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NAKAMURA Shugo  中村 周吾

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Researcher Number 90272442
Other IDs
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Affiliation *help 2016 – 2018 : 東京大学, 大学院農学生命科学研究科(農学部), 准教授
2017 – 2018 : 東洋大学, 情報連携学部, 教授
2007 – 2011 : The University of Tokyo, Graduate School of Agricultural and Life Sciences, Associate Professor
2006 : 東京大学, 大学院農学生命科学研究科, 助教授
2001 – 2005 : Graduate School of Agriculture and Life Sciences, THE UNIVERSITY OF TOKYO, RESEARCH ASSOCIATE, 大学院・農学生命科学研究科, 助教授
1998 – 2000 : 東京大学, 大学院・農学生命科学研究科, 助手
Review Section/Research Field
Principal Investigator
Bioinformatics/Life informatics / Biophysics / Biophysics
Except Principal Investigator
Biological Sciences / Science and Engineering / Bioinformatics/Life informatics / 計算機科学
Keywords
Principal Investigator
タンパク質 / 構造予測 / ディスオーダー / 核酸 / 複合体 / タンパク質ループ領域 / 機能予測 / 局所構造情報 / 並列計算技術 / nucleic acids … More / 拡張アンサンブル法 / 局所配列構造相関 / 立体構造予測 / ディスオーダー蛋白質 / マルチカノニカル分子動力学法 / ミニヘアピン分子 / SVM / シミュレーション / ダイナミクス / generalized ensemble method / フォールディング / mini hairpin molecule / folding / トランスファーRNA / コンピュータシミュレーション / 蛋白質 … More
Except Principal Investigator
構造予測 / タンパク質 / 並列計算 / 生体生命情報学 / プロテオーム / 蛋白質 / 統計ポテンシャル / グリッドコンピューティング / 資源管理 / ミドルウェア / 分散共有メモリ / 分子動力学法 / アミノ酸配列 / 大規模並列計算機 / BLOSUM / バイオインフォマティクス / 分子間相互作用 / 構造精密化 / parallel computing / 複合体 / 機能予測 / 科学技術計算 / scheduling / molecular dynamics / 分子動力学シミュレーション / 二次構造 / computational chemistry / プロセッサ割当て / 分子動力学計算 / スケジューリング / 分子動力学 / 遺伝子クラスタリング / 計算化学 / 並列プログラミング環境 / processor allocation / 構造評価 / MPI / ホモロジーモデリング / フラグメントアセンブリ方式 / parallel programming environment / ソフトウェア学 / molecular dynamics simulation / MP1 / 疎水性相互作用 / ハイパフォーマンス・コンピューティング / 蛋白質構造評価 / 蛋白質構造予測 / 変性剤 / マスタ / 配列類似度 / protein structure refinement / ブロテオーム / アビニシオ法 / 空間分割法 / ネットワーク / 尿素 / スレープ方式 / protein structure assessment / 並列計算環境 / 大規模並列システム / 分子動力学シュミレーション / 分子シミュレーション / protein structure prediction / 蛋白質構造精密化 / ab initio法 / マルチカノニカル法 / bioinformatics / エネルギー最小化計算 / 動的資源管理 / proteome / 構造クラスタリング / 疎水効果 / 不規則領域 / MPI (Message Passing Interface) Less
  • Research Projects

    (21results)
  • Research Products

    (66results)
  • Co-Researchers

    (7People)
  •  Comprehensive analysis of the structural information of disorder proteins using computersPrincipal Investigator

    • Principal Investigator
      NAKAMURA Shugo
    • Project Period (FY)
      2009 – 2011
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Bioinformatics/Life informatics
    • Research Institution
      The University of Tokyo
  •  タンパク質相互作用のネットワーク予測から原子レベルの結合予測までの統合的研究

    • Principal Investigator
      清水 謙太郎
    • Project Period (FY)
      2008 – 2010
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  Database Development and Functional Analysis of Protein Disorder Regions

    • Principal Investigator
      SHIMIZU Kentaro
    • Project Period (FY)
      2008 – 2010
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Bioinformatics/Life informatics
    • Research Institution
      The University of Tokyo
  •  Development of protein function prediction system based on local sequence-structure relationshipsPrincipal Investigator

