A modular approach to heterogeneous biochemical model simulation on an FPGA

Hideki Yamada, Yasunori Osana, Tomoya Ishimori, Tomonori Ooya, Masato Yoshimi, Yuri Nishikawa, Akira Funahashi, Noriko Hiroi, Hideharu Amano, Yuichiro Shibata, Kiyoshi Oguri

研究成果: Conference contribution

1 引用 (Scopus)

抜粋

Mathematical modeling and simulation of cellular systems are important processes in modern life science, to understand the behavior of life as a system. Kinetic model of a biochemical pathways is described as an ordinary differential system, consists of a variety of equations to represent velocity of corresponding chemical reactions. This paper describes a modular and automated approach to synthesize a custom HDL module for given biochemical model, that enables to build an optimal circuit to accelerate its simulation within a limited resource of an FPGA. As the result of evaluation, this method achieved reduction of logic usage by 10-60% while the overheads in frequency and pipeline depth is remaining about 10%.

元の言語English
ホスト出版物のタイトルReConFig'09 - 2009 International Conference on ReConFigurable Computing and FPGAs
ページ125-130
ページ数6
DOI
出版物ステータスPublished - 2009 12 1
イベント2009 International Conference on ReConFigurable Computing and FPGAs, ReConFig'09 - Cancun, Mexico
継続期間: 2009 12 92009 12 11

出版物シリーズ

名前ReConFig'09 - 2009 International Conference on ReConFigurable Computing and FPGAs

Other

Other2009 International Conference on ReConFigurable Computing and FPGAs, ReConFig'09
Mexico
Cancun
期間09/12/909/12/11

ASJC Scopus subject areas

  • Hardware and Architecture
  • Software

フィンガープリント A modular approach to heterogeneous biochemical model simulation on an FPGA' の研究トピックを掘り下げます。これらはともに一意のフィンガープリントを構成します。

  • これを引用

    Yamada, H., Osana, Y., Ishimori, T., Ooya, T., Yoshimi, M., Nishikawa, Y., Funahashi, A., Hiroi, N., Amano, H., Shibata, Y., & Oguri, K. (2009). A modular approach to heterogeneous biochemical model simulation on an FPGA. : ReConFig'09 - 2009 International Conference on ReConFigurable Computing and FPGAs (pp. 125-130). [5382039] (ReConFig'09 - 2009 International Conference on ReConFigurable Computing and FPGAs). https://doi.org/10.1109/ReConFig.2009.55