Biochemical systems theory: a review
From MaRDI portal
Publication:355964
DOI10.1155/2013/897658zbMath1268.92045OpenAlexW2045529195WikidataQ59000297 ScholiaQ59000297MaRDI QIDQ355964
Eberhard O. (Editor-in-Chief) Voit
Publication date: 25 July 2013
Published in: ISRN Biomathematics (Search for Journal in Brave)
Full work available at URL: https://doi.org/10.1155/2013/897658
Related Items (27)
Inverse problem studies of biochemical systems with structure identification of S-systems by embedding training functions in a genetic algorithm ⋮ The Gompertz model revisited and modified using reaction networks: Mathematical analysis ⋮ Absolutely Complex Balanced Kinetic Systems ⋮ Nonparametric dynamic modeling ⋮ Separable nonlinear least-squares parameter estimation for complex dynamic systems ⋮ Comparing chemical reaction networks: a categorical and algorithmic perspective ⋮ Robust stochastic sensitivity analysis of the threonine synthesis pathway ⋮ From within host dynamics to the epidemiology of infectious disease: scientific overview and challenges ⋮ Chemical reaction network approaches to biochemical systems theory ⋮ An algorithm for the formal reduction of differential equations as over-approximations ⋮ Approximate constrained lumping of polynomial differential equations ⋮ Robustness in power-law kinetic systems with reactant-determined interactions ⋮ Comparative analysis of carbon cycle models via kinetic representations ⋮ Computational optimization for S-type biological systems: cockroach genetic algorithm ⋮ Characterizability of metabolic pathway systems from time series data ⋮ A deficiency-one algorithm for power-law kinetic systems with reactant-determined interactions ⋮ Algebra, Coalgebra, and Minimization in Polynomial Differential Equations ⋮ A large-scale assessment of exact lumping of quantitative models in the biomodels repository ⋮ Planar S-systems: global stability and the center problem ⋮ Multistep generalized transformation method applied to solving equations of discrete and continuous time-fractional enzyme kinetics ⋮ Investigation of kinetic-order sensitivities in metabolic reaction networks ⋮ Reaction networks and kinetics of biochemical systems ⋮ PENDISC: a simple method for constructing a mathematical model from time-series data of metabolite concentrations ⋮ Symbolic computation of differential equivalences ⋮ On the Bijectivity of Families of Exponential/Generalized Polynomial Maps ⋮ Model of complex chiral drug metabolic systems and numerical simulation of the remaining chirality toward analysis of dynamical pharmacological activity ⋮ The smallest bimolecular mass action reaction networks admitting Andronov–Hopf bifurcation
Uses Software
Cites Work
- Modelling, steady state analysis and optimization of the catalytic efficiency of the triosephosphate isomerase
- Inference of \(S\)-system models of genetic networks by solving one-dimensional function optimization problems
- Bi-objective optimization of biochemical systems by linear programming
- \(\sqrt{n}\)-consistent parameter estimation for systems of ordinary differential equations: bypassing numerical integration via smoothing
- Methods for and results from the study of design principles in molecular systems
- Design of the lac gene circuit revisited
- Analysis of operating principles with S-system models
- Investigation of the performance of fermentation processes using a mathematical model including effects of metabolic bottleneck and toxic product on cells
- Mathematical modeling of monolignol biosynthesis in populus xylem
- On the interplay between entropy and robustness of gene regulatory networks
- Computation and analysis of time-dependent sensitivities in generalized mass action systems
- S-system modelling of endemic infections
- Dynamic sensitivities in chaotic dynamical systems
- A comparison of variant theories of intact biochemical systems. I: Enzyme-enzyme interactions and biochemical systems theory
- A comparison of variant theories of intact biochemical systems. II: Flux- oriented and metabolic control theories
- Bioeconomic dynamics of a fishery modeled as an S-system
- Comparison of isoeffect relationships in radiotherapy
- GS-distributions: a new family of distributions for continuous unimodal variables
- Mathematical analysis of models for reaction kinetics in intracellular environments
- Method for inferring and extracting reliable genetic interactions from time-series profile of gene expression
- Metabolic engineering with power-law and linear-logarithmic systems
- Construction of bivariate S-distributions with copulas
- Mechanistic simulations of inflammation: current state and future prospects
- A systems-theoretical framework for health and disease: inflammation and preconditioning from an abstract modeling point of view
- Regenerative growth curves
- Equivalence between S-systems and Volterra systems
- Analytical solutions to a generalized growth equation
- Nash manifolds
- Recasting nonlinear differential equations as S-systems: a canonical nonlinear form
- 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
- Strategies for representing metabolic pathways within biochemical systems theory: Reversible pathways
- A comparison of the monomial method and the S-system method for solving systems of algebraic equations
- Growth equations: A general equation and a survey of special cases
- Symmetries of \(S\)-systems
- Mathematical models of purine metabolism in man
- Lotka-Volterra representation of general nonlinear systems
- Optimization of biochemical systems by linear programming and general mass action model representations
- Computing the noncentral beta distribution with S-system.
