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Modeling, Analysis, and Control for Gene networks

Research Project

Project/Area Number 20360189
Research Category

Grant-in-Aid for Scientific Research (B)

Allocation TypeSingle-year Grants
Section一般
Research Field Control engineering
Research InstitutionTokyo Institute of Technology

Principal Investigator

IMURA Jun-Ichi  Tokyo Institute of Technology, 大学院・情報理工学研究科, 教授 (50252474)

Co-Investigator(Kenkyū-buntansha) IKEDA Tsukasa  宇都宮大学, 工学研究科, 教授 (40151295)
Co-Investigator(Renkei-kenkyūsha) KASHIMA Kenji  東京工業大学, 大学院・情報理工学研究科, 助教 (60401551)
MOROHOSHI Tomohiro  宇都宮大学, 工学研究科, 助教 (90361360)
Project Period (FY) 2008 – 2010
Project Status Completed (Fiscal Year 2010)
Budget Amount *help
¥18,590,000 (Direct Cost: ¥14,300,000、Indirect Cost: ¥4,290,000)
Fiscal Year 2010: ¥5,590,000 (Direct Cost: ¥4,300,000、Indirect Cost: ¥1,290,000)
Fiscal Year 2009: ¥6,760,000 (Direct Cost: ¥5,200,000、Indirect Cost: ¥1,560,000)
Fiscal Year 2008: ¥6,240,000 (Direct Cost: ¥4,800,000、Indirect Cost: ¥1,440,000)
Keywords制御理論 / 遺伝子ネットワーク / ハイブリッドシステム / 非線形システム / 最適制御 / 緑膿菌 / モデリング
Research Abstract

In this research project, we have developed a basis on the control theory for gene regulatory networks including modeling (PWA approximation, model reduction etc), scale-free stability analysis for large-scale network systems, and the control synthesis such as optimal control problem, based on experimental aspects of the quorum sensing system of the bacterium Pseudomonas aeruginosa.as well as our previous works on analysis/control synthesis of hybrid dynamical systems.

Report

(4 results)
  • 2010 Annual Research Report   Final Research Report ( PDF )
  • 2009 Annual Research Report
  • 2008 Annual Research Report
  • Research Products

    (34 results)

All 2010 2009 2008

All Journal Article (22 results) (of which Peer Reviewed: 22 results) Presentation (12 results)

  • [Journal Article] Piecewise affine systems approach to control of biological networks2010

    • Author(s)
      J.Imura, K.Kashima, M.Kusano, T.Ikeda, T.Morohoshi
    • Journal Title

      Philosophical Transactions A 368-1930

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Local Stability Analysis Of Heterogeneous Equilibrium Patterns Observed In Delta-Notch Signalling Interaction2010

    • Author(s)
      加嶋健司, 井村順一
    • Journal Title

      Journal of the Chinese Institute of Engineers 33-3

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] スケール変換を介した連続極限解析による大規模カスケードシステムの低次元化2010

    • Author(s)
      石崎孝幸, 加嶋健司, 井村順一
    • Journal Title

      計測自動制御学会論文集 46-10

    • NAID

      10027445596

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Regulation of the violacein biosynthetic gene cluster by acylhomoserine lactone-mediated quorum sensing in Chromobacterium violaceum ATCC 124722010

    • Author(s)
      T.Morohoshi, K.Fukamachi, M.Kato, N.Kato, T.Ikeda
    • Journal Title

      Bioscience, Biotechnology, and Biochemistry 74

    • NAID

      10027560835

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] AiiM, a novel class of N-acylhomoserine lactonase from the leaf-associated bacterium Microbacterium testaceum2010

    • Author(s)
      W.Z.Wang, T.Morohoshi, M.Ikenoya, N.Someya, T.Ikeda
    • Journal Title

      Applied and Environmental Microbiology 76

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Lebesgue piecewise affine approximation of nonlinear systems2010

    • Author(s)
      S.Azuma, J.Imura, T.Sugie
    • Journal Title

      Nonlinear Analysis : Hybrid Systems 4-1

    • NAID

      120001682403

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Piecewise affine systems approach to control of biological networks2010

    • Author(s)
      J.Imura, K.Kashima, M.Kusano, T.Ikeda, T.Morohoshi
    • Journal Title

      Philosophical Transactions A

      Volume: 368-1930 Pages: 4977-4993

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Local Stability Analysis of Heterogeneous Equilibrium Patterns Observed In Delta-Notch Signalling Interaction2010

