| Presentation | 2005-05-12 Design of a Heap-tree Based Scalable Stochastic Biochemical Simulator on an FPGA Masato YOSHIMI, Yasunori OSANA, Yow IWAOKA, Tomonori FUKUSHIMA, Akira HUNAHASHI, Noriko HIROI, Yuichiro SHIBATA, Naoki IWANAGA, Hiroaki KITANO, Hideharu AMANO, |
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| PDF Download Page |  PDF download Page Link |
| Abstract(in Japanese) | (See Japanese page) |
| Abstract(in English) | Reconfigurabe system can be a high-performance solution in biological simulations. In this research report, the stochastic simulation algorithm proposed by Gibson is implemented on a Xilinx Virtex-IIPRO. The implemented simulator module includes heap-tree using Dualport BlockRAM and deep pipelined floating-point arithmetic units. And it outperforms the software implementation on Dual Xeon 2.4GHz by 17.1 times. |
| Keyword(in Japanese) | (See Japanese page) |
| Keyword(in English) | Heap tree / FPGA / Stochastic simulation |
| Paper # | RECONF2005-7 |
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| Conference Information | |
| Committee | RECONF |
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| Conference Date | 2005/5/5(1days) |
| Place (in Japanese) | (See Japanese page) |
| Place (in English) | |
| Topics (in Japanese) | (See Japanese page) |
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| Vice Chair | |
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| Paper Information | |
| Registration To | Reconfigurable Systems (RECONF) |
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| Language | JPN |
| Title (in Japanese) | (See Japanese page) |
| Sub Title (in Japanese) | (See Japanese page) |
| Title (in English) | Design of a Heap-tree Based Scalable Stochastic Biochemical Simulator on an FPGA |
| Sub Title (in English) | |
| Keyword(1) | Heap tree |
| Keyword(2) | FPGA |
| Keyword(3) | Stochastic simulation |
| 1st Author's Name | Masato YOSHIMI |
| 1st Author's Affiliation | Graduate School of Science and Technology, Keio University() |
| 2nd Author's Name | Yasunori OSANA |
| 2nd Author's Affiliation | Graduate School of Science and Technology, Keio University |
| 3rd Author's Name | Yow IWAOKA |
| 3rd Author's Affiliation | Graduate School of Science and Technology, Keio University |
| 4th Author's Name | Tomonori FUKUSHIMA |
| 4th Author's Affiliation | Graduate School of Science and Technology, Keio University |
| 5th Author's Name | Akira HUNAHASHI |
| 5th Author's Affiliation | Kitano Symbiotic Systems Project, ERATO-SORST, Japan Science and Technology Agency |
| 6th Author's Name | Noriko HIROI |
| 6th Author's Affiliation | Kitano Symbiotic Systems Project, ERATO-SORST, Japan Science and Technology Agency |
| 7th Author's Name | Yuichiro SHIBATA |
| 7th Author's Affiliation | Dept. of Computer and Information Sciences, Nagasaki University |
| 8th Author's Name | Naoki IWANAGA |
| 8th Author's Affiliation | Dept. of Computer and Information Sciences, Nagasaki University |
| 9th Author's Name | Hiroaki KITANO |
| 9th Author's Affiliation | Kitano Symbiotic Systems Project, ERATO-SORST, Japan Science and Technology Agency |
| 10th Author's Name | Hideharu AMANO |
| 10th Author's Affiliation | Graduate School of Science and Technology, Keio University |
| Date | 2005-05-12 |
| Paper # | RECONF2005-7 |
| Volume (vol) | vol.105 |
| Number (no) | 42 |
| Page | pp.pp.- |
| #Pages | 6 |
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