Mutation Analysis (MutSig v2.0 and MutSigCV v0.9 merged result)
Colon 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/C1W37TB7
- Overview
+ Introduction
- Summary
  • MAF used for this analysis:COAD-TP.final_analysis_set.maf

  • Significantly mutated genes (q ≤ 0.1): 14

  • Mutations seen in COSMIC: 517

  • Significantly mutated genes in COSMIC territory: 23

  • Significantly mutated genesets: 156

Mutation Preprocessing
  • Read 102 MAFs of type "Broad"

  • Read 53 MAFs of type "Baylor-SOLiD"

  • Total number of mutations in input MAFs: 62560

  • After removing 1112 invalidated mutations: 61448

  • After removing 976 noncoding mutations: 60472

  • After collapsing adjacent/redundant mutations: 60470

Mutation Filtering
  • Number of mutations before filtering: 60470

  • After removing 665 mutations outside gene set: 59805

  • After removing 171 mutations outside category set: 59634

  • After removing 9 "impossible" mutations in

  • gene-patient-category bins of zero coverage: 58789

- 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