GAGE: A critical evaluation of genome assemblies and assembly algorithms
Johns Hopkins University · Johns Hopkins Medicine · +7 more institutions
Abstract
New sequencing technology has dramatically altered the landscape of whole-genome sequencing, allowing scientists to initiate numerous projects to decode the genomes of previously unsequenced organisms. The lowest-cost technology can generate deep coverage of most species, including mammals, in just a few days. The sequence data generated by one of these projects consist of millions or billions of short DNA sequences (reads) that range from 50 to 150 nt in length. These sequences must then be assembled de novo before most genome analyses can begin. Unfortunately, genome assembly remains a very difficult problem, made more difficult by shorter reads and unreliable long-range linking information. In this study,…
Citation impact
- FWCI
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- Percentile
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- References
- 26
Authors
13- SLSteven L. SalzbergCorresponding
Johns Hopkins University, Johns Hopkins Medicine
- AMAdam M. Phillippy
Battelle, National Biodiversity Institute
- AVAleksey V. Zimin
Physical Sciences (United States), University of Maryland, College Park
- DPDaniela Puiu
Johns Hopkins University, Johns Hopkins Medicine
- TMTanja Magoč
Johns Hopkins University, Johns Hopkins Medicine
Topics & keywords
- Sequence assembly
- Hybrid genome assembly
- Genome
- Biology
- k-mer
- Correctness
- Computational biology
- Contiguity
- Life in Land