Difference between revisions of "Team:ETH Zurich/Modeling/Parameters"
| Line 27: | Line 27: | ||
<h4>Assumptions</h4> | <h4>Assumptions</h4> | ||
<table> | <table> | ||
| − | <tr> <th>Name </th> <th>Description </th><th>Value </th><th>References/Estimation </th> </tr> | + | <tr> <th>Name </th> <th>Description </th><th>Minimum Value</th><th>Maximum Value</th><th>References/Estimation </th> </tr> |
| − | <tr> <td>\(\text{Lac}_{\text{ini}}\)</td> <td> Initial concentration of lactate in the medium </td><td> 1 μM</td> <td>Low concentration of lactate in the medium</td> </tr> | + | <tr> <td>\(\text{B}}\)</td> <td> Initial concentration of lactate in the medium </td><td> 0.1 μM</td> <td> 2 μM</td> <td>Low concentration of lactate in the medium</td> </tr> |
| − | <tr> <td> | + | <tr> <td>\(\text{Lac}_{\text{ini}}\)</td> <td> Initial concentration of lactate in the medium </td><td> 0.1 μM</td> <td> 2 μM</td> <td>Low concentration of lactate in the medium</td> </tr> |
| + | <tr> <td>\(K_\mathrm{d,DLL}\)</td> <td> Dissociation constant between the dimer of Lldr and Lactate</td><td>10 (μM)<SUP>2</SUP> </td> <td>10000 (μM)<SUP>2</SUP></td> <td> </td> </tr> | ||
</table> | </table> | ||
Revision as of 16:04, 20 August 2015
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Parameters
AHL module
Single cell model
| Name | Description | Value | References/Estimation |
|---|---|---|---|
| \(K_{d,\text{LuxRAHL}}\) | 100 nM | Dissociation constant between luxR and AHL | Weber, 2013 |
| \(\text{LuxR}_\text{tot}\) | 0.0025 μM | Total concentration of LuxR | estimated |
| \(a_\mathrm{LuxI}\) | 1 μM.min-1 | Maximal production rate of LuxI | Basu, 2005 |
| \(k_\mathrm{leaky}\) | 0.0005 μM-1 | Leakiness of PLuxR promoter | estimated |
| \(K_\mathrm{a,LuxRAHL}\) | 0.01 μM | Activation coefficient of LuxRAHL | estimated |
| \(d_\mathrm{LuxI}\) | 0.0167 min-1 | Degradation rate of LuxI | estimated |
| \(a_\mathrm{AHL}\) | 0.04 μM.min-1 | Production rate of AHL | Weber, 2013 |
| \(d_\mathrm{AHL}\) | 0.01 min-1 | Degradation rate of AHL | Basu, 2005 |
| \(v_\mathrm{AiiA}\) | \(k_\mathrm{cat} \cdot C_\mathrm{AiiA} \) | Maximal conversion rate of AiiA | |
| \(k_\mathrm{cat}\) | 1.63 103min-1 | Turnover number of AiiA | Wang, 2004 |
| \(C_\mathrm{AiiA}\) | 0.05 μM | Concentration of AiiA | |
| \(K_\mathrm{M,AiiA}\) | 2.95 103 μM | of AiiA | Wang, 2004 |
| \(a_\mathrm{GFP}\) | 2 μM.min-1 | Maximal production rate of GFP | Basu, 2005 |
| \(d_\mathrm{GFP}\) | 0.01 min-1 | Degradation rate of GFP | estimated |
Lactate module
Single cell model
Assumptions
| Name | Description | Minimum Value | Maximum Value | References/Estimation |
|---|---|---|---|---|
| \(\text{B}}\) | Initial concentration of lactate in the medium | 0.1 μM | 2 μM | Low concentration of lactate in the medium |
| \(\text{Lac}_{\text{ini}}\) | Initial concentration of lactate in the medium | 0.1 μM | 2 μM | Low concentration of lactate in the medium |
| \(K_\mathrm{d,DLL}\) | Dissociation constant between the dimer of Lldr and Lactate | 10 (μM)2 | 10000 (μM)2 |