Name
Title | ||
|---|---|---|
Fpga Implementation Of A Data-Driven Stochastic Biochemical Simulator With The Next Reaction Method |
Abstract | ||
|---|---|---|
This paper introduces a scalable FPGA implementation of a stochastic simulation algorithm (SSA) called the Next Reaction Method. There are some hardware approaches of SSAs that obtained high-throughput on reconfigurable devices such as FPGAs, but these works lacked in scalability. The design of this work can accommodate to the increasing size of target biochemical models, or to make use of increasing capacity of FPGAs. Interconnection network between arithmetic circuits and multiple simulation circuits aims to per-form a data-driven multi-threading simulation. Approximately 8 times speedup was obtained compared to an execution on Xeon 2.80GHz. |
Year | DOI | Venue |
|---|---|---|
2007 | 10.1109/FPL.2007.4380656 | 2007 INTERNATIONAL CONFERENCE ON FIELD PROGRAMMABLE LOGIC AND APPLICATIONS, PROCEEDINGS, VOLS 1 AND 2 |
Keywords | Field | DocType |
field programmable gate arrays,biochemistry | Stochastic simulation,Data-driven,Computer science,Parallel computing,Field-programmable gate array,Xeon,Interconnection,Embedded system,Reconfigurable computing,Scalability,Speedup | Conference |
ISSN | Citations | PageRank |
1946-1488 | 12 | 1.48 |
References | Authors | |
4 | 12 | |
Name | Order | Citations | PageRank |
|---|---|---|---|
| Masato Yoshimi | 1 | 106 | 22.49 |
| Yow Iwaoka | 2 | 20 | 2.94 |
| Yuri Nishikawa | 3 | 20 | 5.16 |
| Toshinori Kojima | 4 | 20 | 3.83 |
| Yasunori Osana | 5 | 92 | 18.24 |
| Akira Funahashi | 6 | 264 | 20.32 |
| Noriko Hiroi1 | 7 | 42 | 7.11 |
| Yuichiro Shibata | 8 | 157 | 37.99 |
| Naoki Iwanaga | 9 | 15 | 2.31 |
| Hideki Yamada | 10 | 20 | 3.81 |
| Hiroaki Kitano | 11 | 3515 | 539.37 |
| Hideharu Amano | 12 | 1375 | 210.21 |