Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation
Author:
Publisher
Springer Science and Business Media LLC
Subject
Applied Mathematics,Computer Science Applications,Molecular Biology,Biochemistry,Structural Biology
Link
http://link.springer.com/content/pdf/10.1186/1471-2105-12-221.pdf
Reference23 articles.
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3. Altschul SF, Gish W, Miller W, Myers EW, Lipman DJ: Basic local alignment search tool. J Mol Biol 1990, 215: 403–410.
4. Altschul SF, Madden TL, Schaffer AA, Zhang J, Zhang Z, Miller W, Lipman DJ: Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 1997, 25: 3389–3402. 10.1093/nar/25.17.3389
5. Li ITS, Shum W, Truong K: 160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA). BMC Bioinformatics 2007, 8: 185. 10.1186/1471-2105-8-185
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