Behaviour of this kind could be treated by extending the model to introduce reactions in which FOXO species, probably that subset which is nuclear but not DNA-bound, bind to other TFs to form species representing the FOXO-TF complexes.
However, MEOR introduces reaction engineering into the perspective.
Building off the idea of structural similarity, some algorithms introduced reaction rules, or more general transitions between compounds based on changes in chemical structure.
This approach introduces reaction stoichiometry into classical path finding techniques via Mixed-Integer Linear Programming (MILP).
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Reaction rules allow new, potentially feasible pathways to be found by introducing reactions that may not yet have been added to metabolic databases.
Because phosphonate ligands with functional organic groups are easily introduced, reactions of these groups should be possible, e.g., polymerization, thiol-en or addition reactions, by which chains of clusters and hybrid materials with anisotropic structures could be generated.
The newly introduced reactions (in red) are listed in Appendix table 3. The final model significantly simplifies the pathway upstream of the IKK activation, and this simplification can be justified from the perspective of information flow.
Results show that, although agar slightly accelerates the anodic process, it does not significantly affect the cathodic reaction and does not introduce new reactions in the corrosion mechanism.
