Genes under Selection in Tumors

Predict oncogenes (OGs), tumor suppressor genes (TSGs) and passenger genes (PGs) using somatic SNVs detected in a collection of tumors. It can classify single genes from targeted sequencing or multiple genes from whole-exome sequencing.

  • Distinguish not only drivers and passengers, but OGs vs. TSGs as well.
  • Account for contextual differences specific to the samples.
  • Quantify directional somatic selections to reduce false positive discoveries.
  • R implementation of the GUST algorithm is available at https://github.com/liliulab/gust
  • A database of pre-computed GUST classification of genes in 33 cancer types from the TCGA Project is available at https://liliulab.shinyapps.io/gust/.
Citation:

Chandrashekar P, Ahmadinejad N, Wang J, Sekulic A, Egan JB, Asmann YW, Kumar S, Mayley C, Liu L (2019) Somatic Selection Distinguishes Oncogenes and Tumor Suppressor Genes. Bioinformatics. https://academic.oup.com/bioinformatics/advance-article/doi/10.1093/bioinformatics/btz851/5625621.