{"created":"2025-01-18T23:32:54.219017+00:00","metadata":{"_oai":{"id":"oai:ipsj.ixsq.nii.ac.jp:00077254","sets":["1164:5352:6362:6520"]},"path":["6520"],"owner":"10","recid":"77254","title":["GPUを用いた配列相同性検索ツールのマルチGPU向け最適化"],"pubdate":{"attribute_name":"公開日","attribute_value":"2011-09-06"},"_buckets":{"deposit":"f8565ece-874d-4706-9c16-ef3edba30151"},"_deposit":{"id":"77254","pid":{"type":"depid","value":"77254","revision_id":0},"owners":[10],"status":"published","created_by":10},"item_title":"GPUを用いた配列相同性検索ツールのマルチGPU向け最適化","author_link":["0","0"],"item_titles":{"attribute_name":"タイトル","attribute_value_mlt":[{"subitem_title":"GPUを用いた配列相同性検索ツールのマルチGPU向け最適化"},{"subitem_title":"Optimizing GPU based homology search tool for multi-GPU environment","subitem_title_language":"en"}]},"item_type_id":"4","publish_date":"2011-09-06","item_4_text_3":{"attribute_name":"著者所属","attribute_value_mlt":[{"subitem_text_value":"東京工業大学工学部情報工学科"},{"subitem_text_value":"東京工業大学大学院情報理工学研究科"},{"subitem_text_value":"東京工業大学大学院情報理工学研究科"},{"subitem_text_value":"東京工業大学工学部情報工学科／東京工業大学大学院情報理工学研究科"}]},"item_4_text_4":{"attribute_name":"著者所属(英)","attribute_value_mlt":[{"subitem_text_value":"Depart of Computer Science,Tokyo Institute of Technology","subitem_text_language":"en"},{"subitem_text_value":"Graduate School of Information Science and Engineering, Tokyo Institute of Technology","subitem_text_language":"en"},{"subitem_text_value":"Graduate School of Information Science and Engineering, Tokyo Institute of Technology","subitem_text_language":"en"},{"subitem_text_value":"Depart of Computer Science,Tokyo Institute of Technology / Graduate School of Information Science and Engineering, Tokyo Institute of Technology","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/77254/files/IPSJ-BIO11026002.pdf"},"date":[{"dateType":"Available","dateValue":"2013-09-06"}],"format":"application/pdf","billing":["billing_file"],"filename":"IPSJ-BIO11026002.pdf","filesize":[{"value":"272.4 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":"41"},{"tax":["include_tax"],"price":"0","billingrole":"44"}],"accessrole":"open_date","version_id":"a61d63cc-b60d-4b6d-81bf-aec9f9c93be9","displaytype":"detail","licensetype":"license_note","license_note":"Copyright (c) 2011 by the Information Processing Society of Japan"}]},"item_4_creator_5":{"attribute_name":"著者名","attribute_type":"creator","attribute_value_mlt":[{"creatorNames":[{"creatorName":"坂田, 幸佑"},{"creatorName":"鈴木, 脩司"},{"creatorName":"石田, 貴士"},{"creatorName":"秋山, 泰"}],"nameIdentifiers":[{}]}]},"item_4_creator_6":{"attribute_name":"著者名(英)","attribute_type":"creator","attribute_value_mlt":[{"creatorNames":[{"creatorName":"Kousuke, Sakata","creatorNameLang":"en"},{"creatorName":"Shuji, Suzuki","creatorNameLang":"en"},{"creatorName":"Takashi, Ishida","creatorNameLang":"en"},{"creatorName":"Yutaka, Akiyama","creatorNameLang":"en"}],"nameIdentifiers":[{}]}]},"item_4_source_id_9":{"attribute_name":"書誌レコードID","attribute_value_mlt":[{"subitem_source_identifier":"AA12055912","subitem_source_identifier_type":"NCID"}]},"item_4_textarea_12":{"attribute_name":"Notice","attribute_value_mlt":[{"subitem_textarea_value":"SIG Technical Reports are nonrefereed and hence may later appear in any journals, conferences, symposia, etc."}]},"item_resource_type":{"attribute_name":"資源タイプ","attribute_value_mlt":[{"resourceuri":"http://purl.org/coar/resource_type/c_18gh","resourcetype":"technical report"}]},"item_4_description_7":{"attribute_name":"論文抄録","attribute_value_mlt":[{"subitem_description":"感度の高い配列相同性検索を必要とするメタゲノム解析では、大量の DNA 断片配列を短時間で出力する次世代シークエンサーのデータの解析に非常に多くの計算時間を要する。この問題に対して、我々は GPU を用いることで高速に配列相同性検索を実行可能な GHOSTM システムを開発したが、依然として現実時間での解析は困難であった。そこで本研究では、多数の GPU を利用することで高速化を試みた。各計算ノードに複数の GPU が搭載されたシステムを想定し、まず GHOSTM の 1 ノード内での使用メモリを考慮した並列化実装を行い、次に並列化実装したものを、さらに複数ノードで自動処理するシステムを開発した。その結果、24 枚の GPU を使用する事で次世代シークエンサーが 1 日に出力するデータを約 10 時間程度で解析が可能となった。","subitem_description_type":"Other"}]},"item_4_description_8":{"attribute_name":"論文抄録(英)","attribute_value_mlt":[{"subitem_description":"Large amount of homology searches are required for analyzing vast fragment sequences produced by a next-generation sequencer in metagenomics. Thus, we developed fast GPU based homology search tool (GHOSTM) in our previous research. However, the performance of the tool was insufficient for processing a data obtained from a next-generation sequencer in real time. Therefore, in this study, we attempted to speed-up it by using many GPUs. First, we reimplemented GHOSTM to use multiple GPUs on a single node. Then, we developed automatic system to run the reimplemented tool on a number of nodes. As results, the system with 24GPUs enabled us to analyze fragment sequences produced by a next-generation sequencer in a day within about 10 hours.","subitem_description_type":"Other"}]},"item_4_biblio_info_10":{"attribute_name":"書誌情報","attribute_value_mlt":[{"bibliographicPageEnd":"7","bibliographic_titles":[{"bibliographic_title":"研究報告バイオ情報学（BIO）"}],"bibliographicPageStart":"1","bibliographicIssueDates":{"bibliographicIssueDate":"2011-09-06","bibliographicIssueDateType":"Issued"},"bibliographicIssueNumber":"2","bibliographicVolumeNumber":"2011-BIO-26"}]},"relation_version_is_last":true,"weko_creator_id":"10"},"id":77254,"updated":"2025-01-21T20:59:47.280095+00:00","links":{}}