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Journal Abstract Search

175 related items for PubMed ID: 20370891

  • 1. CUDASW++2.0: enhanced Smith-Waterman protein database search on CUDA-enabled GPUs based on SIMT and virtualized SIMD abstractions.
    Liu Y, Schmidt B, Maskell DL.
    BMC Res Notes; 2010 Apr 06; 3():93. PubMed ID: 20370891
    [Abstract] [Full Text] [Related]

  • 2. CUDASW++: optimizing Smith-Waterman sequence database searches for CUDA-enabled graphics processing units.
    Liu Y, Maskell DL, Schmidt B.
    BMC Res Notes; 2009 May 06; 2():73. PubMed ID: 19416548
    [Abstract] [Full Text] [Related]

  • 3. CUDASW++ 3.0: accelerating Smith-Waterman protein database search by coupling CPU and GPU SIMD instructions.
    Liu Y, Wirawan A, Schmidt B.
    BMC Bioinformatics; 2013 Apr 04; 14():117. PubMed ID: 23557111
    [Abstract] [Full Text] [Related]

  • 4. Improving the Mapping of Smith-Waterman Sequence Database Searches onto CUDA-Enabled GPUs.
    Huang LT, Wu CC, Lai LF, Li YJ.
    Biomed Res Int; 2015 Apr 04; 2015():185179. PubMed ID: 26339591
    [Abstract] [Full Text] [Related]

  • 5. CUDA compatible GPU cards as efficient hardware accelerators for Smith-Waterman sequence alignment.
    Manavski SA, Valle G.
    BMC Bioinformatics; 2008 Mar 26; 9 Suppl 2(Suppl 2):S10. PubMed ID: 18387198
    [Abstract] [Full Text] [Related]

  • 6. GAMUT: GPU accelerated microRNA analysis to uncover target genes through CUDA-miRanda.
    Wang S, Kim J, Jiang X, Brunner SF, Ohno-Machado L.
    BMC Med Genomics; 2014 Mar 26; 7 Suppl 1(Suppl 1):S9. PubMed ID: 25077821
    [Abstract] [Full Text] [Related]

  • 7. Coupling SIMD and SIMT architectures to boost performance of a phylogeny-aware alignment kernel.
    Alachiotis N, Berger SA, Stamatakis A.
    BMC Bioinformatics; 2012 Aug 09; 13():196. PubMed ID: 22876807
    [Abstract] [Full Text] [Related]

  • 8. Faster Smith-Waterman database searches with inter-sequence SIMD parallelisation.
    Rognes T.
    BMC Bioinformatics; 2011 Jun 01; 12():221. PubMed ID: 21631914
    [Abstract] [Full Text] [Related]

  • 9. ADEPT: a domain independent sequence alignment strategy for gpu architectures.
    Awan MG, Deslippe J, Buluc A, Selvitopi O, Hofmeyr S, Oliker L, Yelick K.
    BMC Bioinformatics; 2020 Sep 15; 21(1):406. PubMed ID: 32933482
    [Abstract] [Full Text] [Related]

  • 10. GPU-based cloud service for Smith-Waterman algorithm using frequency distance filtration scheme.
    Lee ST, Lin CY, Hung CL.
    Biomed Res Int; 2013 Sep 15; 2013():721738. PubMed ID: 23653898
    [Abstract] [Full Text] [Related]

  • 11. Striped Smith-Waterman speeds database searches six times over other SIMD implementations.
    Farrar M.
    Bioinformatics; 2007 Jan 15; 23(2):156-61. PubMed ID: 17110365
    [Abstract] [Full Text] [Related]

  • 12. SWPS3 - fast multi-threaded vectorized Smith-Waterman for IBM Cell/B.E. and x86/SSE2.
    Szalkowski A, Ledergerber C, Krähenbühl P, Dessimoz C.
    BMC Res Notes; 2008 Oct 29; 1():107. PubMed ID: 18959793
    [Abstract] [Full Text] [Related]

  • 13. CUDA-BLASTP: accelerating BLASTP on CUDA-enabled graphics hardware.
    Liu W, Schmidt B, Müller-Wittig W.
    IEEE/ACM Trans Comput Biol Bioinform; 2011 Oct 29; 8(6):1678-84. PubMed ID: 21339531
    [Abstract] [Full Text] [Related]

  • 14. CUDAMPF: a multi-tiered parallel framework for accelerating protein sequence search in HMMER on CUDA-enabled GPU.
    Jiang H, Ganesan N.
    BMC Bioinformatics; 2016 Feb 27; 17():106. PubMed ID: 26920848
    [Abstract] [Full Text] [Related]

  • 15. Speeding-up Bioinformatics Algorithms with Heterogeneous Architectures: Highly Heterogeneous Smith-Waterman (HHeterSW).
    Gálvez S, Ferusic A, Esteban FJ, Hernández P, Caballero JA, Dorado G.
    J Comput Biol; 2016 Oct 27; 23(10):801-9. PubMed ID: 27104636
    [Abstract] [Full Text] [Related]

  • 16. Parallel mutual information estimation for inferring gene regulatory networks on GPUs.
    Shi H, Schmidt B, Liu W, Müller-Wittig W.
    BMC Res Notes; 2011 Jun 15; 4():189. PubMed ID: 21672264
    [Abstract] [Full Text] [Related]

  • 17. Accelerating the Smith-Waterman algorithm with interpair pruning and band optimization for the all-pairs comparison of base sequences.
    Okada D, Ino F, Hagihara K.
    BMC Bioinformatics; 2015 Oct 06; 16():321. PubMed ID: 26445214
    [Abstract] [Full Text] [Related]

  • 18. Accelerating Smith-Waterman Alignment for Protein Database Search Using Frequency Distance Filtration Scheme Based on CPU-GPU Collaborative System.
    Liu Y, Hong Y, Lin CY, Hung CL.
    Int J Genomics; 2015 Oct 06; 2015():761063. PubMed ID: 26568953
    [Abstract] [Full Text] [Related]

  • 19. SSW library: an SIMD Smith-Waterman C/C++ library for use in genomic applications.
    Zhao M, Lee WP, Garrison EP, Marth GT.
    PLoS One; 2013 Oct 06; 8(12):e82138. PubMed ID: 24324759
    [Abstract] [Full Text] [Related]

  • 20. A fast forward projection using multithreads for multirays on GPUs in medical image reconstruction.
    Chou CY, Chuo YY, Hung Y, Wang W.
    Med Phys; 2011 Jul 06; 38(7):4052-65. PubMed ID: 21859004
    [Abstract] [Full Text] [Related]

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