Mutation Analysis (MutSig v2.0 and MutSigCV v0.9 merged result)
Colon/Rectal Adenocarcinoma (Primary solid tumor)
23 May 2013  |  analyses__2013_05_23
Maintainer Information
Citation Information
Maintained by Dan DiCara (Broad Institute)
Cite as Broad Institute TCGA Genome Data Analysis Center (2013): Mutation Analysis (MutSig v2.0 and MutSigCV v0.9 merged result). Broad Institute of MIT and Harvard. doi:10.7908/C1V122TH
- Overview
+ Introduction
- Summary
  • MAF used for this analysis:COADREAD-TP.final_analysis_set.maf

  • Significantly mutated genes (q ≤ 0.1): 20

  • Mutations seen in COSMIC: 739

  • Significantly mutated genes in COSMIC territory: 29

  • Significantly mutated genesets: 146

Mutation Preprocessing
  • Read 140 MAFs of type "Broad"

  • Read 88 MAFs of type "Baylor-SOLiD"

  • Total number of mutations in input MAFs: 91973

  • After removing 1369 invalidated mutations: 90604

  • After removing 1176 noncoding mutations: 89428

  • After collapsing adjacent/redundant mutations: 82149

Mutation Filtering
  • Number of mutations before filtering: 82149

  • After removing 855 mutations outside gene set: 81294

  • After removing 343 mutations outside category set: 80951

  • After removing 11 "impossible" mutations in

  • gene-patient-category bins of zero coverage: 79742

- Results
+ Breakdown of Mutations by Type
+ Breakdown of Mutation Rates by Category Type
+ Target Coverage for Each Individual
+ Distribution of Mutation Counts, Coverage, and Mutation Rates Across Samples
+ CoMut Plot
+ Significantly Mutated Genes
+ COSMIC analyses
+ Geneset Analyses
+ Methods & Data