    • Author(s)
      K.Kashima, J.Imura
    • Journal Title

      Journal of the Chinese Institute of Engineers

      Volume: 33-3 Pages: 347-355

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] スケール変換を介した連続極限解析による大規模カスケードシステムの低次元化2010

    • Author(s)
      石崎, 加嶋, 井村
    • Journal Title

      計測自動制御学会論文集

      Volume: 46-10 Pages: 615-622

    • NAID

      10027445596

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Regulation of the violacein biosynthetic gene cluster by acylhomoserine lactone-mediated quorum sensing in Chromobacterium violaceum ATCC 124722010

    • Author(s)
      T.Morohoshi, K.Fukamachi, M.Kato, N.Kato, T.Ikeda
    • Journal Title

      Bioscience, Biotechnology, and Biochemistry

      Volume: 74 Pages: 2116-2119

    • NAID

      10027560835

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] AiiM, a novel class of N-acylhomoserine lactonase from the leaf-associated bacterium Microbacterium testaceum2010

    • Author(s)
      W.Z.Wang, T.Morohoshi, M.Ikenoya, N.Someya, T.Ikeda
    • Journal Title

      Applied and Environmental Microbiology

      Volume: 76 Pages: 2524-2530

    • Related Report
      2010 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Lebesgue pievewise affine approximation of nonlinear systems2010

    • Author(s)
      S.Azuma, J.Imura, T.Sugie
    • Journal Title

      Nonlinear Analysis : Hybrid Systems 4-1

      Pages: 92-102

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Controlled invariant feasibility-A general approach to enforcing strong feasibility in MPC applied to move-blocking2009

    • Author(s)
      R.Gondhalekar, J.Imura, K.Kashima
    • Journal Title

      Automatica 45-12

      Pages: 2869-2875

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Novel N-acylhomoserine lactone-degrading bacteria isolated from the leaf surface of Solanum tuberosum and their quorum-quenching propertie2009

    • Author(s)
      T.Morohoshi, N.Someya, T.Ikeda
    • Journal Title

      Biosci. Biotech. Biochem. 73

    • NAID

      10027546174

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Motility and the expression of the flagellin protein FliC are negatively regulated by quorum sensing in Edwardsiella tarda2009

    • Author(s)
      T.Morohoshi, Y.Yokoyama, M.Ouchi, N.Kato, T.Ikeda
    • Journal Title

      J.Biosci. Bioeng. 108

    • NAID

      110007465826

    • Related Report
      2010 Final Research Report
    • Peer Reviewed
  • [Journal Article] Controlled invariant feasibility-A general appoach to enforcing strong feasibility in MPC applied to move-blocking2009

    • Author(s)
      R.Gondhalekar, J.Imura, K.Kashima
    • Journal Title

      Automatica 45-12

      Pages: 2869-2875

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Novel N-acylhomoserine lactone-degrading bacteria isolated from the leaf surface of Solanum tuberosum and their quorum-quenching properties2009

    • Author(s)
      T.Morohoshi, N.Someya, T.Ikeda
    • Journal Title

      Biosci.Biotech. Biochem. 73

      Pages: 2124-2127

    • NAID

      10027546174

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Motility and the expression of the flagellin protein FliC are negatively regulated by quorum sensing in Edwardsiella tarda2009

    • Author(s)
      T.Morohoshi, Y.Yokoyama, M.Ouchi, N.Kato, T.Ikeda
    • Journal Title

      J.Biosci.Bioeng. 108

      Pages: 314-318

    • NAID

      110007465826

    • Related Report
      2009 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Exact cost performance of piecewise affine systems2008

    • Author(s)
      R. Gondhalekar, J. Imura
    • Journal Title

      IEICE Trans. Fundamentals Vol. E91-A, No. ll

      Pages: 3253-3260

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] 状態量子化に基づく線形システムの離散状態近似とその最適制御への応用2008

    • Author(s)
      田崎, 井村
    • Journal Title

      計測自動制御学会論文集 Vol. 44, No. 10

      Pages: 786-792

    • NAID

      10024390425

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] Bisimilar Finite Abstractions of Interconnected Systems2008

    • Author(s)
      Y. Tazaki, J. Imura
    • Journal Title

      Hybrid Systems : Computation and Control, Lecture Notes in Computer Science, Springer Verlag 4981

      Pages: 514-527

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Journal Article] N-Acylhomoserine lactone regulates violacein production in Chromobacterium violaceum type strain ATCC 124722008

    • Author(s)
      T. Morohoshi, M. Kato, K. Fukamachi, N. Kato, T. Ikeda
    • Journal Title

