Ovarian Carcinoma Somatic Mutation Analysis

We analyzed whole-exome hybrid capture Illumina sequencing (WES) ^{36 (link)} data from 214 ovarian carcinoma tumor-normal pairs previously analyzed by the TCGA consortium ^{33 (link)}. We used the program muTect (K. Cibulskis, et al., in preparation.) We have used a newer version of the program muTect than used in previous analysis of this data ^{33 (link)}. The primary improvement in the new version is a reduction in the prior that somatic mutations be at an allelic fraction of 0.5, allowing greater sensitive at low allelic-fraction mutations, such as clonal events in impure samples, or to subclonal mutations. This procedure resulted in 29,268 somatic mutations.

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Carter S.L., Cibulskis K., Helman E., McKenna A., Shen H., Zack T., Laird P.W., Onofrio R.C., Winckler W., Weir B.A., Beroukhim R., Pellman D., Levine D.A., Lander E.S., Meyerson M, & Getz G. (2012). Absolute quantification of somatic DNA alterations in human cancer. Nature biotechnology, 30(5), 413-421.

Publication 2012

Allelic Carcinoma Clonal Hybrid Mutations Ovarian carcinoma Ovarian tumor Somatic Tumor

Corresponding Organization : Broad Institute

Other organizations : University of Southern California, Harvard University, Howard Hughes Medical Institute, Dana-Farber Cancer Institute, Memorial Sloan Kettering Cancer Center

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Variable analysis

independent variables

Use of the program muTect (newer version) for somatic mutation detection

dependent variables

Number of somatic mutations detected (29,268)

control variables

Whole-exome hybrid capture Illumina sequencing (WES) data from 214 ovarian carcinoma tumor-normal pairs previously analyzed by the TCGA consortium

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