Journal
BRIEFINGS IN BIOINFORMATICS
Volume 11, Issue 5, Pages 473-483Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bib/bbq015
Keywords
new sequencing technologies; alignment algorithm; sequence analysis
Funding
- NIH [1U01HG005208-01, 1U01HG005210-01]
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Rapidly evolving sequencing technologies produce data on an unparalleled scale. A central challenge to the analysis of this data is sequence alignment, whereby sequence reads must be compared to a reference. A wide variety of alignment algorithms and software have been subsequently developed over the past two years. In this article, we will systematically review the current development of these algorithms and introduce their practical applications on different types of experimental data. We come to the conclusion that short-read alignment is no longer the bottleneck of data analyses. We also consider future development of alignment algorithms with respect to emerging long sequence reads and the prospect of cloud computing.
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