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2008
IEEE

Communication Protocols and Message Formats for BLAST Parallelization on Cluster Systems

8 years 4 months ago
Communication Protocols and Message Formats for BLAST Parallelization on Cluster Systems
With the widespread use of BLAST, many parallel versions of BLAST on cluster systems are announced, but little work has been done for the parallel execution in the search for individual query sequence on BLAST on cluster systems. Since we can improve not only throughput but also response time, the techniques for parallel execution of BLAST on cluster systems in the search for individual query sequence deserve to be developed. This paper develops communication protocols and message formats to reduce the communication overheads for the parallel execution of BLAST in the search for individual query sequence on cluster systems. The developed communication protocols and message formats are implemented on a new version of BLAST on cluster systems. The new version of BLAST is named Hyper-BLAST in this paper. In this paper, we also measured the throughput and response time of Hyper-BLAST on various cluster systems. It turned out that considerable performance improvement of BLAST on cluster sy...
Hong-Soog Kim, Woo-Hyuk Jang, Dong-Soo Han
Added 07 Dec 2010
Updated 07 Dec 2010
Type Conference
Year 2008
Where AINA
Authors Hong-Soog Kim, Woo-Hyuk Jang, Dong-Soo Han
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