ReCSiP: An FPGA-based general-purpose biochemical simulator

被引：7

作者：

Osana, Yasunori ^{[1
]}

Yoshimi, Masato

Iwaoka, Yow

Kojima, Toshinori

Nishikawa, Yuri

Funahashi, Akira

Hiroi, Noriko

Shibata, Yuichiro

Iwanaga, Naoki

Kitano, Hiroaki

Amano, Hideharu

机构：

[1] Keio Univ, Fac Sci & Technol, Dept Biosci & Informat, Yokohama, Kanagawa 223, Japan

[2] Keio Univ, Grad Sch Sci & Technol, Yokohama, Kanagawa 223, Japan

[3] ERATO, SORST, Japan Sci & Technol, Kitano Symbiot Syst Project, Tokyo 150, Japan

[4] Nagasaki Univ, Dept Comp & Informat Sci, Nagasaki 852, Japan

[5] Keio Univ, Fac Sci & Technol, Dept Informat & Comp Sci, Yokohama, Kanagawa 223, Japan

来源：

ELECTRONICS AND COMMUNICATIONS IN JAPAN PART II-ELECTRONICS | 2007年 / 90卷 / 07期

关键词：

FPGA; biochemical simulations; ordinary differential equations; rate-law functions; Runge-Kutta method;

D O I：

10.1002/ecjb.20370

中图分类号：

TM [电工技术]; TN [电子技术、通信技术];

学科分类号：

0808 ; 0809 ;

摘要：

Mathematical modeling and simula tion of cellular systems are essential to modern biological researches. However, simulating with software-based simulators on general-purpose microprocessors cannot provide enough throughput. ReCSiP is an FPGA-based solution for biochemical simulation and parameter scanning. This paper describes its design and hardware implementation. With Xilinx's XC2VP70-5, this method achieved 50- to 80-fold speed-up compared to Intel's Pentium4 processor. (c) 2007 Wiley Periodicals, Inc.

引用

页码：1 / 10

页数：10

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