Evaluation of an S-system root-finding method for estimating parameters in a metabolic reaction model

Michio Iwata, Atsuko Miyawaki-Kuwakado, Erika Yoshida, Soichiro Komori, Fumihide Shiraishi

研究成果: ジャーナルへの寄稿記事

1 引用 (Scopus)

抄録

In a mathematical model, estimation of parameters from time-series data of metabolic concentrations in cells is a challenging task. However, it seems that a promising approach for such estimation has not yet been established. Biochemical Systems Theory (BST) is a powerful methodology to construct a power-law type model for a given metabolic reaction system and to then characterize it efficiently. In this paper, we discuss the use of an S-system root-finding method (S-system method) to estimate parameters from time-series data of metabolite concentrations. We demonstrate that the S-system method is superior to the Newton–Raphson method in terms of the convergence region and iteration number. We also investigate the usefulness of a translocation technique and a complex-step differentiation method toward the practical application of the S-system method. The results indicate that the S-system method is useful to construct mathematical models for a variety of metabolic reaction networks.

元の言語英語
ページ(範囲)21-31
ページ数11
ジャーナルMathematical Biosciences
301
DOI
出版物ステータス出版済み - 7 1 2018

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S-system
Root-finding
Time series
Mathematical models
Evaluation
System theory
Metabolites
Time Series Data
Theoretical Models
methodology
Model
Mathematical Model
time series analysis
Systems Theory
Reaction Network
mathematical models
Newton-Raphson
Metabolic Network
Translocation
Metabolic Networks and Pathways

All Science Journal Classification (ASJC) codes

  • Statistics and Probability
  • Modelling and Simulation
  • Biochemistry, Genetics and Molecular Biology(all)
  • Immunology and Microbiology(all)
  • Agricultural and Biological Sciences(all)
  • Applied Mathematics

これを引用

Evaluation of an S-system root-finding method for estimating parameters in a metabolic reaction model. / Iwata, Michio; Miyawaki-Kuwakado, Atsuko; Yoshida, Erika; Komori, Soichiro; Shiraishi, Fumihide.

:: Mathematical Biosciences, 巻 301, 01.07.2018, p. 21-31.

研究成果: ジャーナルへの寄稿記事

Iwata, Michio ; Miyawaki-Kuwakado, Atsuko ; Yoshida, Erika ; Komori, Soichiro ; Shiraishi, Fumihide. / Evaluation of an S-system root-finding method for estimating parameters in a metabolic reaction model. :: Mathematical Biosciences. 2018 ; 巻 301. pp. 21-31.
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