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An FPGA-Based, Multi-model Simulation Method for Biochemical Systems


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タイトル: An FPGA-Based, Multi-model Simulation Method for Biochemical Systems
著者: Osana, Yasunori / Fukushima, Tomonori / Yoshimi, Masato / Iwaoka, Yow / Shibata, Yuichiro / Kitano, Hiroaki / Funahashi, Akira / Hiroi, Noriko / Amano, Hideharu
発行日: 2005年
出版者: IEEE Computer Society Press
引用: 19th IEEE International Parallel and Distributed Processing Symposium (IPDPS'05) Workshop 3 167a ; 2005
抄録: Modeling and simulation of a cellular system on computers are now becoming an essential process in biological researches. However, modern PCs can't provide enough performance to simulate large-scale biochemical networks. ReCSiP is the alternative FPGA-based solution for biochemical simulations. In this paper, the novel method of biochemical simulation with multiple reaction models on an FPGA is proposed. The method generates optimal circuit and its optimal schedule for each simulation models written in SBML, the standard markup language in systems biology. ReCSiP has a Xilinx's XC2VP70 and achieved over 20-fold speedup compared to Intel’s PentiumIII 1.13GHz.
記述: 19th IEEE International Parallel and Distributed Processing Symposium (IPDPS'05), April 4-8, 2005, Denver, Colorado
キーワード: Biochemical simulation / FPGA / SBML / Multimodel / ODE
URI: http://hdl.handle.net/10069/16326
ISBN: 0769523129
権利: Copyright(c) 2005 IEEE. Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from the IEEE.
資料タイプ: Conference Paper
原稿種類: publisher
出現コレクション:060 会議発表資料

引用URI : http://hdl.handle.net/10069/16326

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