Bayesian flux balance analysis applied to a skeletal muscle metabolic model.
In this article, the steady state condition for the multi-compartment models for cellular metabolism is considered. The problem is to estimate the reaction and transport fluxes, as well as the concentrations in venous blood when the stoichiometry and bound constraints for the fluxes and the concentrations are given. The problem has been addressed previously by a number of authors, and optimization-based approaches as well as extreme pathway analysis have been proposed. These approaches are briefly discussed here. The main emphasis of this work is a Bayesian statistical approach to the flux balance analysis (FBA). We show how the bound constraints and optimality conditions such as maximizing the oxidative phosphorylation flux can be incorporated into the model in the Bayesian framework by proper construction of the prior densities. We propose an effective Markov chain Monte Carlo (MCMC) scheme to explore the posterior densities, and compare the results with those obtained via the previously studied linear programming (LP) approach. The proposed methodology, which is applied here to a two-compartment model for skeletal muscle metabolism, can be extended to more complex models.
Heino
Jenni
J
Institute of Mathematics, Helsinki University of Technology, PO Box 1100, FI-02015, Finland. jenni.heino@tkk.fi
Tunyan
Knarik
K
Calvetti
Daniela
D
Somersalo
Erkki
E
D000818:Animals; D001499:Bayes Theorem; D003198:Computer Simulation; D004734:Energy Metabolism; D005947:Glucose / Q000378:metabolism; D006003:Glycogen / Q000096:biosynthesis; D006801:Humans; D050356:Lipid Metabolism; D008954:Models, Biological; D015233:Models, Statistical; D032342:Muscle Cells / Q000378:metabolism*; D018482:Muscle, Skeletal / Q000378:metabolism*; D011773:Pyruvates / Q000378:metabolism
D011773:Pyruvates; D006003:Glycogen; D005947:Glucose