摘要
高通量技术的发展使蛋白质-蛋白质相互作用(PPI)网络的规模日益增大,需要高速算法对其进行全局比对。为此,分析集中式全局比对算法SPINAL,将该算法中耗时超过95%的计算估计值阶段移植到分布式平台Blogel下运算,求比对图阶段则仍保持集中式运算,以此得到Blogel-SPINAL算法。理论分析和实验结果表明,与SPINAL相比,Blogel-SPINAL能提升比对速度,具有较好的扩展性。
With the development of high throughput technology, the size of Protein-protein Interaction (PPI) network grows larger and larger,thus high speed PPI network global alignment algorithm is needed. Aiming at this problem, this paper analyzes the SPINAL algorithm. It modifies the coarse-grained phase which occupies more than 95% time cost to adapt for distributed platform named Blogel, and keeps the fine-grained phase unchanged. Hence, the Blogel-SPINAL algorithm is gotten. Theoretical analysis and experimental results show that Blogel-SPINAL is much faster than SPINAL, and its scalability is better.
出处
《计算机工程》
CAS
CSCD
北大核心
2016年第4期209-214,220,共7页
Computer Engineering
基金
国家"863"计划基金资助项目(2012AA020403)
关键词
分布式计算
蛋白质-蛋白质相互作用网络
全局网络比对
积图
顶点划分
可扩展性
distributed computation
Protein-protein Interaction ( PPI ) network
global network alignment
product graph
vertex partition
scalability