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Genome Biol. 2009;10(8):R88. doi: 10.1186/gb-2009-10-8-r88. Epub 2009 Aug 27.

Assisted assembly: how to improve a de novo genome assembly by using related species.

Author information

  • 1Broad Institute of Harvard and MIT, Cambridge Center, Cambridge, Massachusetts 02142, USA. sante@broad.mit.edu

Abstract

We describe a new assembly algorithm, where a genome assembly with low sequence coverage, either throughout the genome or locally, due to cloning bias, is considerably improved through an assisting process via a related genome. We show that the information provided by aligning the whole-genome shotgun reads of the target against a reference genome can be used to substantially improve the quality of the resulting assembly.

PMID:
19712469
[PubMed - indexed for MEDLINE]
PMCID:
PMC2745769
Free PMC Article

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