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Team:EPF-Lausanne/Modeling
From 2008.igem.org
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| + | !align="center"|[[Team:EPF-Lausanne|Home]] | ||
| + | !align="center"|[[Team:EPF-Lausanne/Team|The Team]] | ||
| + | !align="center"|[[Team:EPF-Lausanne/Project|The Project]] | ||
| + | !align="center"|[[Team:EPF-Lausanne/Parts|Parts Submitted to the Registry]] | ||
| + | !align="center"|[[Team:EPF-Lausanne/Modeling|Modeling]] | ||
| + | !align="center"|[[Team:EPF-Lausanne/Notebook|Notebook]] | ||
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| + | ==Simulation== | ||
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| + | ===Simbiology=== | ||
<p> Simulation has began. We have built a model using SimBiology. The ODEs have all been computed. The main problem now resides in definining the parameters correctly. | <p> Simulation has began. We have built a model using SimBiology. The ODEs have all been computed. The main problem now resides in definining the parameters correctly. | ||
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| - | + | ===Matlab=== | |
<!--- The Mission, Experiments ---> | <!--- The Mission, Experiments ---> | ||
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Revision as of 15:43, 5 August 2008
| Home | The Team | The Project | Parts Submitted to the Registry | Modeling | Notebook |
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Contents |
Simulation
Simbiology
Simulation has began. We have built a model using SimBiology. The ODEs have all been computed. The main problem now resides in definining the parameters correctly. Primary results look promising. An RhlI-induced reaction gave the desired curves, well nearly. GFP still ends up too high. The other main problem is going to be the response time. But we have to wait until we have a complete and robust model to really start finding solutions to our problems.
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The simulation starts off with constitutive expression of GFP. After RhlI "injection", GFP production slows down and RFP starts to be expressed. Speeds and concentrations are not yet optimal but this was a quick first try to check if the model was viable. Conclusion: OK. |
Have been considering LacI and LacIm as two different proteins. But after amino acid comparaison they are actually the same. Only the promoter and DNA sequenses are different.
Matlab
Note
The Ordinary Differential Equations (ODE) of our system are listed in the following file :
