This guide is also available as PDF
1 Model
The model for our AND-Gate is based on the model of the iGEM team PKU Beijing 2009 for their AND-Gate1. We modified the equations such that the change in tRNA and Aa-tRNA does not include the degradation of the mRNA which caused negativity of some concentrations in our model.[
1]
For more details see the paper by Anderson [
2].
The dye output was an adaption of the model proposed in the paper by Yildirim[
3].
2 Equations
3 Parameters
| | | | |
---|
| | | max transcription rate tRNA | |
| | | | |
| | | max transcription rate T7RNAP | |
| | | max translation rate T7RNAP | |
| | | | |
| | | | |
| | | | |
| | | | |
| | | degradation of T7RNAP mRNA | |
| | | | |
| | | response param. OmpR-P,tRNA | |
| | | response param. YcgE,T7RNAP | |
| | | response param T7RNAP,lacZ | |
| | | max transcription rate lacZ | |
| | | max translation rate lacZ | |
| | | | |
| | | | |
| | | degradation -Galactosidase | |
4 Initial Data
5 Simulation
Since the AND-Gate is only an intermediate part, no additional simulation was done here.
References
1. PKU Beijing 2009, 'AND Gate 1' (2009). 2. Anderson, J Christopher and Voigt, Christopher A and Arkin, Adam P, 'Environmental signal integration by a modular AND gate', Mol Syst Biol (2007). 3. Yildirim, N and Santillan, M and Horike, D and Mackey, MC, 'Dynamics and bistability in a reduced model of the lac operon', CHAOS (2004), 279-292.
This guide is also available as PDF
1 Model
2 Equations
3 Parameters
4 Initial Data
5 Simulation
References