ETHZ/Simulation
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== Simulation of Test Cases == | == 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. | + | 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. | * 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. | * Between 1000 and 2000 minutes we added the inducer that should be learned and let the system reach steady state. | ||
- | * After the 2000< | + | * After the 2000<sup>th</sup> 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 ==== | + | ==== Test 1: Learn and recognize IPTG ==== |
[[Image:ETHZTest1.png|center|thumb|Fig 1: Test 1: learn and recognize IPTG |720px]] | [[Image:ETHZTest1.png|center|thumb|Fig 1: Test 1: learn and recognize IPTG |720px]] | ||
- | ==== Test 2 ==== | + | ==== Test 2: Learn IPTG and get gested for aTc ==== |
- | [[Image:ETHZTest2.png|center|thumb|Fig 2: Test | + | [[Image:ETHZTest2.png|center|thumb|Fig 2: Test 2: learn IPTG and get tested for aTc |720px]] |
- | ==== Test 3 ==== | + | ==== Test 3: Learn and recognize aTc ==== |
- | [[Image:ETHZTest3.png|center|thumb|Fig 3: Test | + | [[Image:ETHZTest3.png|center|thumb|Fig 3: Test 3: learn and recognize aTc |720px]] |
- | ==== Test 4 ==== | + | ==== Test 4: Learn aTc and get tested for IPTG ==== |
- | [[Image:ETHZTest4.png|center|thumb|Fig 4: Test | + | [[Image:ETHZTest4.png|center|thumb|Fig 4: Test 4: learn aTc and get tested for IPTG |720px]] |
== Sensitivity Analysis == | == Sensitivity Analysis == |
Revision as of 11:37, 15 October 2007
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.