      FEMS Microbiol. Lett. 279

      Pages: 124-130

    • Related Report
      2008 Annual Research Report
    • Peer Reviewed
  • [Presentation] Inhibition of the pathogenicity of Serratia marcescens by the synthetic analog of quorum-sensing signal molecule2010

    • Author(s)
      T.Morohoshi, T.Shiono, K.Takidouchi, N.Kato, T.Ikeda
    • Organizer
      2010 International Chemical Congress of Pacific Basin Societies (Pacifichem 2010)
    • Place of Presentation
      Honolulu, USA
    • Year and Date
      2010-12-18
    • Related Report
      2010 Annual Research Report 2010 Final Research Report
  • [Presentation] 状態集約化に基づき特異摂動近似された動的ネットワークシステムの特性解析2010

    • Author(s)
      牟田裕一朗, 石崎孝幸, 加嶋健司, 井村順一
    • Organizer
      第39回制御理論シンポジウム
    • Place of Presentation
      大阪
    • Year and Date
      2010-09-29
    • Related Report
      2010 Annual Research Report 2010 Final Research Report
  • [Presentation] Control methods of quorum sensing in gram-negative bacteria using cyclodextrins2010

    • Author(s)
      T.Ikeda, S.Ito, T.Morohoshi, N.Kato
    • Organizer
      2010 International Symposium on Advanced Biological Engineering
    • Place of Presentation
      Beijing, China
    • Year and Date
      2010-07-24
    • Related Report
      2010 Annual Research Report 2010 Final Research Report
  • [Presentation] Oscillation Analysis of Linearly Coupled PWA Systems2010

    • Author(s)
      K.Kashima,, Kawamura, J.Imura
    • Organizer
      Proceedings of the 13th ACM International Conference on Hybrid Systems : Computation and Control
    • Place of Presentation
      Stockholm, Sweden
    • Year and Date
      2010-04-14
    • Related Report
      2010 Annual Research Report 2010 Final Research Report
  • [Presentation] Inhibition of quorum sensing in gram-negative bacteria using AHL analogues and modified cyclodextrins2009

    • Author(s)
      T.Ikeda, W.Z.Wang, T.Sato, S.Ito, N.Kato, T.Morohoshi
    • Organizer
      Asia Pacific Biochemical Engineering Conference
    • Place of Presentation
      神戸
    • Related Report
      2010 Final Research Report 2009 Annual Research Report
  • [Presentation] Rigorous determination of maximum controlled invariant feasible sets2009

    • Author(s)
      R.Gondhalekar, J.Imura, K.Kashima
    • Organizer
      European Control Conference
    • Place of Presentation
      ブタペスト, ハンガリ
    • Related Report
      2010 Final Research Report
  • [Presentation] Discrete-state abstractions of nonlinear systems Using multi-resolution quantizer2009

    • Author(s)
      Y.Tazaki, J.Imura
    • Organizer
      Int. Conference on Hybrid Systems : Computation and Control
    • Place of Presentation
      サンフランシスコ,米国
    • Related Report
      2009 Annual Research Report
  • [Presentation] Rigorous determination of maximum controlled invariant feasible sets2009

    • Author(s)
      R.Gondhalekar, J.Imura, K.Kashima
    • Organizer
      European Control Conference
    • Place of Presentation
      ブタペスト,ハンガリ
    • Related Report
      2009 Annual Research Report
  • [Presentation] Quorum Sensingとバイオ フィルム形成2009

    • Author(s)
      池田宰、諸星知広
    • Organizer
      日本防菌防黴学会 第36回年次シンポジウム
    • Place of Presentation
      千里ライフサイエンスセンター
    • Related Report
      2009 Annual Research Report
  • [Presentation] Finite Abstractions of Discrete-time Linear Systems and Its Application to Optimal Control2008

    • Author(s)
      Y. Tazaki, J. Imura
    • Organizer
      IFAC World Congress
    • Place of Presentation
      ソウル
    • Related Report
      2008 Annual Research Report
  • [Presentation] ブーリアンネットワークモデルによる遺伝子発現ネットワークの可制御性解析2008

    • Author(s)
      小林, 井村, 平石
    • Organizer
      第21回回路とシステム軽井沢ワークショップ論文集
    • Place of Presentation
      軽井沢
    • Related Report
      2008 Annual Research Report
  • [Presentation] アユ腸内フローラにおける細胞間情報伝達機構の解析2008

    • Author(s)
      池田宰, 諸星知広
    • Organizer
      日本生物工学会2008度大会
    • Place of Presentation
      東北学院大学
    • Related Report
      2008 Annual Research Report

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Published: 2008-04-01   Modified: 2016-04-21  

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