A framework for ODE-based multimodel biochemical simulations on an FPGA

Yasunori Osana, Tomonori Fukushima, Masato Yoshimi, Yow Iwaoka, Akira Funahashi, Noriko Hiroi, Yuichiro Shibata, Naoki Iwanaga, Hiroaki Kitano, Hideharu Amano

研究成果: Conference contribution

3 被引用数 (Scopus)

抄録

Today, mathematical modeling and simulation of biochemical pathways take a major role in biological researches. However, modern microprocessors cannot provide enough throughput to explore the large parameter space of target pathways. To address this problem, ReCSiP (a ReConfigurable Cell Simulation Platform), an FPGA-based biochemical simulator is proposed. It's an ODE-based simulator, which solves the rate-law functions. The framework proposed in this paper, enables to simulate pathways consisting many different types of chemical reactions by connecting the rate-law modules (solvers) on an FPGA. It provides the solver-to-solver communication mechanism on an FPGA and automatic configuration software to generate the circuit.

本文言語English
ホスト出版物のタイトルProceedings - 2005 International Conference on Field Programmable Logic and Applications, FPL
ページ574-577
ページ数4
DOI
出版ステータスPublished - 2005 12 1
イベント2005 International Conference on Field Programmable Logic and Applications, FPL - Tampere, Finland
継続期間: 2005 8 242005 8 26

出版物シリーズ

名前Proceedings - 2005 International Conference on Field Programmable Logic and Applications, FPL
2005

Other

Other2005 International Conference on Field Programmable Logic and Applications, FPL
国/地域Finland
CityTampere
Period05/8/2405/8/26

ASJC Scopus subject areas

  • 工学(全般)

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