Open-Access Validated Somatic Mutation Data

Data tables used for identifying significantly mutated genes described in the 2008 GBM manuscript

• Level 3 - Somatic Mutations: Somatic mutations summarized from all centers using the 09/09/08 TCGA GBM Publication Data Freeze. Non-silent mutations were validated by orthogonal methods (genotype assay or alternative sequencing method) or verified by independent PCR amplification and sequencing. Silent mutations were validated, verified or manually reviewed. Download: [.maf] [.xls]
• Level 4 - Significance Across Samples: statistical significance for each gene WRT somatic mutation counts in Level 3 data (represented as p- and q-values). Download: [.xls]

Latest summarized somatic mutation data

• Level 3 - Somatic Mutations as of 08/28/2008: all validated somatic mutations summarized for all centers up to 08/28/2008. Duplicate entries from the same sample assayed by multiple centers were removed. Download: [.maf] [.xls]

Additional Information

• All GBM Publication Mutations: Controlled-access mutations that include germ-line, somatic, and LOH: [Broad] [Baylor] [WashU]
• The latest controlled-access mutations can be found by entering 'maf' in the File Name field on the Find Archives search page
• Descriptions of TCGA data levels are provided in the TCGA Data Primer
• Descriptions of column headers [coming soon]

Note: Some Windows machines may attempt to use Microsoft Access to open maf files. If this happens to you, please right-click the maf file and choose "Open With..." to select the appropriate application to use for opening the file.