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- W2367789020 abstract "Objective Graphic processing unit( GPU) computing is used to accelerate the widely used sequence aligner BLASTN for the analysis of massive biological data that are generated with next-generation sequencing technology.Methods Based on the compute unified device architecture( CUDA) model,the seed search and ungapped extension stages of nucleotide aligner BLASTN were accelerated from the dimensions of multi-thread concurrency in single GPU and multi-GPU concurrency.Results CUDA-BLASTN achieves maximum speedup of 26.8 times in the above two stages compared with FSABLAST on an NVIDIA Tesla C2075 GPU,without any loss of accuracy.CUDA-BLASTN was best suited to the alignment of medium-sized query sequences with long subject database.Conclusion GPU computing can greatly accelerate sequence alignment.It is cost-effective and has a good prospect." @default.
- W2367789020 created "2016-06-24" @default.
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- W2367789020 date "2013-01-01" @default.
- W2367789020 modified "2023-09-27" @default.
- W2367789020 title "Acceleration of BLASTN program with CUDA-compatible graphics hardware" @default.
- W2367789020 hasPublicationYear "2013" @default.
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