FastMEDUSA: a parallelized tool to infer gene regulatory networks

被引：13
|
作者：
Bozdag, Serdar [1 ]
Li, Aiguo [1 ]
Wuchty, Stefan [1 ,2 ]
Fine, Howard A. [1 ]
机构：
[1] NINDS, Neurooncol Branch, NCI, Bethesda, MD 20892 USA
[2] NIH, Natl Ctr Biotechnol Informat, Natl Lib Med, Bethesda, MD 20892 USA
来源：
BIOINFORMATICS | 2010年 / 26卷 / 14期
基金：
美国国家卫生研究院;
关键词：
D O I：
10.1093/bioinformatics/btq275
中图分类号：
Q5 [生物化学];
学科分类号：
071010 ; 081704 ;
摘要：
Motivation: In order to construct gene regulatory networks of higher organisms from gene expression and promoter sequence data efficiently, we developed FastMEDUSA. In this parallelized version of the regulatory network-modeling tool MEDUSA, expression and sequence data are shared among a user-defined number of processors on a single multi-core machine or cluster. Our results show that FastMEDUSA allows a more efficient utilization of computational resources. While the determination of a regulatory network of brain tumor in Homo sapiens takes 12 days with MEDUSA, FastMEDUSA obtained the same results in 6 h by utilizing 100 processors.
引用
收藏
页码：1792 / 1793
页数：2
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