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- Title
PARADIGM-SHIFT predicts the function of mutations in multiple cancers using pathway impact analysis.
- Authors
Ng, Sam; Collisson, Eric A; Sokolov, Artem; Goldstein, Theodore; Gonzalez-Perez, Abel; Lopez-Bigas, Nuria; Benz, Christopher; Haussler, David; Stuart, Joshua M
- Abstract
A current challenge in understanding cancer processes is to pinpoint which mutations influence the onset and progression of disease. Toward this goal, we describe a method called PARADIGM-SHIFT that can predict whether a mutational event is neutral, gain-or loss-of-function in a tumor sample. The method uses a belief-propagation algorithm to infer gene activity from gene expression and copy number data in the context of a set of pathway interactions.
- Publication
Bioinformatics (Oxford, England), 2012, Vol 28, Issue 18, pi640
- ISSN
1367-4811
- Publication type
Journal Article
- DOI
10.1093/bioinformatics/bts402