基于Beowulf Linux系统的ClustalW-Message Passing Interface (MPI)对16S细菌核糖体rna的大量多序列比对

2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05) Pub Date : 2005-08-08 DOI:10.1109/CSBW.2005.88

Hyon Chang Kim, Yong Beom Seo, Ji Hwan Song, D. Choi, C. Min, Han Jip Kim

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引用次数: 1

摘要

我们构建了一个由15个计算节点组成的Debian-Beowulf计算机集群，每个节点配备15个AMD Opteron 64位微处理器。本地多计算机(LAM) -消息传递接口(MPI)被用作MPI的便携式高性能实现。使用ClustalW-MPI对2000多个细菌16S核糖体rna (RNAs)进行了多重比对。通过系统的序列比较，发现了几个不同物种起源的序列具有很高的同源性。这些高度保守的序列被收集作为核糖体抗生素药物靶点的候选序列。

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Massive multiple sequence alignment of 16S bacterial ribosomal RNAs using ClustalW-Message Passing Interface (MPI) Based on Beowulf Linux system

We have built a Debian-Beowulf computer cluster consisting of 15 computational nodes, each equipped with 15 AMD Opteron 64 bit microprocessors. Local Area Multicomputer (LAM) - Message Passing Interface (MPI) was used as a portable high-performance implementation for MPI. More than 2,000 bacterial 16S ribosomal RNAs (rRNAs) were multiply aligned using ClustalW-MPI. Systematic sequence comparison provided several sequences with a very high degree of homology despite their different origins of species. These highly conservative sequences were collected as candidate sequences for drug targets of ribosomal antibiotics.

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2005 IEEE Computational Systems Bioinformatics Conference - Workshops (CSBW'05)

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