{"links":{},"id":18272,"metadata":{"_oai":{"id":"oai:ipsj.ixsq.nii.ac.jp:00018272","sets":["934:1119:1126:1130"]},"path":["1130"],"owner":"1","recid":"18272","title":["FPGAを用いた確率モデル生化学シミュレータ"],"pubdate":{"attribute_name":"公開日","attribute_value":"2007-02-15"},"_buckets":{"deposit":"45f8fe10-7b1b-4a73-ac09-295b0d93c44e"},"_deposit":{"id":"18272","pid":{"type":"depid","value":"18272","revision_id":0},"owners":[1],"status":"published","created_by":1},"item_title":"FPGAを用いた確率モデル生化学シミュレータ","author_link":["0","0"],"item_titles":{"attribute_name":"タイトル","attribute_value_mlt":[{"subitem_title":"FPGAを用いた確率モデル生化学シミュレータ"},{"subitem_title":"FPGA-based Stochastic Biochemical Simulator","subitem_title_language":"en"}]},"item_keyword":{"attribute_name":"キーワード","attribute_value_mlt":[{"subitem_subject":"リコンフィギャラブルシステム","subitem_subject_scheme":"Other"}]},"item_type_id":"3","publish_date":"2007-02-15","item_3_text_3":{"attribute_name":"著者所属","attribute_value_mlt":[{"subitem_text_value":"慶應義塾大学大学院理工学研究科"},{"subitem_text_value":"慶應義塾大学大学院理工学研究科"},{"subitem_text_value":"慶應義塾大学大学院理工学研究科"},{"subitem_text_value":"慶應義塾大学大学院理工学研究科"},{"subitem_text_value":"慶應義塾大学大学院理工学研究科"},{"subitem_text_value":"長崎大学工学部情報システム工学科"},{"subitem_text_value":"長崎大学工学部情報システム工学科"},{"subitem_text_value":"科学技術振興機構北野共生システムプロジェクト"},{"subitem_text_value":"科学技術振興機構北野共生システムプロジェクト"},{"subitem_text_value":"科学技術振興機構北野共生システムプロジェクト"},{"subitem_text_value":"慶應義塾大学大学院理工学研究科"}]},"item_3_text_4":{"attribute_name":"著者所属(英)","attribute_value_mlt":[{"subitem_text_value":"Graduate School of Science and Technology, Keio University","subitem_text_language":"en"},{"subitem_text_value":"Graduate School of Science and Technology, Keio University","subitem_text_language":"en"},{"subitem_text_value":"Graduate School of Science and Technology, Keio University","subitem_text_language":"en"},{"subitem_text_value":"Graduate School of Science and Technology, Keio University","subitem_text_language":"en"},{"subitem_text_value":"Graduate School of Science and Technology, Keio University","subitem_text_language":"en"},{"subitem_text_value":"Department of Computer and Information Sciences, Nagasaki University","subitem_text_language":"en"},{"subitem_text_value":"Department of Computer and Information Sciences, Nagasaki University","subitem_text_language":"en"},{"subitem_text_value":"Kitano Symbiotic Systems Project, ERATO-SORST, Japan Science and Technology Agency","subitem_text_language":"en"},{"subitem_text_value":"Kitano Symbiotic Systems Project, ERATO-SORST, Japan Science and Technology Agency","subitem_text_language":"en"},{"subitem_text_value":"Kitano Symbiotic Systems Project, ERATO-SORST, Japan Science and Technology Agency","subitem_text_language":"en"},{"subitem_text_value":"Graduate School of Science and Technology, Keio University","subitem_text_language":"en"}]},"item_language":{"attribute_name":"言語","attribute_value_mlt":[{"subitem_language":"jpn"}]},"item_publisher":{"attribute_name":"出版者","attribute_value_mlt":[{"subitem_publisher":"情報処理学会","subitem_publisher_language":"ja"}]},"publish_status":"0","weko_shared_id":-1,"item_file_price":{"attribute_name":"Billing file","attribute_type":"file","attribute_value_mlt":[{"url":{"url":"https://ipsj.ixsq.nii.ac.jp/record/18272/files/IPSJ-TACS4803005.pdf"},"date":[{"dateType":"Available","dateValue":"2009-02-15"}],"format":"application/pdf","billing":["billing_file"],"filename":"IPSJ-TACS4803005.pdf","filesize":[{"value":"847.2 kB"}],"mimetype":"application/pdf","priceinfo":[{"tax":["include_tax"],"price":"660","billingrole":"5"},{"tax":["include_tax"],"price":"330","billingrole":"6"},{"tax":["include_tax"],"price":"0","billingrole":"16"},{"tax":["include_tax"],"price":"0","billingrole":"11"},{"tax":["include_tax"],"price":"0","billingrole":"14"},{"tax":["include_tax"],"price":"0","billingrole":"15"},{"tax":["include_tax"],"price":"0","billingrole":"44"}],"accessrole":"open_date","version_id":"8240d893-d9ce-4aea-abd8-39d081ae0f3f","displaytype":"detail","licensetype":"license_note","license_note":"Copyright (c) 2007 by the Information Processing Society of Japan"}]},"item_3_creator_5":{"attribute_name":"著者名","attribute_type":"creator","attribute_value_mlt":[{"creatorNames":[{"creatorName":"吉見, 真聡"},{"creatorName":"長名, 保範"},{"creatorName":"岩岡, 洋"},{"creatorName":"西川, 由理"},{"creatorName":"小嶋, 利紀"},{"creatorName":"柴田, 裕一郎"},{"creatorName":"岩永, 直樹"},{"creatorName":"舟橋, 啓"},{"creatorName":"広井, 賀子"},{"creatorName":"北野, 宏明"},{"creatorName":"天野, 英晴"}],"nameIdentifiers":[{}]}]},"item_3_creator_6":{"attribute_name":"著者名(英)","attribute_type":"creator","attribute_value_mlt":[{"creatorNames":[{"creatorName":"Masato, Yoshimi","creatorNameLang":"en"},{"creatorName":"Yasunori, Osana","creatorNameLang":"en"},{"creatorName":"Yow, Iwaoka","creatorNameLang":"en"},{"creatorName":"Yuri, Nishikawa","creatorNameLang":"en"},{"creatorName":"Toshinori, Kojima","creatorNameLang":"en"},{"creatorName":"Yuichiro, Shibata","creatorNameLang":"en"},{"creatorName":"Naoki, Iwanaga","creatorNameLang":"en"},{"creatorName":"Akira, Funahashi","creatorNameLang":"en"},{"creatorName":"Noriko, Hiroi","creatorNameLang":"en"},{"creatorName":"Hiroaki, Kitano","creatorNameLang":"en"},{"creatorName":"Hideharu, Amano","creatorNameLang":"en"}],"nameIdentifiers":[{}]}]},"item_3_source_id_9":{"attribute_name":"書誌レコードID","attribute_value_mlt":[{"subitem_source_identifier":"AA11833852","subitem_source_identifier_type":"NCID"}]},"item_resource_type":{"attribute_name":"資源タイプ","attribute_value_mlt":[{"resourceuri":"http://purl.org/coar/resource_type/c_6501","resourcetype":"journal article"}]},"item_3_source_id_11":{"attribute_name":"ISSN","attribute_value_mlt":[{"subitem_source_identifier":"1882-7829","subitem_source_identifier_type":"ISSN"}]},"item_3_description_7":{"attribute_name":"論文抄録","attribute_value_mlt":[{"subitem_description":"確率モデル生化学シミュレーションアルゴリズム（SSA）は，定義した生化学システムの確率的挙動を厳密に計算できるアルゴリズムとして知られている．しかし，SSA の実行には膨大な計算時間が必要であり，高速な実行環境が求められている．本論文では，高速実行の一手法として，Xilinx 社のFPGA（XC2VP70-5）を用いて，SSA（First Reaction Method）を実行する回路を実装，評価した結果について述べる．高速化は，パイプライン化した演算ユニットを使い，複数スレッドのシミュレーションを同時に実行することで実現する．シミュレータ回路は，中間データをBlockRAM に保持し対象の生化学システムごとの回路再構成を要しない，実用的な構造になっている．ベンチマーク的に定義できる生化学システムTIS，D4S で評価した結果，Xeon 2.80 GHz による実行と比較して，TIS では約83 倍，D4S では約95 倍のスループット向上が可能であることを確認した．","subitem_description_type":"Other"}]},"item_3_description_8":{"attribute_name":"論文抄録(英)","attribute_value_mlt":[{"subitem_description":"This paper discusses an FPGA implementation and evaluation of a Stochastic Simulation Algorithm (SSA) called the First Reaction Method. SSAs are widely known as rigorous methods for simulating the stochastic behaviors of various biochemical systems, but also as CPU-hogging applications due to vast repetition of the algorithm. This work accelerates the execution by achieving high throughput with concurrent simulations of highly utilized pipelined arithmetic units. For upgrading practical utility, the design stores intermediate data in a BlockRAM so that reconfiguration is unnecessary for different target biochemical systems. Benchmark results on an FPGA (Xilinx XC2VP70-5) have shown that the circuit provides throughput of approximately 83 times and 95 times compared to software execution on Xeon 2.80 GHz when it was evaluated with biochemical models called TIS and D4S, respectively.","subitem_description_type":"Other"}]},"item_3_biblio_info_10":{"attribute_name":"書誌情報","attribute_value_mlt":[{"bibliographicPageEnd":"58","bibliographic_titles":[{"bibliographic_title":"情報処理学会論文誌コンピューティングシステム（ACS）"}],"bibliographicPageStart":"45","bibliographicIssueDates":{"bibliographicIssueDate":"2007-02-15","bibliographicIssueDateType":"Issued"},"bibliographicIssueNumber":"SIG3(ACS17)","bibliographicVolumeNumber":"48"}]},"relation_version_is_last":true,"weko_creator_id":"1"},"created":"2025-01-18T22:51:03.013676+00:00","updated":"2025-01-22T22:52:20.144629+00:00"}