SSA-ME Detection of cancer driver genes using mutual exclusivity by small subnetwork analysis.

ABSTRACT: Because of its clonal evolution a tumor rarely contains multiple genomic alterations in the same pathway as disrupting the pathway by one gene often is sufficient to confer the complete fitness advantage. As a result, many cancer driver genes display mutual exclusivity across tumors. However, searching for mutually exclusive gene sets requires analyzing all possible combinations of genes, leading to a problem which is typically too computationally complex to be solved without a stringent a priori filtering, restricting the mutations included in the analysis. To overcome this problem, we present SSA-ME, a network-based method to detect cancer driver genes based on independently scoring small subnetworks for mutual exclusivity using a reinforced learning approach. Because of the algorithmic

SUBMITTER: Pulido-Tamayo S 

PROVIDER: S-EPMC5093737 | biostudies-literature | 2016 Nov

REPOSITORIES: biostudies-literature