    • Principal Investigator
      NAKAMURA Shugo
    • Project Period (FY)
      2007 – 2008
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Bioinformatics/Life informatics
    • Research Institution
      The University of Tokyo
  •  高精度のドッキング機能を有するタンパク質間相互作用予測システムの開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2006 – 2007
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  高精度のドッキング機能を有するタンパク質間相互作用予測システムの開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2005
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  Development of methods for high-resolution protein structure modeling and for model structure assessment

    • Principal Investigator
      SHIMIZU Kentaro
    • Project Period (FY)
      2005 – 2007
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Bioinformatics/Life informatics
    • Research Institution
      The University of Tokyo
  •  ホモロジーモデリングとアビニシオ法の統合による高精度タンパク質構造予測手法の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2004
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  大規模分散データの真に透過で効率的な共有を実現する分散共有配列システムの開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2004 – 2005
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Science and Engineering
    • Research Institution
      The University of Tokyo
  •  Analysis of stability and dynamics of tertiary structure of nucleic acid molecules by using computer simulationPrincipal Investigator

    • Principal Investigator
      NAKAMURA Shugo
    • Project Period (FY)
      2004 – 2005
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      Biophysics
    • Research Institution
      The University of Tokyo
  •  ホモロジーモデリングとアビニシオ法の統合による高精度タンパク質構造予測手法の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2003
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  大規模分散データの効率的な共有を実現する並列コンピューティング環境の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2003
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Science and Engineering
    • Research Institution
      The University of Tokyo
  •  タンパク質の局所構造情報を利用したab initio立体構造・機能予測手法の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2002
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  大規模分散データの効率的な共有を実現する並列コンピューティング環境の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2002
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas
    • Review Section
      Science and Engineering
    • Research Institution
      The University of Tokyo
  •  タンパク質の局所構造情報を利用したab initio立体構造・機能予測手法の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2001
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas (C)
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  大規模分散データの効率的な共有を実現する並列コンピューティング環境の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2001
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas (C)
    • Review Section
      Science and Engineering
    • Research Institution
      The University of Tokyo
  •  並列計算技術を用いたタンパク質・核酸複合体のダイナミクスの解析Principal Investigator

    • Principal Investigator
      中村 周吾
    • Project Period (FY)
      2001 – 2002
    • Research Category
      Grant-in-Aid for Young Scientists (B)
    • Research Field
      Biophysics
    • Research Institution
      The University of Tokyo
  •  タンパク質の局所構造情報を利用したab initio立体構造・機能予測手法の開発

    • Principal Investigator
      清水 謙多郎
    • Project Period (FY)
      2000
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas (C)
    • Review Section
      Biological Sciences
    • Research Institution
      The University of Tokyo
  •  Development of a Parallel Programming Environment with Dynamic Resource Management Facilities

    • Principal Investigator
      SHIMIZU Kentaro
    • Project Period (FY)
      1999 – 2001
    • Research Category
      Grant-in-Aid for Scientific Research (B)
    • Research Field
      計算機科学
    • Research Institution
      THE UNIVERSITY OF TOKYO
  •  蛋白質の安定性・折れたたみ機構における水・変性剤の分子メカニズム

    • Principal Investigator
      池口 満徳
    • Project Period (FY)
      1998
    • Research Category
      Grant-in-Aid for Scientific Research on Priority Areas (A)
    • Research Institution
      The University of Tokyo
  •  Efficient Processor Allocation Policies for Massively Parallel Systems

    • Principal Investigator
      SHIMIZU Kentaro
    • Project Period (FY)
      1998 – 2000
    • Research Category
      Grant-in-Aid for Scientific Research (C)
    • Research Field
      計算機科学
    • Research Institution
      THE UNIVERSITY OF TOKYO

All 2012 2011 2010 2009 2008 2007 2006 2005 2004 Other

All Journal Article Presentation Book

  • [Book] 遺伝子医学MOOK14次世代創薬テクノロジー実践:インシリコ創薬の最前線(タンパク質のabinitio構造予測)2009

    • Author(s)
      中村周吾,清水謙多郎
    • Publisher
      メディカルドゥ
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Book] タンパク質のab initio構造予測2009

    • Author(s)
      中村周吾
    • Total Pages
      6
    • Publisher
      メディカルドゥ
    • Data Source
      KAKENHI-PROJECT-20016006
  • [Book] タンパク質のab initio構造予測2009

