Template:ETH Sim Input Rate

From 2006.igem.org

The input rates (PoPS) have been chosen in the range of mRNA transcription rate, which was estimated according to the following assumptions:

• E.coli cytoplasm volume is approximately 6.7*10^-16 l
• average number of mRNA molecules: 10
• → concentration_mRNA = 10/(6.7*10^-16 * 6.022*10²³) M = 0.0248 μM
• at equilibrum, mRNA rate and degredation balance each other. Assuming half life period of 30min for mRNA, the result is
  →rate_mRNA = concentration_mRNA * log(2)/30 μM/min = 5.7265e-04 μM/min

Amplifying/damping the input rates by small constant factors has influence on the qualitative outcome of the simulation.

• it is thus important to know how strong the input of the gate has to be.
• we can regulate this by choosing/designing the predecessor gate accordingly or
• by changing the ribosome binding sites to strengthen/weaken the input signal.

We accounted for this by adding restriction enzyme sites to the DNA.