- A multi-level model accounting for the effects of JAK2-STAT5 signal modulation in erythropoiesis
- Renormalization group approach to power-law modeling of complex metabolic networks
- Mathematical modelling and assessment of the ph homeostasis mechanisms in \textit{Aspergillus niger} while in citric acid producing conditions
- Graph-theoretic description of the interplay between non-linearity and connectivity in biological systems
- Power-law modeling based on least-squares minimization criteria
- A pharmacodynamic model for the action of the antibiotic imipenem on Pseudomonas aeruginosa populations in vitro
- A Taylor-series solution in Cartesian space to GMA-system equations and its application to initial-value problems
- Solution of a two-point boundary value model of immobilized enzyme reactions, using an \(S\)-system-based root-finding method
- Alternative designs for a genetic switch: Analysis of switching times using the piecewise power-law representation
- Models-of-data and models-of-processes in the post-genomic era
- Design principles and operating principles: the Yin and Yang of optimal functioning
- Taming the complexity of biochemical models through bisimulation and collapsing: theory and practice
- Comparative characterization of the fermentation pathway of Saccharomyces cerevisiae using biochemical systems theory and metabolic control analysis: Model definition and nomenclature
- Comparative characterization of the fermentation pathway of Saccharomyces cerevisiae using biochemical systems theory and metabolic control analysis: Steady-state analysis
- Comparative characterization of the fermentation pathway of Saccharomyces cerevisiae using biochemical systems theory and metabolic control analysis: Model validation and dynamic behavior
- Concordant chemical reaction networks
- Parameter estimation of ODE's via nonparametric estimators
- Synergism analysis of biochemical systems. I: Conceptual framework
- Synergism analysis of biochemical systems. II: Tensor formulation and treatment of stoichiometric constraints
- Biochemical and genomic regulation of the trehalose cycle in yeast: review of observations and canonical model analysis
- Integration of kinetic information on yeast sphingolipid metabolism in dynamical pathway models
- An efficient method for calculation of dynamic logarithmic gains in biochemical systems theory
- Requirement for multiple activation signals by anti-inflammatory feedback in macrophages
- The potential for signal integration and processing in interacting MAP kinase cascades
- Recent developments in parameter estimation and structure identification of biochemical and genomic systems
- Finding multiple roots of nonlinear algebraic equations using S-system methodology
- Structural identifiability of polynomial and rational systems
- Calculation errors of time-varying flux control coefficients obtained from elasticity coefficients by means of summation and connectivity theorems in metabolic control analysis
- Optimization of biochemical systems through mathematical programming: methods and applications
- A simple and highly accurate numerical differentiation method for sensitivity analysis of large-scale metabolic reaction systems
- Estimating parameters for generalized mass action models using constraint propagation
- Characterizability of metabolic pathway systems from time series data
- Coexistence and chaos in complex ecologies
- Robust filtering circuit design for stochastic gene networks under intrinsic and extrinsic molecular noises
- Parameter estimation in modulated, unbranched reaction chains within biochemical systems
- Approximation of delays in biochemical systems
- An effective method to increase solvability in biochemical systems using S-system
- Parameter reconstruction for biochemical networks using interval analysis
- Analysis of dynamic labeling data
- Controllability of non-linear biochemical systems
- A reliable Taylor series-based computational method for the calculation of dynamic sensitivities in large-scale metabolic reaction systems: algorithm and software evaluation
- Design principles for elementary gene circuits: Elements, methods, and examples
- Evaluation of the Noncentral t Distribution with S-Systems
- Chaos in low-dimensional Lotka–Volterra models of competition
- CONSTRUCTION AND CUSTOMIZATION OF STABLE OSCILLATION MODELS IN BIOLOGY
- Efficient Solution of Nonlinear Ordinary Differential Equations Expressed in S-system Canonical Form
- Allometric morphogenesis of complex systems: Derivation of the basic equations from first principles
- Universal formats for nonlinear ordinary differential systems
- A Spline Least Squares Method for Numerical Parameter Estimation in Differential Equations
- A Suprasystem of Probability Distributions
- TheS-Distribution A Tool for Approximation and Classification of Univariate, Unimodal Probability Distributions
- Growth of complex systems can be related to the properties of their underlying determinants
- Scalability Properties of the S-Distribution
- Algebraic recasting of nonlinear systems of ODEs into universal formats
- The Power-Law Formalism as a Tool for Modeling Hormonal Systems
- Analytical Quantile Solution for the S-distribution, Random Number Generation and Statistical Data Modeling
- Computing the Distribution of the Squared Sample Multiple Correlation Coefficient with S-Systems
- A Maximum Likelihood Estimator for Shape Parameters of S-Distributions
- On the statistical computation of the sample multiple correlation moefficient
- Estimation and completion of survival data with piecewise linear models andS-distributions
- Analysis of Non-polynomial Systems Using the Sum of Squares Decomposition
- Hamiltonian structure and Darboux theorem for families of generalized Lotka–Volterra systems
- Dynamic Trends in Distributions
- The S‐Distribution: Approximation of Discrete Distributions
- A Simple, Flexible Failure Model
- Integration of sensitivity and bifurcation analysis to detect critical processes in a model combining signalling and cell population dynamics
- Approximation of dynamical systems using s-systems theory
- Tutorial:S-system analysis of continuous univariate probability distributions
- Hybrid Automata in Systems Biology: How Far Can We Go?
- Algebraic Systems Biology: Theses and Hypotheses
- Model based optimization of biochemical systems using multiple objectives: a comparison of several solution strategies
- Evolutionary Multi-Criterion Optimization
- The S-system computation of non-central gamma distribution
- Simple evaluation of Casimir invariants in finite-dimensional Poisson systems
- A modified collocation method for solving differential-algebraic equations
- Power-law modeling based on least-squares criteria: Consequences for system analysis and simulation
- Simplified method for the computation of parameters of power-law rate equations from time-series
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