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High-performance computing reveals missing genes
Date:4/13/2010

s in genomes, we used our mpiBLAST sequence-search tool to perform an all-to-all sequence search of the 780 microbial genomes that we investigated. This process entailed running on the order of tens of trillions of sequence searches with mpiBLAST. The all-to-all sequence search was done on an ephemeral supercomputer that aggregated more than 12,000 processor cores across seven different supercomputers, distributed across the United States. It reduced the search time from nearly 90 years, when computed on a personal computer, down to a mere 12 hours."

Andrew Warren, a graduate assistant at VBI who has been working on this project as part of his PhD thesis, remarked: "At the outset of this project, the challenge was to create a method based on high-performance computing that could make meaningful predictions from such a large dataset. Through this work we were able to identify potential targets for future research and experimentation that can determine if these genes exist in vivo."


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Contact: Barry Whyte
whyte@vbi.vt.edu
540-231-1767
Virginia Tech
Source:Eurekalert

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