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Clin Genet. 2011 Aug;80(2):127-32. doi: 10.1111/j.1399-0004.2011.01713.x. Epub 2011 Jun 13.

Strategies for exome and genome sequence data analysis in disease-gene discovery projects.

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1
Institute for Medical Genetics and Human Genetics, Charité-Universitätsmedizin Berlin, Berlin, Germany. peter.robinson@charite.de

Abstract

In whole-exome sequencing (WES), target capture methods are used to enrich the sequences of the coding regions of genes from fragmented total genomic DNA, followed by massively parallel, 'next-generation' sequencing of the captured fragments. Since its introduction in 2009, WES has been successfully used in several disease-gene discovery projects, but the analysis of whole-exome sequence data can be challenging. In this overview, we present a summary of the main computational strategies that have been applied to identify novel disease genes in whole-exome data, including intersect filters, the search for de novo mutations, and the application of linkage mapping or inference of identity-by-descent (IBD) in family studies.

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