarian Cancer

Integrated analysis of genetic alterations in a large set of high-grade serous ovarian cancer samples from The Cancer Genome Atlas (TCGA) project

The Cancer Genome Atlas Project is an NIH-sponsored program to systematically catalog the genetic alterations in human cancers. The second cancer type investigated was Serous Ovarian Cancer.

Below are the results of our detailed pathway analysis, as reported in: Integrated genomic analyses of ovarian carcinoma (29 June 2011, Nature). The Cancer Genome Atlas Research Network. [Abstract] [PDF] [Supplementary information].



To determine pathway alteration frequencies, gene alterations were defined by homozygous deletion, amplification, significant up- or down-regulation (for some genes), or by somatic non-synonymous mutations. A given tumor was considered altered if at least one gene in the pathway was altered. Mutations in genes known to be frequently deleted or down-regulated were considered as inactivating mutations (shades of blue in the figures), while mutations in genes known to be frequently amplified or up-regulated were considered as activating mutations (shades of red).

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The CGDS R-package has been released.

NetBox version 1 has been released.

The Cancer Genome Atlas has announced the selection of six Genome Data Analysis Centers.


Mutual exclusivity analysis identifies oncogenic network modules. Genome Res. 2011 Sep 9. [Abstract] [PDF]

Integrated genomic analyses of ovarian carcinoma. Nature. 2011 Jun 29. [Abstract] [Full Text] [PDF]

Pathway Commons, a web resource for biological pathway data. Nucleic Acids Res.. 2011 Jan (Database issue). [Abstract] [Full Text] [PDF]

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