    • Author(s)
      中村周吾
    • Total Pages
      6
    • Publisher
      メディカルドゥ
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Prospects for tertiary structure prediction of RNA based on secondary structure information2012

    • Author(s)
      S.Yamasaki, S.Nakamura, K.Fukui
    • Journal Title

      Journal of Chemical Information and Modeling

      Volume : 52 Pages : 557-567

    • DOI
      10.1021/ci2003413
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289, KAKENHI-PROJECT-22700317
  • [Journal Article] Blind prediction of quaternary structures of homo-oligomeric proteins from amino acid sequences based on templates2012

    • Author(s)
      M. Morita, M. Kakuta, K. Shimizu, S. Nakamura
    • Journal Title

      J. Proteome Sci. Comput. Biol.

      Volume : 1

    • URL
      http://www.hoajonline.com/jpscb/1/1/1
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] Protein-protein docking using multi-layered spherical basis functions2011

    • Author(s)
      K.Sumikoshi, T.Terada, S.Nakamura, K.Shimizu
    • Journal Title

      Int.Proc.Chem., Biol.Environ.Eng.

      Volume : 5 Pages : 342-347

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] (2,4/5) Mutually exclusive expression of Gαia and Gα14 reveals diversification of taste receptor cells in zebrafish2011

    • Author(s)
      M.Ohmoto, S.Okada, S.Nakamura, K.Abe, I.Matsumoto
    • Journal Title

      J. Comp. Neurol.

      Volume : 519 Pages : 1616-1629

    • DOI
      10.1002/cne.22589
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289, KAKENHI-PROJECT-23248058, KAKENHI-PROJECT-23688016
  • [Journal Article] Prediction of N-myristoylation modification of proteins by SVM2011

    • Author(s)
      W. Cao, K. Sumikoshi, S. Nakamura, T. Terada, K. Shimizu
    • Journal Title

      Bioinformation

      Volume : 6(5) Pages : 204-206

    • URL
      http://www.bioinformation.net/006/97320630006204.pdf
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] BUDDY-system : A web service for constructing a dataset of protein pairs between ligand-bound and unbound stares2011

    • Author(s)
      M. Morita, T. Terada, S. Nakamura, K. Shimizu
    • Journal Title

      BMC Reserch Notes

      Volume : 4 Pages : 143-143

    • DOI
      10.1186/1756-0500-4-143
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289, KAKENHI-PROJECT-23300109
  • [Journal Article] Protein-protein docking using multi-layered spherical basis functions2011

    • Author(s)
      K. Sumikoshi, T. Terada, S. Nakamura, K. Shimizu
    • Journal Title

      Int. Proc. Chem., Biol. Environ. Eng.

      Volume : 5 Pages : 342-347

    • URL
      http://www.ipcbee.com/vol5/76-X10027.pdf
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] Prediction of N-myristoylation modification of proteins by SVM2011

    • Author(s)
      W.Cao, K.Sumikoshi, S.Nakamura, T.Terada, K.Shimizu
    • Journal Title

      Bioinformation

      Volume : 6 Pages : 204-206

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] Protein-Protein Docking Using Multi-layered Spherical Basis Functions2011

    • Author(s)
      K.Sumikoshi, T.Terada, S.Nakamura, K.Shimizu
    • Journal Title

      Proceedings of the 2011 International Conference on Bioscience, Biochemistry and Bioinformatics

      Pages : 342-347

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Prediction of carbohydrate-binding proteins from sequences using support vector machines2010

    • Author(s)
      S.Someya, M.Kakuta, M.Morita, K. Sumikoshi, W.Cao, Z.Ge, O.Hirose, S.Nakamura, T.Terada, K.Shimizu
    • Journal Title

      Adv.Bioinform.

      Volume : ArticleID:289301

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] Prediction of carbohydrate-binding proteins from sequences using support vector machines.2010

    • Author(s)
      S.Someya, M.Kakuta, M.Morita, K.Sumikoshi, W.Cao, Z.Ge, O.Hirose, S.Nakamura, T.Terada, K.Shimizu
    • Journal Title

      Advances in Bioinformatics

      Pages : 289301-289301

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Prediction of carbohydrate-binding proteins from sequences using support vector machines2010

    • Author(s)
      S. Someya, M. Kakuta, M. Morita, K. Sumikoshi, W. Cao, Z. Ge, O. Hirose, S. Nakamura, T. Terada, K. Shimizu
    • Journal Title

      Adv. Bioinform.

