H. Yamada, Yasunori Osana, Tomoya Ishimori, Tomonori Ooya, Masato Yoshimi, Yuri Nishikawa, Akira Funahashi, N. Hiroi, H. Amano, Yuichiro Shibata, K. Oguri
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引用次数: 1
Abstract
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%.
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