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. 2012 Jul 9;7(7):e39396. doi: 10.1371/journal.pone.0039396

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Nikerel et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

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Panel fig:Feasibility-FBA illustrates constraint-based modeling often used within Flux Balance Analysis, starting from the unconstrained solution space and ending in the optimal solution (adapted from [8]). Feasibility Analysis is inspired from this constraint-based approach and combines it with the molecular rigor of a detailed kinetic model. The regulatory and physiological spaces are connected to each other with available kinetic rate equations for each reaction (usually a non-linear function of enzyme levels , metabolite levels and kinetic parameter set ). Under a number of constraints (e.g. thermodynamic, kinetic etc), only a subspace of both the enzyme and physiological space in panel fig:Feasibility-Spaces is viable, i.e. fulfills the constraints, as represented in panel fig:Feasibility-Allowed. Considering the list of feasibility criteria, only a subspace of this viable space is also feasible (panel fig:Feasibility-Feasible). The feasible enzyme space is constructed by evaluating the list of feasibility criteria for each physiological state in the viable space. The final feasible enzyme space can further be inspected within the scope of regulation analysis.

Inline graphic — Panel fig:Feasibility-FBA illustrates constraint-based modeling often used within Flux Balance Analysis, starting from the unconstrained solution space and ending in the optimal solution (adapted from [8]). Feasibility Analysis is inspired from this constraint-based approach and combines it with the molecular rigor of a detailed kinetic model. The regulatory and physiological spaces are connected to each other with available kinetic rate equations for each reaction (usually a non-linear function of enzyme levels , metabolite levels and kinetic parameter set ). Under a number of constraints (e.g. thermodynamic, kinetic etc), only a subspace of both the enzyme and physiological space in panel fig:Feasibility-Spaces is viable, i.e. fulfills the constraints, as represented in panel fig:Feasibility-Allowed. Considering the list of feasibility criteria, only a subspace of this viable space is also feasible (panel fig:Feasibility-Feasible). The feasible enzyme space is constructed by evaluating the list of feasibility criteria for each physiological state in the viable space. The final feasible enzyme space can further be inspected within the scope of regulation analysis.