High performance protein sequence database scanning on the Cell Broadband Engine
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Chee Keong Kwoh | Bertil Schmidt | Adrianto Wirawan | Huiliang Zhang | B. Schmidt | C. Kwoh | A. Wirawan | Huiliang Zhang
[1] M S Waterman,et al. Identification of common molecular subsequences. , 1981, Journal of molecular biology.
[2] E. Myers,et al. Basic local alignment search tool. , 1990, Journal of molecular biology.
[3] Thomas L. Madden,et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. , 1997, Nucleic acids research.
[4] Andrzej Wozniak,et al. Using video-oriented instructions to speed up sequence comparison , 1997, Comput. Appl. Biosci..
[5] C. Chothia,et al. Assessing sequence comparison methods with reliable structurally identified distant evolutionary relationships. , 1998, Proceedings of the National Academy of Sciences of the United States of America.
[6] W R Pearson,et al. Flexible sequence similarity searching with the FASTA3 program package. , 2000, Methods in molecular biology.
[7] Torbjørn Rognes,et al. Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors , 2000, Bioinform..
[8] W. J. Kent,et al. BLAT--the BLAST-like alignment tool. , 2002, Genome research.
[9] Bin Ma,et al. Patternhunter Ii: Highly Sensitive and Fast Homology Search , 2004, J. Bioinform. Comput. Biol..
[10] M. Cameron,et al. Improved gapped alignment in BLAST , 2004, IEEE/ACM Transactions on Computational Biology and Bioinformatics.
[11] Bertil Schmidt,et al. Reconfigurable architectures for bio-sequence database scanning on FPGAs , 2005, IEEE Transactions on Circuits and Systems II: Express Briefs.
[12] H. Peter Hofstee,et al. Introduction to the Cell multiprocessor , 2005, IBM J. Res. Dev..
[13] Hugh E. Williams,et al. A Deterministic Finite Automaton for Faster Protein Hit Detection in BLAST , 2006, J. Comput. Biol..
[14] Jarek Nieplocha,et al. ScalaBLAST: A Scalable Implementation of BLAST for High-Performance Data-Intensive Bioinformatics Analysis , 2006, IEEE Transactions on Parallel and Distributed Systems.
[15] Fabrizio Petrini,et al. Cell Multiprocessor Communication Network: Built for Speed , 2006, IEEE Micro.
[16] Michael Kistler,et al. Exploring the Viability of the Cell Broadband Engine for Bioinformatics Applications , 2007, 2007 IEEE International Parallel and Distributed Processing Symposium.
[17] Kevin Truong,et al. 160-fold acceleration of the Smith-Waterman algorithm using a field programmable gate array (FPGA) , 2007, BMC Bioinformatics.
[18] Weiguo Liu,et al. Streaming Algorithms for Biological Sequence Alignment on GPUs , 2007, IEEE Transactions on Parallel and Distributed Systems.
[19] Michael Farrar,et al. Sequence analysis Striped Smith – Waterman speeds database searches six times over other SIMD implementations , 2007 .
[20] Joseph M. Lancaster,et al. Mercury BLASTP: Accelerating Protein Sequence Alignment , 2008, TRETS.
[21] Giorgio Valle,et al. CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment , 2008, BMC Bioinformatics.