Enumerating constrained elementary flux vectors of metabolic networks.
The concept of elementary vector is generalised to the case where the steady-state space of the metabolic network is not a flux cone but is a general polyhedron due to further inhomogeneous constraints on the flows through some of the reactions. On one hand, this allows to selectively enumerate elementary modes which satisfy certain optimality criteria and this can yield a large computational gain compared with full enumeration. On the other hand, in contrast to the single optimum found by executing a linear program, this enables a comprehensive description of the set of alternate optima often encountered in flux balance analysis. The concepts are illustrated on a metabolic network model of human cardiac mitochondria.
Urbanczik
R
R
Institute of Physiology, University of Bern, Bühlplatz 5, Bern 3012, Switzerland. urbanczik@pyl.unibe.ch
D000465:Algorithms; D000818:Animals; D003198:Computer Simulation; D004734:Energy Metabolism / Q000502:physiology; D006801:Humans; D008954:Models, Biological; D009716:Numerical Analysis, Computer-Assisted; D020543:Proteome / Q000378:metabolism*; D015398:Signal Transduction / Q000502:physiology*
D020543:Proteome