ETHZ/Simulation
From 2007.igem.org
Contents |
Protocol
Simulation of Test Cases
To test for all conditions we run timing simulations for all 4 different branches in the flow diagram of our protocol and plotted the concentrations of the inducers, memory proteins and reporter proteins.
- During the first 1000 minutes of the simulation we did not add any inducers to the system to check for the baseline production of proteins.
- Between 1000 and 2000 minutes we added the inducer that should be learned and let the system reach steady state.
- After the 2000th minute we added the inducer AHL for memory formation and run the simulation for additional 1000 minutes to reach again steady state.
- Between 3000 and 4000 minutes we finally tested if the system reacts in the desired way by showing the right color.
Test 1: Learn and recognize IPTG
Test 2: Learn IPTG and get gested for aTc
Test 3: Learn and recognize aTc
Test 4: Learn aTc and get tested for IPTG
Sensitivity Analysis
For a system like our is is not enough to find a set of parameters for which it is working. To provide a stable performance also in the presence of noise and parameter missmatch we were interested in analysing the sensitivity of the system.
The results are plotted in Figure 5.