-
1
-
-
0025183708
-
Basic local alignment search tool
-
Altschul, S.F. et al. (1990) Basic local alignment search tool. J. Mol. Biol., 215, 403-410
-
(1990)
J. Mol. Biol
, vol.215
, pp. 403-410
-
-
Altschul, S.F.1
-
2
-
-
0030801002
-
Gapped BLAST and PSI-BLAST:Anew generation of protein database search programs
-
Altschul, S.F. et al. (1997) Gapped BLAST and PSI-BLAST:Anew generation of protein database search programs. Nucleic Acids Res., 25, 3389-3402
-
(1997)
Nucleic Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.F.1
-
3
-
-
74049108922
-
BLAST: Architecture and applications
-
Camacho, C. et al. (2009) BLAST: Architecture and applications. BMC Bioinform., 10, 421
-
(2009)
BMC Bioinform
, vol.10
, pp. 421
-
-
Camacho, C.1
-
4
-
-
77953889259
-
GPU computing for systems biology
-
Dematte, L. and Prandi, D. (2010) GPU computing for systems biology. Brief. Bioinform., 11, 323-333
-
(2010)
Brief. Bioinform
, vol.11
, pp. 323-333
-
-
Dematte, L.1
Prandi, D.2
-
7
-
-
77953234006
-
Massively parallel genomic sequence search on the Blue Gene/P architecture
-
ACM/IEEE, Austin, USA
-
Lin, H. et al. (2008) Massively parallel genomic sequence search on the Blue Gene/P architecture. In: Proceedings of the 2008 ACM/IEEE Conference on Supercomputing. ACM/IEEE, Austin, USA, pp. 1-11
-
(2008)
Proceedings of the 2008 ACM/ IEEE Conference on Supercomputing
, pp. 1-11
-
-
Lin, H.1
-
8
-
-
78650287487
-
Design and implementation of a CUDA-compatible GPU-based core for gapped BLAST algorithm
-
Ling, C. and Benkrid, K. (2010) Design and implementation of a CUDA-compatible GPU-based core for gapped BLAST algorithm. Proc. Comput. Sci. USA, 1, 495-504
-
(2010)
Proc. Comput. Sci. USA
, vol.1
, pp. 495-504
-
-
Ling, C.1
Benkrid, K.2
-
9
-
-
84859048351
-
SOAP3: Ultra-fast GPU-based parallel alignment tool for short reads
-
Liu, C.M. et al. (2012a) SOAP3: Ultra-fast GPU-based parallel alignment tool for short reads. Bioinformatics, 28, 878-879
-
(2012)
Bioinformatics
, vol.28
, pp. 878-879
-
-
Liu, C.M.1
-
10
-
-
84864136658
-
CUSHAW: A CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform
-
Liu, Y. et al. (2012b) CUSHAW: A CUDA compatible short read aligner to large genomes based on the Burrows-Wheeler transform. Bioinformatics, 28, 1830-1837
-
(2012)
Bioinformatics
, vol.28
, pp. 1830-1837
-
-
Liu, Y.1
-
11
-
-
84875830808
-
GPU-Accelerated bidirected De Bruijn graph construction for genome assembly
-
Lu, M. et al. (2013) GPU-Accelerated bidirected De Bruijn graph construction for genome assembly. Web Tech. Appl. Lect. Notes Comput. Sci., 7808, 51-62
-
(2013)
Web Tech. Appl. Lect. Notes Comput. Sci
, vol.7808
, pp. 51-62
-
-
Lu, M.1
-
12
-
-
84868367532
-
High-performance short sequence alignment with GPU acceleration
-
Lu, M. et al. (2012) High-performance short sequence alignment with GPU acceleration. Distrib. Parallel Dat., 30, 385-399
-
(2012)
Distrib. Parallel Dat
, vol.30
, pp. 385-399
-
-
Lu, M.1
-
13
-
-
43349092363
-
CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment
-
Manavski, S. and Valle, G. (2008) CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment. BMC Bioinform., 9 (Suppl. 2), S10
-
(2008)
BMC Bioinform
, vol.9
, Issue.SUPPL. 2
-
-
Manavski, S.1
Valle, G.2
-
14
-
-
32144436709
-
WindowMasker: Window-based masker for sequenced genomes
-
Morgulis, A. et al. (2006a) WindowMasker: Window-based masker for sequenced genomes. Bioinformatics, 22, 134-141
-
(2006)
Bioinformatics
, vol.22
, pp. 134-141
-
-
Morgulis, A.1
-
15
-
-
33745617710
-
A fast and symmetric DUST implementation to mask lowcomplexity DNA sequences
-
Morgulis, A. et al. (2006b) A fast and symmetric DUST implementation to mask lowcomplexity DNA sequences. J. Comp. Biol., 13, 1028-1040
-
(2006)
J. Comp. Biol
, vol.13
, pp. 1028-1040
-
-
Morgulis, A.1
-
16
-
-
49549112511
-
Database indexing for production MegaBLAST searches
-
Morgulis, A. et al. (2008) Database indexing for production MegaBLAST searches. Bioinformatics, 24(16), 1757-1764
-
(2008)
Bioinformatics
, vol.24
, Issue.16
, pp. 1757-1764
-
-
Morgulis, A.1
-
17
-
-
71749105138
-
PLAST: Parallel local alignment search tool for database comparison
-
Nguyen, V.H. and Lavenier, D. (2009) PLAST: Parallel local alignment search tool for database comparison. BMC Bioinform., 10, 329
-
(2009)
BMC Bioinform
, vol.10
, pp. 329
-
-
Nguyen, V.H.1
Lavenier, D.2
-
18
-
-
63849197781
-
Nvidia GPU parallel computing architecture
-
IEEE, Stanford, CA, USA
-
Nickolls, J. (2007) Nvidia GPU parallel computing architecture. In: Proceedings of the IEEE Hot Chips 19. IEEE, Stanford, CA, USA
-
(2007)
Proceedings of the IEEE Hot Chips 19
-
-
Nickolls, J.1
-
19
-
-
49049088756
-
GPU computing
-
Owens, J.D. et al. (2008) GPU Computing. IEEE Proc., 96, 879-899
-
(2008)
IEEE Proc
, vol.96
, pp. 879-899
-
-
Owens, J.D.1
-
20
-
-
34548442821
-
A general reconfigurable architecture for the BLAST algorithm
-
Sotiriades, E. and Dollas, A. (2007) A general reconfigurable architecture for the BLAST algorithm. J. VLSI Signal Process., 48, 189-200
-
(2007)
J. VLSI Signal Process
, vol.48
, pp. 189-200
-
-
Sotiriades, E.1
Dollas, A.2
-
21
-
-
78651415181
-
GPU-BLAST: Using graphics processors to accelerate protein sequence alignment
-
Vouzis, P.D. and Sahinidis, N.V. (2011) GPU-BLAST: Using graphics processors to accelerate protein sequence alignment. Bioinformatics, 27, 182-188
-
(2011)
Bioinformatics
, vol.27
, pp. 182-188
-
-
Vouzis, P.D.1
Sahinidis, N.V.2
-
22
-
-
0034053725
-
A greedy algorithm for aligning DNA sequences
-
Zhang, Z. et al. (2000) A greedy algorithm for aligning DNA sequences. J. Comput. Biol., 7, 203-214.
-
(2000)
J. Comput. Biol
, vol.7
, pp. 203-214
-
-
Zhang, Z.1
|