Tumor Suppressor Gene Status Study

Project Team

Dmitriy Sonkin, Mehedi Hassan, Denis J. Murphy, Tatiana V. Tatarinova

Project Description

Tumor suppressors play a major role in the etiology of human cancer, and typically achieve a tumor promoting effect upon complete functional inactivation. Bi-allelic inactivation of tumor suppressors may occur through genetic mechanisms (such as loss-of-function mutation, copy number (CN) loss, or loss-of-heterozygosity (LOH)), epigenetic mechanisms (such as promoter methylation or histone modification), or a combination of the two.

USW researchers studied and reports systematically derived status of 69 known or putative tumor suppressors, across 799 samples of the Cancer Cell Line Encyclopedia. In order to generate such
resource a novel comprehensive computational framework was constructed for the assessment of tumor suppressor functional “status”.

This approach utilizes several orthogonal genomic data types, including mutation data, copy number, LOH and expression. Through correlation with additional data types (compound sensitivity and gene set activity) we show that this integrative method provides a more accurate assessment of tumor suppressor status than can be inferred by expression, copy number, or mutation alone. This approach has the potential for a more realistic assessment of tumor suppressor genes for both basic and translational oncology research.

Accessing the database

You can access the database here. The work is now published in the Journal of Molecular Oncology. You can download the article from here.

Cite Us

To cite our work please use the following:

Dmitriy Sonkin, Mehedi Hassan, Denis J. Murphy, Tatiana V. Tatarinova, Tumor Suppressors Status in Cancer Cell Line Encyclopedia, Molecular Oncology, Available online 11 April 2013, ISSN 1574-7891, 10.1016/j.molonc.2013.04.001.