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. 2011 May 23:2011:bar018.
doi: 10.1093/database/bar018. Print 2011.

Data mining using the Catalogue of Somatic Mutations in Cancer BioMart

Rebecca Shepherd  1 , Simon A Forbes, David Beare, S Bamford, Charlotte G Cole, Sari Ward, Nidhi Bindal, Prasad Gunasekaran, Mingming Jia, Chai Yin Kok, Kenric Leung, Andrew Menzies, Adam P Butler, Jon W Teague, Peter J Campbell, Michael R Stratton, P Andrew Futreal
Affiliations

Data mining using the Catalogue of Somatic Mutations in Cancer BioMart

Rebecca Shepherd et al. Database (Oxford). .

Abstract

Catalogue of Somatic Mutations in Cancer (COSMIC) (http://www.sanger.ac.uk/cosmic) is a publicly available resource providing information on somatic mutations implicated in human cancer. Release v51 (January 2011) includes data from just over 19,000 genes, 161,787 coding mutations and 5573 gene fusions, described in more than 577,000 tumour samples. COSMICMart (COSMIC BioMart) provides a flexible way to mine these data and combine somatic mutations with other biological relevant data sets. This article describes the data available in COSMIC along with examples of how to successfully mine and integrate data sets using COSMICMart. DATABASE URL: http://www.sanger.ac.uk/genetics/CGP/cosmic/biomart/martview/.

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Figures

Figure 1.
Figure 1.
Example of how COSMICMart can be queried. This query searches for all cell lines with missense substitution mutations in the BRAF gene (A). Attributes can be selected (B) to display in the results table (C).
Figure 2.
Figure 2.
The COSMIC sample (A) and mutation (B) summary pages are linked directly from COSMICMart output table.
See this image and copyright information in PMC

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