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Development of mathematical tools for reaction pathway network

Research Project

Project/Area Number 24654023
Research Category

Grant-in-Aid for Challenging Exploratory Research

Allocation TypeMulti-year Fund
Research Field General mathematics (including Probability theory/Statistical mathematics)
Research InstitutionOsaka University

Principal Investigator

SUZUKI TAKASHI  大阪大学, 基礎工学研究科, 教授 (40114516)

Co-Investigator(Renkei-kenkyūsha) KAWASAKI Shuji  岩手大学, 人文社会科学部, 准教授 (10282922)
Project Period (FY) 2012-04-01 – 2015-03-31
Project Status Completed (Fiscal Year 2014)
Budget Amount *help
¥3,770,000 (Direct Cost: ¥2,900,000、Indirect Cost: ¥870,000)
Fiscal Year 2014: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Fiscal Year 2013: ¥1,430,000 (Direct Cost: ¥1,100,000、Indirect Cost: ¥330,000)
Fiscal Year 2012: ¥1,170,000 (Direct Cost: ¥900,000、Indirect Cost: ¥270,000)
Keywords細胞分子パスウェイ / MT1-MMP / 酸素反応 / 質量作用 / 質量保存 / 反応速度論 / グラフ理論 / 可積分系 / 反応ネットワーク / 基底膜分解 / 浸潤 / 細胞分子 / 酵素反応 / 分泌型基底膜分解酵素 / 浸潤突起
Outline of Final Research Achievements

We studied the pathway network of cell molecules. First, we approached the activation of the degradation enzyme for basement membrane. The malignant tumor is provided with clonal growth, motility, and metastatis. Invasion arises at the early stage of metastatis, where tumor cell forms invadopodia to begin ECM degradation. MT1-MMP is the membrane protein with over expression inside the invadopodia. One of its main role is the activation of MMP2, the secretor degrdation enzyme of the basement membrane. This process is achieved under the presense of the third molecule, TIMP2. Based on this biological model, we constructed mathematical model using the law of mass action. In this modeling we applied the same reaction rates of the fundamental process to the polymerization. Mathematical analysis, however, revealed that the system is completely integrable by three fundamental equations. Generalization to the N-system and comparison to PySB is also done.

Report

(4 results)
  • 2014 Annual Research Report   Final Research Report ( PDF )
  • 2013 Research-status Report
  • 2012 Research-status Report
  • Research Products

    (15 results)

All 2015 2014 2013 2012 Other

All Journal Article (6 results) (of which Peer Reviewed: 6 results,  Open Access: 2 results) Presentation (8 results) (of which Invited: 3 results) Book (1 results)

  • [Journal Article] Dynamic regulation of a cell adhesion protein complex including CADM1 by combinatorial analysis of FRAP with exponential curve-fitting2015

    • Author(s)
      M. Sakurai-Yagata, T. Maruyama, T. Suzuki, K. Ichikawa, M. Murakami
    • Journal Title

      PLos One

      Volume: 未定

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Roles of raft-anchored adaptor Cbp/PAG1 in special reghttps://www-kofu.jsps.go.jp/kofu1/images/title_img1.gifulation of c-Src kinase2014

    • Author(s)
      T. Saitou, K. Kajiwara, C. Oneyama, T. Suzuki, M. Okada
    • Journal Title

      PLos One

      Volume: 9-3

    • Related Report
      2014 Annual Research Report
    • Peer Reviewed / Open Access
  • [Journal Article] Roles of raft-anchored adaptor Cbp/PAG1 in special regulation of c-Src kinase2014

    • Author(s)
      T. Saitou, K. Kajiwara, C. Oneyama, T. Suzuki, and M. Okada
    • Journal Title

      PLosOne

      Volume: in press

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Critical role of transient activity of MT1-MMP for ECM degradation in invadopodia2013

    • Author(s)
      A. Watanabe, D. Hoshino, K. Koshikawa, M. Seiki, T. Suzuki, and K. Ichikawa
    • Journal Title

      PLos Computational Biology

      Volume: 9-5 Pages: 2-13

    • Related Report
      2013 Research-status Report
    • Peer Reviewed
  • [Journal Article] Control and inhibition analysis of complex formation processes2013

    • Author(s)
      T. Saitou, K. Itano, D. Hoshino, N. Koshikawa, M. Seiki, K. Ichikawa, and T. Suzuki
    • Journal Title

      Theoretical Biology and Medical Medelling

      Volume: 0

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Journal Article] Mathematical models of tumor growth systems2012

    • Author(s)
      T. Suzuki
    • Journal Title

      Mathematica Bohemica

      Volume: 137 Pages: 201-218

    • Related Report
      2012 Research-status Report
    • Peer Reviewed
  • [Presentation] MT1-MMPタイプのパスウェイネットワークのN分子への拡張と解析2015

    • Author(s)
      板野景子
    • Organizer
      日本応用数理学会研究部会連合発表会
    • Place of Presentation
      明治大学中野キャンパス
    • Year and Date
      2015-03-07
    • Related Report
      2014 Annual Research Report
  • [Presentation] MMP2活性化機構における MT1- MMP高濃度挿入の必然性について2014

    • Author(s)
      川崎 秀二
    • Organizer
      日本応用数理学会年会2014年度年会
    • Place of Presentation
      政策研究大学院大学
    • Year and Date
      2014-09-03 – 2014-09-04
    • Related Report
      2014 Annual Research Report
  • [Presentation] 数理細胞生物学の方法2013

    • Author(s)
      鈴木貴
    • Organizer
      応用トポロジーとシステムバイオロジー:数理医学の新たな挑戦
    • Place of Presentation
      大阪大学
    • Related Report
      2012 Research-status Report
  • [Presentation] 細胞生物学における数理的方法2012

    • Author(s)
      鈴木貴
    • Organizer
      Seminar Supported by Electron Microscope
    • Place of Presentation
      理化学研究所発生・再生科学総合研究センター
    • Related Report
      2012 Research-status Report
  • [Presentation] Mathematical methods in cancer research - bottom up and top down modeling2012

    • Author(s)
      T. Suzuki
    • Organizer
      CREST Seminar, Towards Deeper Understanding of Biodynamic Principles
    • Place of Presentation
      OIST
    • Related Report
      2012 Research-status Report
  • [Presentation] がん研究の新しい数学ツール: ホモロジー検査と数理細胞生物学

    • Author(s)
      鈴木貴
    • Organizer
      日本がん転移学会
    • Place of Presentation
      ホテルブエナビスタ(長野県松本市)
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] がん浸潤の細胞生物学と数理モデル

    • Author(s)
      鈴木貴
    • Organizer
      岩手大学基礎自然系講演会
    • Place of Presentation
      岩手大学(岩手県盛岡市)
    • Related Report
      2013 Research-status Report
    • Invited
  • [Presentation] MT1-MMP pathway analysis using mathematical model, International Symposium on Tumor Biology in Kanazawa and Symposium on Drug Discovery in Academics

    • Author(s)
      T. Suzuki.
    • Organizer
      Kanazawa Association of Tumor Biologists
    • Place of Presentation
      Cancer Research Institute, Kanazawa, Isikawa
    • Related Report
      2013 Research-status Report
    • Invited
  • [Book] 数理医学入門2015

    • Author(s)
      鈴木貴
    • Total Pages
      243
    • Publisher
      共立出版
    • Related Report
      2014 Annual Research Report

URL: 

Published: 2013-05-31   Modified: 2019-07-29  

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