[1]
1. Smith, Temple F. and Waterman, Michael S. 1981. "Identification of Common Molecular Subsequences," J. Mol. Biol., 147:195-197.
[2]
NCBI. GenBank Growth Statistics. 2012.
http://www.ncbi.nlm.nih.gov/genbank/genbankstats.html/, accessed Sept. 2012.
[3]
Y. Liu, D. Maskell, B. Schmidt. 2008. "CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units," BMC Research Notes, 2(1), pp. 73.
[4]
S A. Manavski and G. Valle. "CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment," Bioinformatics, 9(2): 10-19.
[5]
L. Ligowski, W. Rudnicki. 2010. "An efficient implementation of smith waterman algorithm on GPU using cuda for massively parallel scanning of sequence databases," in Proc. of ACM SIGPLAN symposium on Principles and practice of parallel programming, pp. 137-146.
[6]
NVIDIA Corporation. 2012. "NVIDIA CUDA BestPracticesGuide 3.1," online web site
http://developer.nvidia.com/cuda/, accessed Sept. 2011.
[7]
J. Thompson, D. Higgins, T. Gibson. 1994. "Clustalw: improving the sensitivity of progressive multiple sequence alignment through sequence weighting position specific gap penalties and weight matrix choice," Nucleic Acids Res., 22, pp. 4673-4680.
[8]
Bowen Alpern, Larry Carter, and Kang Su Gatlin. 1995. "Microparallelism and high performance protein matching," in Proc. of ACM/IEEE Supercomputing Conference, pp. 1-24.
[9]
A. Wozniak. 1997. "Using video-oriented instructions to speed up sequence comparison," Comput Appl Biosci., 13(2): 145-150.
[10]
T. Rognes, E. Seeberg. 2000. "Six-fold speed-up of Smith-Waterman sequence database searches using parallel processing on common microprocessors," Bioinformatics, 16(8): 699-706.
[11]
Arpith Jacob, Marcin Paprzycki, et al. 2007. "Applying SIMD approach to whole genome comparison on commodity hardware," in Proc. of International conference on Parallel processing and applied mathematics, pp. 1220-1229.