    • DOI
      10.1155/2010/289301
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] Computational Protocol for Screening GPI-anchored Proteins2009

    • Author(s)
      Cao Wei, Kazuya Sumikoshi, Tohru Terada, Shugo Nakamura, Katsuhiko Kitamoto, Kentaro Shimizu
    • Journal Title

      Proceedings of the First International ConBerence onBioinlbrmatics and Computational Biology (掲載確定)

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20016006
  • [Journal Article] Comprehensive analysis of sequence-structure relationships in the loop regions of proteins2009

    • Author(s)
      S.Nakamura
    • Journal Title

      GIW 2009

      Volume : 23 Pages : 106-116

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Anti-metatype peptides, a molecular tool with high sensitivity and specificity to monitor small ligands.2009

    • Author(s)
      J. Inaba, S. Nakamura, K. Shimizu, T. Asami, Y. Suzuki
    • Journal Title

      Analytical Biochemistry 388

      Pages : 63-70

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Comprehensive analysis of sequence-structure relationships in the loop regions of proteins2009

    • Author(s)
      中村周吾
    • Journal Title

      Genome Informatics 23

      Pages : 106-116

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] Computational Protocol for Screening GPI-anchored Proteins, Proceedings of the First International Conference on Bioinformatics and Computational Biology (BICoB)2009

    • Author(s)
      W.Cao, K.Sumikoshi, T.Terada, S.Nakamura, K.Kitamoto, K.Shimizu
    • Journal Title

      Springer Lecture Notes in Bioinformatics Series 5462

      Pages : 164-175

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Comprehensive analysis of sequence-structure relationships in the loop regions of proteins2009

    • Author(s)
      S.Nakamura, K.Shimizu
    • Journal Title

      GIW 2009 23

      Pages : 106-116

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Anti-metatype peptides, a molecular tool with high sensitivity and specificity to monitor small ligands2009

    • Author(s)
      J. Inaba, S. Nakamura, K. Shimizu, T. Asami, Y. Suzuki
    • Journal Title

      Anal. Biochem. 388(1)

      Pages : 63-70

    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Computational Protocol for Screening GPI-anchored Proteins, Proceedings of the First International Conference on Bioinformatics and Computational Biology (BICoB) 20092009

    • Author(s)
      W. Cao, K. Sumikoshi, T. Terada, S. Nakamura, K. Kitamoto, K. Shimizu
    • Journal Title

      Springer Lecture Notes in Bioinformatics Series (in press)

    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Comprehensive analysis of sequence-structure relationships in the loop regions of proteins2009

    • Author(s)
      S. Nakamura, K. Shimizu
    • Journal Title

      Genome Inform.

      Volume : 23(1) Pages : 106-116

    • URL
      http://giw.hgc.jp/giw2009/pdf/33-Nakamura.pdf
    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Journal Article] Comprehensive analysis of sequence-structure relationships in the loop regions of proteins2009

    • Author(s)
      S.Nakamura
    • Journal Title

      GIW 2009

      Volume : 23 Pages : 106-116

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20016006
  • [Journal Article] Highly accurate method for ligand-binding site prediction in unbound state (apo) protein structures.2008

    • Author(s)
      M. Morita, S. Nakamura, K. Shimizu
    • Journal Title

      PROTEINS 83

      Pages : 468-479

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Highly accurate method for ligand-binding site prediction in unbound state (apo) protein structures2008

    • Author(s)
      M.Morita, S.Nakamura, K.Shimizu
    • Journal Title

      PROTEINS: Structure, Function, and Bioinformatics 73, 2

      Pages : 468-479

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Highly accurate method for ligand-binding site prediction in unbound state (apo) protein structures2008

    • Author(s)
      M. Morita, S. Nakamura, K. Shimizu
    • Journal Title

      PROTEINS 印刷中(掲載確定)

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Prediction of protein-protein interaction sites using only sequence information and using both sequence and structural information2008

