"
Team:EPF-Lausanne/ODEmodeling
From 2009.igem.org
(Difference between revisions)
| (5 intermediate revisions not shown) | |||
| Line 19: | Line 19: | ||
<br> | <br> | ||
| - | + | ||
| + | ==The model== | ||
| + | |||
The simulation of the expression of the RFP protein activated by the lovTAP in the Read Out 2 circuit was obtained by the following model: | The simulation of the expression of the RFP protein activated by the lovTAP in the Read Out 2 circuit was obtained by the following model: | ||
| Line 70: | Line 72: | ||
* [[Image:delta.png]] is the dilution rate [min -1] | * [[Image:delta.png]] is the dilution rate [min -1] | ||
| + | ==Parameters values== | ||
| + | |||
| + | The values used for these parameters are listed below: | ||
| + | |||
| + | * L = 7 [um] | ||
| + | |||
| + | * [[Image:Alpha_0.png]] = 0.05 for TetR and 0.3 for RFP | ||
| + | |||
| + | * K = 7 [um] for L*, 7 [um] for TetR and 7 [um] for RFP [um] | ||
| + | |||
| + | * n = 2 for L, 2 for TetR and 2 for RFP | ||
| + | |||
| + | * [[Image:gamma.png]] = 0.069 [min -1] for LovTAP, 0.069 [min -1] for TetR and 0.012 [min -1] for RFP | ||
| + | |||
| + | * [[Image:delta.png]] = log(2)/20, since a division occurs every 20 min for E. Coli | ||
| + | |||
| + | |||
| + | |||
| + | |||
| + | |||
| + | <html> | ||
| + | <p align="center" class="style1"><a href="#top"><img src="https://static.igem.org/mediawiki/2009/thumb/0/06/Up_arrow.png/50px-Up_arrow.png" alt="Back to top" border="0"></a><br></p> | ||
| + | </html> | ||
| + | <br> | ||
| + | </div> | ||
| - | + | </div><div CLASS="epfl09bouchon"></div> | |
Latest revision as of 15:37, 21 October 2009
Contents |
The model
The simulation of the expression of the RFP protein activated by the lovTAP in the Read Out 2 circuit was obtained by the following model:
1. LacI --> LovTAP
2. LovTAP --> LovTAP* (activated form of LovTAP due to a light-induced conformational change)
3. lovTAP* --> TetR
4. TetR --> RFP
5. RFP --> RFP* (activated, fluorescent)
Where:
- L is the concentration of lovTAP [um]
- L* is the concentration of the activated lovTAP (all lovTAP molecules become activated when exposed to light stimulation) [um]
- T is the concentration of TetR [um]
- R is the concentration of RFP [um]
- R* is the concentration of activated RFP [um]
-
is the function of light exposure
-
is the basal expression of the given promoter
- K is the affinity of the given repressor for its target promoter [um]
- n is the cooperativity coefficient of the Hill function
-
is the molecule degradation rate [min -1]
-
is the dilution rate [min -1]
Parameters values
The values used for these parameters are listed below:
- L = 7 [um]
- = 0.05 for TetR and 0.3 for RFP
- K = 7 [um] for L*, 7 [um] for TetR and 7 [um] for RFP [um]
- n = 2 for L, 2 for TetR and 2 for RFP
- = 0.069 [min -1] for LovTAP, 0.069 [min -1] for TetR and 0.012 [min -1] for RFP
- = log(2)/20, since a division occurs every 20 min for E. Coli
