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Meeting with Matthieu Bultelle
For our first model (simple GFP production):
For our second model:
(Gene activated by stimulus, s varies with [activator], enzyme cleaves GFP)
We cannot use Michaelis-Menten because of the assumption that it uses:
But we are producing enzyme, so Vmax will change! Therefore, the conservation E0 = E + ES does not hold for our system.
Since we are producing both substrate and enzyme, we have roughly the same amount of substrate and enzyme.
We cannot use the Michaelis-Menten model, so we have to solve from 1st principle (which just means writing down all of the biochemical equations and solving for these). When simulating, change orders of magnitude to see what our system does. Remember: Cascading introduces delays, however, the advantage of cascading is a fast rise to the threshold value.
We need to find the degradation rate of TEV. If the half-life is quite big (~10 hours) then we could use a modified version of Michaelis-Menten.
Steady-state; There won't be many ensymes. Therefore, Vmax will be very small and our system won't be very efficient.