Table 1 Optimization methods with additional constraints
Method | Enzymatic cost | Constraint |
|---|---|---|
FBAwMC [44] | \(\sum a_{i}J_{i}\) | ≤1 |
MOMENT [46] | \(\sum g_{i}\cdot {MW}_{i}\) | ≤C |
Tepper et al. [47] | \(\sum M_{i} + \delta \cdot \sum g_{i}\) | minimize |
Shlomi et al. [49] | \(\sum \frac {{MW}_{i}J_{i}}{k_{{cat}_{i}}}\) | ≤C |
Holzhütter [28] | \(\sum J_{i}^{+} + k_{{eq}_{i}}\cdot {J_{i}^{-}}\) | minimize |
corsoFBA | \(\sum J_{i}{\cdot }{MW}_{i}{\cdot }exp\left ({\frac {\alpha \cdot \Delta _{r}{G^{\prime }}_{i}^{o}}{R\cdot {}T}}\right)\) | minimize |
Variables | ||
a - crowding coefficient | ||
J - flux through the reaction | ||
g - enzyme concentration | ||
MW - molecular weight of associated enzyme | ||
M - metabolite levels | ||
δ - model parameter | ||
k cat - turnover number | ||
k eq - thermodynamic equilibrium constant | ||
C - fraction of dry weight mass associated with proteins | ||