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GLAD: a system for developing and deploying large-scale bioinformatics grid.

作者信息

Teo Yong-Meng, Wang Xianbing, Ng Yew-Kwong

机构信息

Department of Computer Science, National University of Singapore, Singapore 117543.

出版信息

Bioinformatics. 2005 Mar;21(6):794-802. doi: 10.1093/bioinformatics/bti034. Epub 2004 Sep 23.


DOI:10.1093/bioinformatics/bti034
PMID:15388517
Abstract

MOTIVATION: Grid computing is used to solve large-scale bioinformatics problems with gigabytes database by distributing the computation across multiple platforms. Until now in developing bioinformatics grid applications, it is extremely tedious to design and implement the component algorithms and parallelization techniques for different classes of problems, and to access remotely located sequence database files of varying formats across the grid. In this study, we propose a grid programming toolkit, GLAD (Grid Life sciences Applications Developer), which facilitates the development and deployment of bioinformatics applications on a grid. RESULTS: GLAD has been developed using ALiCE (Adaptive scaLable Internet-based Computing Engine), a Java-based grid middleware, which exploits the task-based parallelism. Two bioinformatics benchmark applications, such as distributed sequence comparison and distributed progressive multiple sequence alignment, have been developed using GLAD.

摘要

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