Distinguishing the driver mutations from somatic mutations in a tumor genome is one of the major challenges of cancer research. This challenge is more acute and far from solved for non-coding mutations. OncodriveFML is a method designed to analyze the pattern of somatic mutations across tumors in both coding and non-coding genomic regions to identify signals of positive selection, and therefore, their involvement in tumorigenesis. We describe the method and illustrate its usefulness to identify protein coding genes, promoters, untranslated regions, intronic splice regions, and lncRNAs-containing driver mutations in several malignancies in the article Mularoni et al., Genome Biology 2016 (read online).

This web provides the option to easily run OncodriveFML on the web. If you prefer to download the code an run it locally you can get the source code from our git repository.

Lung Adenocarcinoma (LUAD)

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Somatic mutations of lung adenocarcinoma (LUAD) from whole-exome sequencing of 225 samples. Source: syn300013

Sun-exposed eyelid epidermis (234 biopsies)

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Somatic mutations detected in a panel of 74 cancer genes sequenced at high coverage across 234 biopsies of sun-exposed epidermis. Source: Martincorena et al (2015)

Acute myeloid leukemia (LAML)

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Somatic mutations of Acute myeloid leukemia (LAML) from whole-exome sequencing of 190 samples. Source: syn30001