Mutation Analysis (MutSig v1.5)
Prostate 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 v1.5). Broad Institute of MIT and Harvard. doi:10.7908/C1QZ281R
- Overview
+ Introduction
- Summary
  • MAF used for this analysis:PRAD-TP.final_analysis_set.maf

  • Significantly mutated genes (q ≤ 0.1): 7

  • Mutations seen in COSMIC: 26

  • Significantly mutated genes in COSMIC territory: 6

  • Genes with clustered mutations (≤ 3 aa apart): 11

  • Significantly mutated genesets: 2

  • Significantly mutated genesets: (excluding sig. mutated genes):0

Mutation Preprocessing
  • Read 83 MAFs of type "Broad"

  • Total number of mutations in input MAFs: 5917

  • After removing 18 mutations outside chr1-24: 5899

  • After removing 602 blacklisted mutations: 5297

  • After removing 219 noncoding mutations: 5078

Mutation Filtering
  • Number of mutations before filtering: 5078

  • After removing 135 mutations outside gene set: 4943

  • After removing 4 mutations outside category set: 4939

- 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
+ Needs description.
+ CoMut Plot
+ Significantly Mutated Genes
+ COSMIC analyses
+ Clustered Mutations
+ Geneset Analyses
+ Methods & Data