Team:Paris/Analysis/Math+Sim
From 2008.igem.org
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Indeed, we may see that there is a LIFO behavior rather than the FIFO we expect... | Indeed, we may see that there is a LIFO behavior rather than the FIFO we expect... | ||
- | * Then, we simulated the entire system, to check if we had | + | * Then, we simulated the entire system (that means '''with FliA'''), to check if we had |
** the lasting burst due to FliA (more important for Z3 than for Z2, and more important for Z2 than Z1) in the increasing phase. | ** the lasting burst due to FliA (more important for Z3 than for Z2, and more important for Z2 than Z1) in the increasing phase. | ||
** the effect of fliA which maintained the concentrations to their maximum (more important for Z3 than for Z2, and more important for Z2 than Z1) in the decreasing phase. We have obtained the following curves, which are in perfect agreement with the theoretical definition of a 'FIFO' process : | ** the effect of fliA which maintained the concentrations to their maximum (more important for Z3 than for Z2, and more important for Z2 than Z1) in the decreasing phase. We have obtained the following curves, which are in perfect agreement with the theoretical definition of a 'FIFO' process : |
Revision as of 10:48, 26 October 2008
Mathematical analysis and simulations
FIFO
where CFP, YFP, and RFP will be denoted below as respectively Z1,Z2 and Z3.
We have implemented this system using Matlab (see the corresponding codes)
Indeed, we may see that there is a LIFO behavior rather than the FIFO we expect...
Oscillations
If you want more details about the way we have built them, you can go to the model construction page. If one tries to draw simulations of this system, he will obtain this kind of results : In a nutshell : It does not work !
Finally, the logical continuation of the process will be to try to improve the biological system in order to find oscillations. This will be described in the part below, as well as in the section System Improvements. Parameters' changesSince the core system has difficulties to produce oscillations, we perform a parameter search and we study the impact of parameters' changes in the core system. We brain-storm about possible modifications on the core system. After testing our list of the possiblities, our main findings are: |