This protocol demonstrates the implementation of a stepwise simulation of beta-oxidation in mitochondria, highlighting reaction kinetics and system equations.
This protocol outlines the complete process of modeling mitochondrial β-oxidation as a system of first-order differential equations, beginning with stoichiometric derivation and matrix reduction, and culminating in a MATLAB-based simulation. The user is guided through each step of linearizing the pathway, defining reaction kinetics, and numerically solving the system using ode45.
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Shaw et al. (2025) studied this question.
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