Journal
GENOME RESEARCH
Volume 20, Issue 9, Pages 1165-1173Publisher
COLD SPRING HARBOR LAB PRESS, PUBLICATIONS DEPT
DOI: 10.1101/gr.101360.109
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Funding
- NIH [R01-LM006845, R01-GM083873]
- NSF [IIS-0844494]
- Direct For Computer & Info Scie & Enginr
- Div Of Information & Intelligent Systems [0844494] Funding Source: National Science Foundation
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Second-generation sequencing technology can now be used to sequence an entire human genome in a matter of days and at low cost. Sequence read lengths, initially very short, have rapidly increased since the technology first appeared, and we now are seeing a growing number of efforts to sequence large genomes de novo from these short reads. In this Perspective, we describe the issues associated with short-read assembly, the different types of data produced by second-gen sequencers, and the latest assembly algorithms designed for these data. We also review the genomes that have been assembled recently from short reads and make recommendations for sequencing strategies that will yield a high-quality assembly.
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