Mutation Analysis (MutSig v2.0 and MutSigCV v0.9 merged result)
Thyroid Adenocarcinoma (Primary solid tumor)
23 September 2013  |  analyses__2013_09_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/C1V69GZN
- Overview
+ Introduction
- Summary
  • MAF used for this analysis:THCA-TP.final_analysis_set.maf

  • Significantly mutated genes (q ≤ 0.1): 7

  • Mutations seen in COSMIC: 312

  • Significantly mutated genes in COSMIC territory: 9

  • Significantly mutated genesets: 91

Mutation Preprocessing
  • Read 401 MAFs of type "Broad"

  • Total number of mutations in input MAFs: 7430

  • After removing 2 mutations outside chr1-24: 7428

  • After removing 61 noncoding mutations: 7367

  • After collapsing adjacent/redundant mutations: 6995

Mutation Filtering
  • Number of mutations before filtering: 6995

  • After removing 256 mutations outside gene set: 6739

  • After removing 3 mutations outside category set: 6736

- 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
+ Lego Plots
+ CoMut Plot
+ Significantly Mutated Genes
+ COSMIC analyses
+ Geneset Analyses
+ Methods & Data