桌面网格计算平台在多序列比对算法中的运用  

Application of Desktop Grid Computing Platform to Multiple Sequence Alignment

作　　者：李金龙[1] 贾晓雯[1] 

机构地区：[1]浙江传媒学院电子信息学院,杭州310018

出　　处：《计算机系统应用》2011年第3期169-172,209,共5页Computer Systems & Applications

摘　　要：提出了一种多序列比对ClustalW算法并行化处理的新方法ParaClustalW,该方法使用桌面网格计算平台作为高性能编程环境和运行平台。分析了多序列比对算法在桌面网格平台上的任务划分方式、并行化策略和实现技术。ParaClustalW策略考虑到序列的数目与序列的长度等因素,实现任务划分的均衡性。经实验证明,ParaClustalW方法具有较好的计算速度和加速比,在同等机器配置下,优于当前的一些计算方法,对多序列比对算法的研究具有参考价值。A new parallel processing approach for ClustalW was presented and described in this paper.This approach uses Desktop Grid Computing Platform,which is a promising idea for high performance computing as its programming environment and running platform.On Desktop Grid computing platform,task partition,parallelism strategy and implementation technology of clustalW algorithm program were discussed in detail.ParaClustalW policy is load balances which was strongly supported for its consideration of alignment length and number factors.In order to demonstrate the effectiveness of this approach,a serial of simulation experiments were also done.The results obtained from performance analysis show that it gained a quick working time and good speedup.Under the same machine configuration,our approach is better than other solutions and it is a feasible and valuable approach for Multiple Sequence Alignment in bioinformatics.

关 键 词：桌面网格计算 计算模型 序列比对 生物信息学 并行计算 

分 类 号：TP301.6[自动化与计算机技术—计算机系统结构]