Feb 162013
 

InVEx

:: DESCRIPTION

InVEx (Introns Vs Exons) is a permutation-based method for ascertaining genes with a somatic mutation distribution showing evidence of positive selection for non-silent mutations. The method was developed for use in cancer genomics studies, with particular relevance to high mutation rate cancers. Mutations are permuted on a per-patient, per-trinucleotide-context basis across the exons, introns and UTRs of a gene, generating a null model of the distribution of mutations to which the observed distribution can be compared to determine statistical significance. Significant genes are of interest, as their somatic mutation is likely to be important in the formation of the cancer being studied. The method can operate on whole exome as well as whole genome sequencing data.

::DEVELOPER

Broad Institute

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Linux / Windows / Mac OsX
  • Python
  • R package

:: DOWNLOAD

 InVEx

:: MORE INFORMATION

Citation:

Hodis and Watson et al
A Landscape of Driver Mutations in Melanoma
Cell, Volume 150, Issue 2, 251-263, 20 July 2012

219 views

Sorry, the comment form is closed at this time.