Modeling, simulating, and parameter Fitting of biochemical kinetic experiments
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Publication:2805271
DOI10.1137/151004707zbMATH Open1337.92090OpenAlexW2278941722MaRDI QIDQ2805271FDOQ2805271
Authors: D. Goulet 
Publication date: 10 May 2016
Published in: SIAM Review (Search for Journal in Brave)
Abstract: In many chemical and biological applications, systems of differential equations containing unknown parameters are used to explain empirical observations and experimental data. The DEs are typically nonlinear and difficult to analyze, requiring numerical methods to approximate the solutions. Compounding this difficulty are the unknown parameters in the DE system, which must be given specific numerical values in order for simulations to be run. Estrogen receptor protein dimerization is used as an example to demonstrate model construction, reduction, simulation, and parameter estimation. Mathematical, computational, and statistical methods are applied to empirical data to deduce kinetic parameter estimates and guide decisions regarding future experiments and modeling. The process demonstrated serves as a pedagogical example of quantitative methods being used to extract parameter values from biochemical data models.
Full work available at URL: https://arxiv.org/abs/1508.05359
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optimizationcluster analysissensitivity analysisdifferential equationsconservation lawsparameter fittingmass actiondimerizationchromatographyestrogen receptor protein
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Cited In (8)
- Modeling and numerical simulation of biotin carboxylase kinetics: implications for half-sites reactivity
- Time scale simulation of \(\text{V}_{\max}\) of urea cycle enzymes
- Optimality principle and determination of kinetic constants for biochemical reactions
- Parameter estimation of an enzyme kinetic system using computer algebra techniques
- High-throughput screening: establishing mathematical and physical models for bio-target im\-mo\-bilization
- Kinetic model of hybridoma cultures for identification of rate limiting factors and process optimization
- A parameter estimation method for multiscale models of hepatitis C virus dynamics
- Estimation, model discrimination, and experimental design for implicitly given nonlinear models of enzyme catalyzed chemical reactions
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