Performance of microarray and liquid based capture methods for target enrichment for massively parallel sequencing and SNP discovery.

ABSTRACT: Targeted sequencing is a cost-efficient way to obtain answers to biological questions in many projects, but the choice of the enrichment method to use can be difficult. In this study we compared two hybridization methods for target enrichment for massively parallel sequencing and single nucleotide polymorphism (SNP) discovery, namely Nimblegen sequence capture arrays and the SureSelect liquid-based hybrid capture system. We prepared sequencing libraries from three HapMap samples using both methods, sequenced the libraries on the Illumina Genome Analyzer, mapped the sequencing reads back to the genome, and called variants in the sequences. 74-75% of the sequence reads originated from the targeted region in the SureSelect libraries and 41-67% in the Nimblegen libraries. We could sequence up

SUBMITTER: Kiialainen A 

PROVIDER: S-EPMC3036585 | biostudies-literature | 2011 Feb

REPOSITORIES: biostudies-literature