Assembly of large genomes using second-generation sequencing
Top Cited Papers
- 27 May 2010
- journal article
- Published by Cold Spring Harbor Laboratory in Genome Research
- Vol. 20 (9) , 1165-1173
- https://doi.org/10.1101/gr.101360.109
Abstract
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.Keywords
This publication has 37 references indexed in Scilit:
- The acrosomal protein Dickkopf-like 1 (DKKL1) facilitates sperm penetration of the zona pellucidaFertility and Sterility, 2010
- A highly annotated whole-genome sequence of a Korean individualNature, 2009
- How to map billions of short reads onto genomesNature Biotechnology, 2009
- Accurate whole human genome sequencing using reversible terminator chemistryNature, 2008
- The diploid genome sequence of an Asian individualNature, 2008
- Substantial biases in ultra-short read data sets from high-throughput DNA sequencingNucleic Acids Research, 2008
- The complete genome of an individual by massively parallel DNA sequencingNature, 2008
- A Sanger/pyrosequencing hybrid approach for the generation of high-quality draft assemblies of marine microbial genomesProceedings of the National Academy of Sciences, 2006
- Initial sequencing and comparative analysis of the mouse genomeNature, 2002
- Initial sequencing and analysis of the human genomeNature, 2001