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Assessing the Enrichment Performance in Targeted Resequencing Experiments

Assessing the Enrichment Performance in Targeted Resequencing Experiments Target enrichment strategies are a very common approach to sequence a predefined part of an individual's genome using second‐generation sequencing technologies. While highly dependent on the technology and the target sequences selected, the performance of the various assays is also variable between samples and is influenced by the way how the libraries are handled in the laboratory. Here, we show how to find detailed information about the enrichment performance using a novel software package called NGSrich, which we developed as a part of a whole‐exome resequencing pipeline in a medium‐sized genomics center. Our software is suitable for high‐throughput use and the results can be shared using HTML and a web server. Finally, we have sequenced exome‐enriched DNA libraries of 18 human individuals using three different enrichment products and used our new software for a comparative analysis of their performance. Hum Mutat 33:635–641, 2012. © 2012 Wiley Periodicals, Inc. http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Human Mutation Wiley

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References (16)

Publisher
Wiley
Copyright
Copyright © 2012 Wiley Subscription Services, Inc., A Wiley Company
ISSN
1059-7794
eISSN
1098-1004
DOI
10.1002/humu.22036
pmid
22290614
Publisher site
See Article on Publisher Site

Abstract

Target enrichment strategies are a very common approach to sequence a predefined part of an individual's genome using second‐generation sequencing technologies. While highly dependent on the technology and the target sequences selected, the performance of the various assays is also variable between samples and is influenced by the way how the libraries are handled in the laboratory. Here, we show how to find detailed information about the enrichment performance using a novel software package called NGSrich, which we developed as a part of a whole‐exome resequencing pipeline in a medium‐sized genomics center. Our software is suitable for high‐throughput use and the results can be shared using HTML and a web server. Finally, we have sequenced exome‐enriched DNA libraries of 18 human individuals using three different enrichment products and used our new software for a comparative analysis of their performance. Hum Mutat 33:635–641, 2012. © 2012 Wiley Periodicals, Inc.

Journal

Human MutationWiley

Published: Apr 1, 2012

Keywords: whole‐exome resequencing; target enrichment; analysis pipeline; assay evaluation

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