    • Author(s)
      M. Kakuta, S. Nakamura, K. Shimizu
    • Journal Title

      IPSJ Transactions on Bioinformatics(SIG 5(TBIO4)) 49

      Pages : 25-35

    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Highly accurate method for ligand-binding site prediction in unbound state (apo) protein structures2008

    • Author(s)
      M. Morita, S. Nakamura, K. Shimizu
    • Journal Title

      PROTEINS 73(2)

      Pages : 468-479

    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Prediction of protein-protein interaction sites using only sequence information and using both sequence and structural information2008

    • Author(s)
      M.Kakuta, S.Nakamura, K.Shimizu
    • Journal Title

      IPSJ Transactions on Bioinformatics 49

      Pages : 25-35

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Journal Article] Highly accurate method for ligand-binding site prediction in unbound state (apo) protein structures2008

    • Author(s)
      Mizuki Morita, Shugo Nakamura, Kentaro Shimizu
    • Journal Title

      PROTEINS : Structure, Function, and Bioinformatics 73

      Pages : 468-479

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-20016006
  • [Journal Article] Prediction of protein-protein interaction sites using only sequence information and using both sequence and structural information2007

    • Author(s)
      M. Kakuta, S. Nakamura, K. Shimizu
    • Journal Title

      IPSJ Transactions on Bioinformatics 49

      Pages : 25-35

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Mechanism of the difference in the binding affinity of E.coli tRNAGln to glutaminyl-tRNA synthetase caused by non-interface nucleotides in variable loop2007

    • Author(s)
      Satoshi Yamazaki, Shugo Nakamura, Tohru Terada, Kentaro Shimizu
    • Journal Title

      Biophysical Journal 92

      Pages : 192-200

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Journal Article] IgE^b immune complexes activate macrophages through Fc ^γRIV binding2007

    • Author(s)
      Masayuki Hirano, Randall S. Davis, W. David Fine, Shugo Nakamura, Kentaro Shimizu, Hirokazu Yagi, Koichi Kato, Robert P. Stephan, Max D. Cooper
    • Journal Title

      Nature Immunology 8

      Pages : 762-771

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Journal Article] Potential for Assessing Quality of Protein Structure hated on Contact Number Prediction2006

    • Author(s)
      Takashi Ishida, Shugo Nakamura, Kentaro Shimizu
    • Journal Title

      PROTEINS : Structure, Function, and Bioinformatics 64, 4

      Pages : 940-947

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Journal Article] Insight of the Signal Motif of GPI-(like)-anchored Proteins by Using SVM2006

    • Author(s)
      Wei Cao, Kazuya Sumikoshi, Tohru Terada, Shugo Nakamura, Kentaro Shimizu
    • Journal Title

      Proceedings of the 2006 International Conference on Bioinformatics and Computational Biology(BIOCOMP'06)

      Pages : 541-546

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Journal Article] Folding free-energy landscape of a 10-residue mini-protein, chignolin2006

    • Author(s)
      Daisuke Satoh, Tohru Terada, Shugo Nakamura, Kentaro Shimizu
    • Journal Title

      FEBS Letters 580

      Pages : 3422-3426

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Journal Article] A fast protein-protein docking algorithm using series expansion in terms of spherical basis functions2005

    • Author(s)
      Kazuya Sumikoshi, Tohru Terada, Shugo Nakamura, Kentaro Shimizu
    • Journal Title

      Proceedings of the 16th International Conference on Genome Informatics(GIW2005) 16

      Pages : 161-173

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Journal Article] Distributed shared arrays : Portable shared-memory programming interface for multiple computer systems2005

    • Author(s)
      A.Nomoto, Y.Watanabe, W.Kaneko, T.Terada, S.Nakamura, K.Shimizu
    • Journal Title

      Proceedings of the 2004 Symposium on Applications & the Internet (印刷中)

    • Data Source
      KAKENHI-PROJECT-16570132
  • [Journal Article] Improvement of accuracy of free-energy landscapes of peptids calculated with generalized Born model by using numerical solutions of Poisson's equation2004

    • Author(s)
      T.Ishizuka, T.Terada, S.Nakamura, K.Shimizu
    • Journal Title

      Chemical Physics Letters 393

      Pages : 546-551

    • Data Source
      KAKENHI-PROJECT-16570132
  • [Journal Article] Computational Protocol for Screening GPI-anchored Proteins.

