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アイテム

  1. 研究報告
  2. バイオ情報学(BIO)
  3. 2010
  4. 2010-BIO-021

RNA-RNA Interaction Prediction Using Integer Programming with Threshold Cut

https://ipsj.ixsq.nii.ac.jp/records/69668
https://ipsj.ixsq.nii.ac.jp/records/69668
47384094-9bb5-48b3-b617-bd49a81a4e80
名前 / ファイル ライセンス アクション
IPSJ-BIO10021032.pdf IPSJ-BIO10021032.pdf (169.9 kB)
Copyright (c) 2010 by the Information Processing Society of Japan
オープンアクセス
Item type SIG Technical Reports(1)
公開日 2010-06-11
タイトル
タイトル RNA-RNA Interaction Prediction Using Integer Programming with Threshold Cut
タイトル
言語 en
タイトル RNA-RNA Interaction Prediction Using Integer Programming with Threshold Cut
言語
言語 eng
資源タイプ
資源タイプ識別子 http://purl.org/coar/resource_type/c_18gh
資源タイプ technical report
著者所属
Bioinformatics Center, Institute for Chemical Research, Kyoto University
著者所属
Graduate School of Frontier Sciences, University of Tokyo
著者所属
Mizuho Information & Research Institute, Inc/Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST)
著者所属
Department of Mathematical Sciences, Faculty of Science and Engineering, Doshisha University
著者所属
Graduate School of Frontier Sciences, University of Tokyo/Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST)
著者所属
Bioinformatics Center, Institute for Chemical Research, Kyoto University
著者所属(英)
en
Bioinformatics Center, Institute for Chemical Research, Kyoto University
著者所属(英)
en
Graduate School of Frontier Sciences, University of Tokyo
著者所属(英)
en
Mizuho Information & Research Institute, Inc / Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST)
著者所属(英)
en
Department of Mathematical Sciences, Faculty of Science and Engineering, Doshisha University
著者所属(英)
en
Graduate School of Frontier Sciences, University of Tokyo / Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST)
著者所属(英)
en
Bioinformatics Center, Institute for Chemical Research, Kyoto University
著者名 Yuki, Kato Kengo, Sato Michiaki, Hamada Yoshihide, Watanabe Kiyoshi, Asai Tatsuya, Akutsu

× Yuki, Kato Kengo, Sato Michiaki, Hamada Yoshihide, Watanabe Kiyoshi, Asai Tatsuya, Akutsu

Yuki, Kato
Kengo, Sato
Michiaki, Hamada
Yoshihide, Watanabe
Kiyoshi, Asai
Tatsuya, Akutsu

Search repository
著者名(英) Yuki, Kato Kengo, Sato Michiaki, Hamada Yoshihide, Watanabe Kiyoshi, Asai Tatsuya, Akutsu

× Yuki, Kato Kengo, Sato Michiaki, Hamada Yoshihide, Watanabe Kiyoshi, Asai Tatsuya, Akutsu

en Yuki, Kato
Kengo, Sato
Michiaki, Hamada
Yoshihide, Watanabe
Kiyoshi, Asai
Tatsuya, Akutsu

Search repository
論文抄録
内容記述タイプ Other
内容記述 Much attention has been focused on predicting RNA-RNA interaction since it is a key to identifying possible targets of noncoding small RNAs that regulate gene expression post-transcriptionally. A number of computational studies have so far been devoted to predicting joint secondary structures or binding sites under a specific class of interactions. In this technical report, we propose RactIP, a fast and accurate prediction method for RNA-RNA interaction of general type based on integer programming. RactIP can integrate approximate information on an ensemble of equilibrium joint structures into the objective function using posterior internal and external base paring probabilities. Experimental results show that prediction accuracy of RactIP is at least comparable to that of several state-of-the-art methods for RNA-RNA interaction prediction. Moreover, we demonstrate that RactIP can run incomparably faster than competitive methods for predicting joint secondary structures.
論文抄録(英)
内容記述タイプ Other
内容記述 Much attention has been focused on predicting RNA-RNA interaction since it is a key to identifying possible targets of noncoding small RNAs that regulate gene expression post-transcriptionally. A number of computational studies have so far been devoted to predicting joint secondary structures or binding sites under a specific class of interactions. In this technical report, we propose RactIP, a fast and accurate prediction method for RNA-RNA interaction of general type based on integer programming. RactIP can integrate approximate information on an ensemble of equilibrium joint structures into the objective function using posterior internal and external base paring probabilities. Experimental results show that prediction accuracy of RactIP is at least comparable to that of several state-of-the-art methods for RNA-RNA interaction prediction. Moreover, we demonstrate that RactIP can run incomparably faster than competitive methods for predicting joint secondary structures.
書誌レコードID
収録物識別子タイプ NCID
収録物識別子 AA12055912
書誌情報 研究報告バイオ情報学(BIO)

巻 2010-BIO-21, 号 32, p. 1-8, 発行日 2010-06-11
Notice
SIG Technical Reports are nonrefereed and hence may later appear in any journals, conferences, symposia, etc.
出版者
言語 ja
出版者 情報処理学会
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