INVEX – Web-based tool for INtegrative Visualization of EXpression data

INVEX

:: DESCRIPTION

INVEX is a novel web-based tool that integrates the server-side capabilities for data analysis with the browse-based technology for data visualization.

::DEVELOPER

the Hancock Lab at The University of British Columnbia.

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • web browser

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation:

Bioinformatics. 2013 Dec 15;29(24):3232-4. doi: 10.1093/bioinformatics/btt562. Epub 2013 Sep 26.
INVEX–a web-based tool for integrative visualization of expression data.
Xia J1, Lyle NH, Mayer ML, Pena OM, Hancock RE.

InVEx – Ascertain Genes with a Somatic Mutation Distribution showing evidence of Positive Selection for non-silent Mutations

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