    • Author(s)
      W. Cao, K. Sumikoshi, T Terada, S. Nakamura, K. Kitamoto K, Shimizu
    • Journal Title

      Proc. 1st Int'l Conf. Bioinform. Comput. Biol. (BICoB) 2009 (印刷中 掲載確定)

    • Peer Reviewed
    • Data Source
      KAKENHI-PROJECT-19500251
  • [Journal Article] Highly accurate method for ligand-binding site prediction in unbound state(apo) protein structures

    • Author(s)
      Mizuki Morita, Shugo Nakamura, Kentaro Shimizu
    • Journal Title

      PROTEINS : Structure, Function, and Bioinformatics, accepted

    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Presentation] 蛋白質のホモマー構造予測2011

    • Author(s)
      中村周吾
    • Organizer
      計算タンパク質科学研究会
    • Place of Presentation
      伊良湖
    • Year and Date
      2011-08-30
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Presentation] アミノ酸配列からのタンパク質立体構造予測と4次構造予測2011

    • Author(s)
      中村周吾
    • Organizer
      日本生化学会大会
    • Place of Presentation
      国立京都国際会館
    • Year and Date
      2011-09-23
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Presentation] Bilab in CASP9-モノマーおよび複合体構造予測-2011

    • Author(s)
      中村周吾
    • Organizer
      IPAB公開セミナーCASP9特集
    • Place of Presentation
      東京工業大学
    • Year and Date
      2011-02-24
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Presentation] アミノ酸配列からのタンパク質立体構造予測と4次構造予測2011

    • Author(s)
      中村周吾
    • Organizer
      第84回日本生化学会大会シンポジウム
    • Place of Presentation
      国立京都国際会館(招待講演)
    • Year and Date
      2011-09-23
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Presentation] タンパク質-タンパク質ドッキングへの分子内フレキシビリティの導入2010

    • Author(s)
      角越和也,中村周吾,清水謙多郎
    • Organizer
      日本生物物理学会第48回年会
    • Place of Presentation
      東北大学(宮城)
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] Carbohydrate-binding proteins : A sequence-based prediction model and the database development2010

    • Author(s)
      W.Cao, S.Someya, M.Kakuta, K.Sumikoshi, S.Nakamura, T.Terada, K. K. K.Shimizu
    • Organizer
      The 2010 Annual Conference of the Japanese Society for Bioinformatics (JSBi2010)
    • Place of Presentation
      九州大学(福岡)
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] タンパク質立体構造予測サーバおよびモデル構造の品質評価プラットフォームの開発2010

    • Author(s)
      中村周吾
    • Organizer
      日本生物物理学会年会
    • Place of Presentation
      仙台
    • Year and Date
      2010-09-22
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] 蛋白質モデル構造の品質評価について2010

    • Author(s)
      中村周吾
    • Organizer
      計算タンパク質科学研究会
    • Place of Presentation
      城崎大会議館
    • Year and Date
      2010-09-04
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Presentation] 複数のサポートベクタマシンの組み合わせによるタンパク質局所構造予測法の開発2009

    • Author(s)
      中村周吾
    • Organizer
      日本生物物理学会第47回年会
    • Place of Presentation
      徳島
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] Development of protein local structure prediction method based on combination of multiple support vector machines2009

    • Author(s)
      中村周吾
    • Organizer
      生物物理学会年会
    • Place of Presentation
      アスティとくしま
    • Year and Date
      2009-10-30
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Presentation] タンパク質の局所配列構造相関について2009

    • Author(s)
      中村周吾
    • Organizer
      計算タンパク質科学研究会
    • Place of Presentation
      聴泉閣かめや
    • Year and Date
      2009-09-03
    • Data Source
      KAKENHI-PROJECT-21500289
  • [Presentation] 複数のサポートベクタマシンの組み合わせによるタンパク質局所構造予測法の開発2009

    • Author(s)
      中村周吾
    • Organizer
      日本生物物理学会第47回年会
    • Place of Presentation
      徳島
    • Data Source
      KAKENHI-PROJECT-20016006
  • [Presentation] ドメイン配列を用いたタンパク質間相互作用予測2008

    • Author(s)
      角田将典,角越和也,中村周吾,清水謙多郎
    • Organizer
      日本生物物理学会第46回年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] タンパク質のオーダー・ディスオーダーループの配列構造相関の解析2008

