Computation and analysis of time-dependent sensitivities in generalized mass action systems

DOI10.1016/J.JTBI.2005.02.013MaRDI QIDQ776568zbMATH OpenOpenAlexWikidataFDO

Authors John H. Schwacke, Eberhard O. (Editor-in-Chief) Voit

Publication date 9 July 2020

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://doi.org/10.1016/j.jtbi.2005.02.013

zbMATH Keywords

sensitivity analysismathematical modelingsystems biologysystem dynamicsbiochemical systems theory

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Systems biology, networks (92C42) Kinetics in biochemical problems (pharmacokinetics, enzyme kinetics, etc.) (92C45)

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Cites work

• scientific article; zbMATH DE number 3619680 (Why is no real title available?)
• A Taylor-series solution in Cartesian space to GMA-system equations and its application to initial-value problems
• An efficient method for calculation of dynamic logarithmic gains in biochemical systems theory
• Biochemical systems theory and metabolic control theory: I. Fundamental similarities and differences
• Biochemical systems theory and metabolic control theory: II. The role of summation and connectivity relationships
• Comparative characterization of the fermentation pathway of Saccharomyces cerevisiae using biochemical systems theory and metabolic control analysis: Model definition and nomenclature
• Efficient Solution of Nonlinear Ordinary Differential Equations Expressed in S-system Canonical Form
• Sensitivity analysis of stoichiometric networks: an extension of metabolic control analysis to non-steady state trajectories

Cited in

(13)

• An efficient method for calculation of dynamic logarithmic gains in biochemical systems theory
• Controllability of non-linear biochemical systems
• Investigation of the performance of fermentation processes using a mathematical model including effects of metabolic bottleneck and toxic product on cells
• Applications of global sensitivity analysis to the optimization of a dermal PBPK model of bromochloromethane
• A reliable Taylor series-based computational method for the calculation of dynamic sensitivities in large-scale metabolic reaction systems: algorithm and software evaluation
• Parameter estimation for metabolic networks with two stage Bregman regularization homotopy inversion algorithm
• Calculation errors of time-varying flux control coefficients obtained from elasticity coefficients by means of summation and connectivity theorems in metabolic control analysis
• Biochemical systems theory: a review
• Highly accurate computation of dynamic sensitivities in metabolic reaction systems by a Taylor series method
• Analysis of operating principles with S-system models
• Methods for and results from the study of design principles in molecular systems
• Using dynamic sensitivities to characterize metabolic reaction systems
• Towards the timely detection of toxicants

Describes a project that uses

Uses Software

• Matlab
• GSL
• ESSYNS

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