Our interest is to find conditions for which the flux towards P1 is high. We note that the structure of this pathway and the kinetics of its enzymes are such that it is almost impossible to guess the behaviour of this system by intuition. Figure 1 - Scheme of pathway analysed in the text. Arrows represent the enzymatic steps and point to the forward direction of flux, all reactions are chemically reversible. The equilibrium constants of all steps are also 1, and are not changed in any simulation.
All values are in arbitrary units.
In the most recent version of Gepasi we have devised an interface that allows the program to combine numerical optimisation algorithms with steady state or time course simulations. This combination of optimisation and simulation has been implemented in such a way that many different optimisation algorithms can be used to attempt to solve a problem. The ability to apply several of these is then almost a necessity for any moderately complex problem. Using the new version of Gepasi we applied 5 different optimisation algorithms to this problem. The wild type entry refers to the initial state before applying the optimisation.