    • Author(s)
      中村周吾,清水謙多郎
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] タンパク質ペアに対するカーネル関数を用いたタンパク質間相互作用予測2008

    • Author(s)
      角田将典,角越和也,中村周吾,清水謙多郎
    • Organizer
      第8回日本蛋白質科学会年会
    • Place of Presentation
      タワーホール船堀(東京)
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] 精密化プロセスを含めたタンパク質-タンパク質ドッキング手法の開発2008

    • Author(s)
      角越和也,寺田透,中村周吾,清水謙多郎
    • Organizer
      日本生物物理学会第46回年会
    • Place of Presentation
      福岡国際会議場(福岡)
    • Data Source
      KAKENHI-PROJECT-20500269
  • [Presentation] タンパク質ループ領域の配列構造相関2008

    • Author(s)
      中村周吾
    • Organizer
      第8回日本蛋白質科学会
    • Place of Presentation
      タワーホール船堀
    • Year and Date
      2008-06-10
    • Data Source
      KAKENHI-PROJECT-19500251
  • [Presentation] BLASTと機械学習を用いたアミノ酸配列からのレクチン様タンパク質の予測2008

    • Author(s)
      染谷星志, 角田将典, 森田瑞樹, 角越和也, 中村周吾, 清水謙多郎
    • Organizer
      第31回日本分子生物学会年会
    • Place of Presentation
      神戸
    • Year and Date
      2008-12-12
    • Data Source
      KAKENHI-PROJECT-20016006
  • [Presentation] Sequence-structure correlation analysis for protein loop regions2007

    • Author(s)
      Shugo Nakamura, Mizuki Morita, Masanori Kakuta, Kentaro Shimizu
    • Organizer
      Forty-Fifth Annual Meeting of the Biophysical Society of Japan, 2P004
    • Place of Presentation
      Yokohama
    • Year and Date
      2007-12-22
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Presentation] タンパク質ループ領域の配列構造相関の解析2007

    • Author(s)
      中村周吾
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      パシフィコ横浜
    • Year and Date
      2007-12-22
    • Data Source
      KAKENHI-PROJECT-19500251
  • [Presentation] タンパク質ループ領域の配列構造相関の解析2007

    • Author(s)
      Shugo Nakamura
    • Organizer
      日本生物物理学会第45回年会
    • Place of Presentation
      横浜
    • Year and Date
      2007-12-22
    • Description
      「研究成果報告書概要(和文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Presentation] Protein tertiary structure prediction based on contact number prediction2006

    • Author(s)
      Takashi Ishida, Shugo Nakamura, Kentaro Shimizu
    • Organizer
      Fifth East Asian Biophysics Symposium & Forty-Fourth Annual Meeting of the Biophysical Society of Japan
    • Place of Presentation
      Okinawa
    • Year and Date
      2006-11-14
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • [Presentation] Protein structure refinement by using multicanonical molecular dynamics simulation2005

    • Author(s)
      Ryuichiro Ishitani, Tohru Terada, Shugo Nakamura, Kentaro Shimizu
    • Organizer
      Forty-Third Annual Meeting of the Biophysical Society of Japan, 1P008
    • Place of Presentation
      Sapporo
    • Year and Date
      2005-11-23
    • Description
      「研究成果報告書概要(欧文)」より
    • Data Source
      KAKENHI-PROJECT-17500191
  • 1.  SHIMIZU Kentaro (80178970)
    # of Collaborated Projects : 17results
    # of Collaborated Products : 26results
  • 2.  TERADA Tohru (40359641)
    # of Collaborated Projects : 6results
    # of Collaborated Products : 5results
  • 3.  池口 満徳 (60261955)
    # of Collaborated Projects : 3results
    # of Collaborated Products : 0results
  • 4.  角越 和也 (90431832)
    # of Collaborated Projects : 2results
    # of Collaborated Products : 2results
  • 5.  OKADA Shinji
    # of Collaborated Projects : 0results
    # of Collaborated Products : 1results
  • 6.  山崎 智
    # of Collaborated Projects : 0results
    # of Collaborated Products : 1results
  • 7.  阿部 啓子
    # of Collaborated Projects : 0results
    # of Collaborated Products : 1results

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