GPGPU加速生物序列比对研究进展  

Research progress of GPGPU accelerated biological sequence alignment

作　　者：沈玉琳[1] 金能智[1] 孙一桐 者建武 马尧[1] 

机构地区：[1]甘肃省云计算重点实验室,甘肃省计算中心,甘肃兰州730030

出　　处：《生物信息学》2013年第2期115-119,共5页Chinese Journal of Bioinformatics

基　　金：甘肃省重点实验室建设计划(NO.1106RTSA021);甘肃省2012年陇原青年创新人才扶持计划

摘　　要：序列比对是生物信息学中最常用和最经典的研究手段。生物序列比对需要有强大计算能力的硬件支撑,而近年快速发展起来的GPGPU正好可堪此任。本文首先介绍GPGPU的发展过程,进而讲述GPGPU硬件设备与其编程环境,然后对GPGPU做科学计算时需要的数学库函数做一介绍,最后综述近年来国内外基于GPGPU的生物序列比对软件和相关研究工作,并总结和展望其辉煌前景。Biological sequence alignment is one of the most commonly used and the most classic method in biointormatics study. It requires hardware support that has powerful computing capability, while the development of GPG- PU may be worthy of this task. This paper first introduces the GPGPU development process, and then describes the GPGPU hardware device and related programming environment, presents math library function that is needed in scientific computing on GPGPU, finally, discusses the software and research work of using the GPGPU - accelerated biological sequence alignment at home and abroad in recent years. Furthermore, we will summarize the recent works and look into the brilliant prospects of GPGPU - accelerated biological sequence alignment.

关 键 词：GPGPU 序列比对 数学库函数 

分 类 号：Q526[生物学—生物化学] O641[理学—物理化学]