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	Two-level parallel alignment based on sequence parallel vectorization
	Ji, Guo Li ; Chen, Long Teng ; Chen, Liang Liang ; Ji GL(吉国力)
	2014
关键词	Cell membranes T-cells
英文摘要	Conference Name:2013 2nd International Conference on Mechanical Design and Power Engineering, ICMDPE 2013. Conference Address: Beijing, China. Time:November 29, 2013 - November 30, 2013.; Trans tech publications; This paper proposed a way of two-level parallel alignment based on sequence parallel vectorization with GPU acceleration on the Fermi architecture, which integrates sequence parallel vectorization, parallel k-means clustering approximate alignment and parallel Smith-Waterman algorithm. The method converts sequence alignment into vector alignment by first. Then it uses k-means alignment to divide sequences into several groups and reduce the size of sequence data. The expected accurate alignment result is achieved using parallel Smith-Waterman algorithm. The high-throughput mouse T-cell receptor (TCR) sequences were used to validate the proposed method. Under the same hardware condition, comparing to serial Smith-Waterman algorithm and CUDASW++2.0 algorithm, our method is the most efficient alignment algorithm with high alignment accuracy. ? (2014) Trans Tech Publications, Switzerland.
语种	英语
出处	http://dx.doi.org/10.4028/www.scientific.net/AMM.490-491.757
出版者	TRANS TECH PUBLICATIONS LTD
内容类型	其他
源URL	[http://dspace.xmu.edu.cn/handle/2288/86924]
专题	信息技术－会议论文
推荐引用方式 GB/T 7714	Ji, Guo Li,Chen, Long Teng,Chen, Liang Liang,et al. Two-level parallel alignment based on sequence parallel vectorization. 2014-01-01.

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