Team:Paris/Analysis/Math+Sim
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= System analysis = | = System analysis = | ||
- | Simulations of the core system displayed above reveal that it does not exhibit an oscillatory behavior. In this section we use the model of the core system to try to figure out the contribution of some key characteristics of the network topology on the | + | Simulations of the core system displayed above reveal that it does not exhibit an oscillatory behavior. In this section we use the model of the core system to try to figure out the contribution of some key characteristics of the network topology on the dynamics of the system. This analysis is done by successively simulating altered forms of the system. |
The following table lists the different forms of the system considered and their respective outcome : | The following table lists the different forms of the system considered and their respective outcome : | ||
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| style=" text-align:center;" |[[Image:Core2.png|280px|center]] | | style=" text-align:center;" |[[Image:Core2.png|280px|center]] | ||
|style=" text-align:center;" | [[Image:Orgstar.gif]][[Image:Orgstar.gif]] | |style=" text-align:center;" | [[Image:Orgstar.gif]][[Image:Orgstar.gif]] | ||
- | | Damped oscillations. Auto-activation of Flia slows down its | + | | Damped oscillations. Auto-activation of Flia slows down its dynamics. Without this auto-activation the slope of Flia is similar to the slope of FlhDC. For oscillations to appear, different species need to have comparable time scales : oscillations are much more easier without Flia auto-activation. |
|- style="background: #dddddd;" | |- style="background: #dddddd;" | ||
| style="background: #D4E2EF; text-align:center;"|[[Image:Core_system3.png|center|150px]]Enhancing the inhibition of FlhDC via envZ | | style="background: #D4E2EF; text-align:center;"|[[Image:Core_system3.png|center|150px]]Enhancing the inhibition of FlhDC via envZ |
Revision as of 16:35, 27 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. System analysisSimulations of the core system displayed above reveal that it does not exhibit an oscillatory behavior. In this section we use the model of the core system to try to figure out the contribution of some key characteristics of the network topology on the dynamics of the system. This analysis is done by successively simulating altered forms of the system. The following table lists the different forms of the system considered and their respective outcome :
In the next section, we examine significant topology improvements of the core system that are potentially better for oscillations and that preserve FIFO required interactions. |