A vertebrate case study of the quality of assemblies derived from next-generation sequences

Liang Ye, La Deana W. Hillier, Patrick Minx, Nay Thane, Devin P. Locke, John C. Martin, Lei Chen, Makedonka Mitreva, Jason R. Miller, Kevin V. Haub, David J. Dooling, Elaine R. Mardis, Richard K. Wilson, George M. Weinstock, Wesley C. Warren

Research output: Contribution to journalArticlepeer-review

27 Scopus citations

Abstract

The unparalleled efficiency of next-generation sequencing (NGS) has prompted widespread adoption, but significant problems remain in the use of NGS data for whole genome assembly. We explore the advantages and disadvantages of chicken genome assemblies generated using a variety of sequencing and assembly methodologies. NGS assemblies are equivalent in some ways to a Sanger-based assembly yet deficient in others. Nonetheless, these assemblies are sufficient for the identification of the majority of genes and can reveal novel sequences when compared to existing assembly references.

Original languageEnglish
Article numberR31
JournalGenome biology
Volume12
Issue number3
DOIs
StatePublished - Mar 31 2011

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