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Team:ETH Zurich/Parameter
From 2013.igem.org
(Difference between revisions)
| Line 47: | Line 47: | ||
<td>1 μ M/min</td> | <td>1 μ M/min</td> | ||
<td>LuxI synthesis rate</td> | <td>LuxI synthesis rate</td> | ||
| + | <td> </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>d<sub>LuxI</sub></td> | ||
| + | <td>0.0167 min<sup>-1</sup></td> | ||
| + | <td>LuxI degradation rate</td> | ||
| + | <td> </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>k</td> | ||
| + | <td>0.888 h<sup>-1</sup></td> | ||
| + | <td>Cell growth rate</td> | ||
| + | <td>estimated</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>α<sub>LuxR</sub></td> | ||
| + | <td>0.001 μ M/min</td> | ||
| + | <td>LuxR synthesis rate</td> | ||
| + | <td> </td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>d<sub>LuxR</sub></td> | ||
| + | <td>0.002 min<sup>-1</sup></td> | ||
| + | <td>LuxR degradation rate</td> | ||
<td> </td> | <td> </td> | ||
</tr> | </tr> | ||
| Line 52: | Line 76: | ||
<td>ρ<sub>R</sub></td> | <td>ρ<sub>R</sub></td> | ||
<td>0.5 μM<sup>-3</sup>min<sup>-1</sup></td> | <td>0.5 μM<sup>-3</sup>min<sup>-1</sup></td> | ||
| - | <td>LuxR/ | + | <td>LuxR/OHHL dimerization</td> |
<td>Basu <i>et al.</i>, 2005</td> | <td>Basu <i>et al.</i>, 2005</td> | ||
| + | </tr> | ||
| + | <tr> | ||
| + | <td>d<sub>R</sub></td> | ||
| + | <td>0.0231 min<sup>-1</sup></td> | ||
| + | <td>Dimer LuxR/OHHL degradation rate</td> | ||
| + | <td> </td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>K<sub>R</sub></td> | <td>K<sub>R</sub></td> | ||
<td>0.01 μM</td> | <td>0.01 μM</td> | ||
| - | <td>LuxR/ | + | <td>LuxR/OHHL activation coefficient</td> |
<td>Basu <i>et al.</i>, 2005</td> | <td>Basu <i>et al.</i>, 2005</td> | ||
</tr> | </tr> | ||
| Line 71: | Line 101: | ||
<td> 2 μM min<sup>-1</sup></td> | <td> 2 μM min<sup>-1</sup></td> | ||
<td>GFP synthesis rate</td> | <td>GFP synthesis rate</td> | ||
| + | <td>Basu <i> et al.</i>, 2005</td> | ||
| + | </tr> | ||
| + | <td>K<sub>GFP</sub></td> | ||
| + | <td> 0.025 </td> | ||
| + | <td>GFP basal expression</td> | ||
<td>Basu <i> et al.</i>, 2005</td> | <td>Basu <i> et al.</i>, 2005</td> | ||
</tr> | </tr> | ||
<tr> | <tr> | ||
<td>d<sub>GFP</sub></td> | <td>d<sub>GFP</sub></td> | ||
| - | <td> | + | <td>4.4432 x 10<sup>-4</sup> min<sup>-1</sup> </td> |
| - | <td> GFP degradation rate</td> | + | <td>GFP degradation rate</td> |
| - | <td> | + | <td> </td> |
</tr> | </tr> | ||
<tr> | <tr> | ||
Revision as of 00:32, 1 October 2013
Parameters
Overview of the parameters used in the models.
| Parameter | Value | Description | Reference |
|---|---|---|---|
| DOHHL | 4.9 x 10-6 cm2/s | OHHL diffusion constant | Stewart P.S., 2003 |
| Cagar | 0.9 | Reduced diffusion coefficient | Fatin-Rouge et al., 2004 |
| αOHHL | 0.01 min-1 | OHHL synthesis rate | |
| dOHHL | 0.01 min-1 | OHHL degradation rate (intracellular) | Basu et al., 2005 |
| dOHHL,e | 4.8135 x 10-4min-1 | OHHL extracellular decay | Horswill et al., 2007 |
| αLuxI | 1 μ M/min | LuxI synthesis rate | |
| dLuxI | 0.0167 min-1 | LuxI degradation rate | |
| k | 0.888 h-1 | Cell growth rate | estimated |
| αLuxR | 0.001 μ M/min | LuxR synthesis rate | |
| dLuxR | 0.002 min-1 | LuxR degradation rate | |
| ρR | 0.5 μM-3min-1 | LuxR/OHHL dimerization | Basu et al., 2005 |
| dR | 0.0231 min-1 | Dimer LuxR/OHHL degradation rate | |
| KR | 0.01 μM | LuxR/OHHL activation coefficient | Basu et al., 2005 |
| η | 1 | Hill coefficient | Basu et al., 2005 |
| αGFP | 2 μM min-1 | GFP synthesis rate | Basu et al., 2005 | KGFP | 0.025 | GFP basal expression | Basu et al., 2005 |
| dGFP | 4.4432 x 10-4 min-1 | GFP degradation rate | |
| αGusA | GusA synthesis rate | ||
| dGusA | 4.01127 x 10-6 s-1 | GusA decay (half-life 55oC 2 days) | Jefferson, 1995 |
| KGusA | 4.45 nM | LuxR/AHL activation coefficient | estimated |
| row 15, cell 1 | row 15, cell 2 | row 15, cell 3 | row 15, cell 4 |
| row 16, cell 1 | row 16, cell 2 | row 16, cell 3 | row 16, cell 4 |
| row 17, cell 1 | row 17, cell 2 | row 17, cell 3 | row 17, cell 4 |
| row 18, cell 1 | row 18, cell 2 | row 18, cell 3 | row 18, cell 4 |
| row 19, cell 1 | row 19, cell 2 | row 19, cell 3 | row 19, cell 4 |
| row 20, cell 1 | row 20, cell 2 | row 20, cell 3 | row 20, cell 4 |
