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Development of high accurate method for parameter estimation by the combination of numerical optimization and symbolic computation

Research Project

Project/Area Number 23700358
Research Category

Grant-in-Aid for Young Scientists (B)

Allocation TypeMulti-year Fund
Research Field Bioinformatics/Life informatics
Research InstitutionKyoto University

Principal Investigator

NAKATSUI Masahiko  京都大学, 大学院・薬学研究科, 特定研究員 (10509532)

Project Period (FY) 2011 – 2012
Project Status Completed (Fiscal Year 2012)
Budget Amount *help
¥4,420,000 (Direct Cost: ¥3,400,000、Indirect Cost: ¥1,020,000)
Fiscal Year 2012: ¥2,080,000 (Direct Cost: ¥1,600,000、Indirect Cost: ¥480,000)
Fiscal Year 2011: ¥2,340,000 (Direct Cost: ¥1,800,000、Indirect Cost: ¥540,000)
Keywords生体生命システム情報学 / 数値最適化 / パラメータ推定 / 動的システム / 記号計算 / 反応パラメータ推定
Research Abstract

We proposed highly accurate parameter estimation method based on time-series data, by introducing constraints equations among estimated parameters derived rationally by symbolic computing technique to numerical optimization method. The performance of our proposed method of parameter accuracy is demonstrated by some representative model in biology, especially negative feed-back model which yields oscillations. The highly accurate parameter estimation method for dynamical systems we proposed will be the basis of systemically identification, analysis, control, and design of biological phenomena.

Report

(3 results)
  • 2012 Annual Research Report   Final Research Report ( PDF )
  • 2011 Research-status Report
  • Research Products

    (8 results)

All 2012 2011 Other

All Journal Article (6 results) (of which Peer Reviewed: 6 results) Presentation (1 results) Remarks (1 results)

  • [Journal Article] A General Procedure for Accurate parameter Estimation in Dynamic Systems Using New Estimation Errors2012

    • Author(s)
      Masahiko Nakatsui, Alexandre Sedglavic, Francois Lemaire, Francois Boulier, Asli Urguplu, and Katsuhisa Horimoto
    • Journal Title

      Algebraic and Numeric Biology, Lecture Notes in Computer Science

      Volume: Volume 6479 Pages: 149-166

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Efficient numerical optimization algorithm based on new real-coded genetic algorithm, AREX + JGG, and application to the inverse problem in systems biology2012

    • Author(s)
      Asako Komori, Yukihiro Maki, Masahiko Nakatsui, Isao Ono, and Masahiro Okamoto
    • Journal Title

      Applied Mathematics

      Volume: 3 Pages: 1463-1470

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Efficient numerical optimization algorithm based on new real-coded genetic algorithm, AREX + JGG and application to the inverse problem in systems biology2012

    • Author(s)
      Asako Komori, Yukihiro Maki, Masahiko Nakatsui, Isao Ono, and Masahiro Okamoto
    • Journal Title

      Applied Mathematis

      Volume: 3 Issue: 10 Pages: 1463-1470

    • DOI

      10.4236/am.2012.330205

    • Related Report
      2012 Annual Research Report
    • Peer Reviewed
  • [Journal Article] A General Procedure for Accurate Parameter Estimation in Dynamic Systems Using New Estimation Errors2012

    • Author(s)
      Nakatsui, M., Sedoglavic, A., Lemaire, F., Boulier, F., Urguplu, A., and Horimoto, K.
    • Journal Title

      Algebraic and Numeric Biology, Lecture Notes in Computer Science

      Volume: Volume 6479/2012 Pages: 149-166

    • DOI

      10.1007/978-3-642-28067-2_9

    • ISBN
      9783642280665, 9783642280672
    • Related Report
      2011 Research-status Report
    • Peer Reviewed
  • [Journal Article] Brute force meets Bruno force in parameter optimization: introduction of novel constraints for parameter accuracy improvement by symbolic computation2011

    • Author(s)
      Masahiko Nakatsui, Katsuhisa Horimoto, Francois Lemaire, Asli Urguplu, Alexandre Sedglavic, Francois Boulier
    • Journal Title

      IET Systems Biology

      Volume: Volume 5 Issue 5 Pages: 281-292

    • Related Report
      2012 Final Research Report
    • Peer Reviewed
  • [Journal Article] Brute force meets Bruno force in parameter optimisation: introduction of novel constraints for parameter accuracy improvement by symbolic computation2011

    • Author(s)
      Nakatsui, M., Horimoto, K., Lemaire, F., Urguplu, A., Sedoglavic, A., Boulier, F.
    • Journal Title

      IET Systems Biology

      Volume: Volume:5 Issue:5 Issue: 5 Pages: 281-292

    • DOI

      10.1049/iet-syb.2010.0051

    • Related Report
      2011 Research-status Report
    • Peer Reviewed
  • [Presentation] Chemogenomic approach to comprehensive predictions of ligand-target interactions: A comparative study2012

    • Author(s)
      J. B. Brown, Satoshi Niijima, Akira Shiraishi, Masahiko Nakatsui, and Yasuyuki Okuno
    • Organizer
      2012 Workshop on Pharmaco-Informatics for Drug Discovery, in Conjunction with 2012 IEEE International Conference on Bioinformatics and Biomedicine
    • Place of Presentation
      Philadelphia, PA, USA
    • Related Report
      2012 Annual Research Report
  • [Remarks] S-system ネットワーク推定プラットホーム

    • URL

      http://bp.scitec.kobe-u.ac.jp:10031/sweb

    • Related Report
      2012 Annual Research Report

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Published: 2011-08-05   Modified: 2019-07-29  

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