Team:ETH Zurich/Modeling/Parameters

From 2011.igem.org

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== Single-Cell Model ==
== Single-Cell Model ==
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<td> <b>Parameter</b> </td><td> <b>Description</b> </td><td> <b>Value</b></td><td> <b>Reference</b></td></tr>
<td> <b>Parameter</b> </td><td> <b>Description</b> </td><td> <b>Value</b></td><td> <b>Reference</b></td></tr>
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== Microfluidics Model ==
== Microfluidics Model ==
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Revision as of 13:01, 15 September 2011

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Parameters
Single-Cell Model Microfluidics Model Combined Model
Of course, our models do not work without parameters, and in our case, there are quite a lot of them. In order to keep track of all of their respective values and units, we gathered them in a series of tables on this page.

Single-Cell Model




Parameter Description Value Reference
αTetR TetR production rate3.93 μM/min[5]
αC CI production rate1 μM/min[1]
αL1 LacI production rate1 μM/min[1]
αL2 LacIM1 production rate1 μM/min[1]
αG GFP production rate2 μM/min[1]
αLuxI LuxI production rate1 μM/min[7]
αLuxI LuxI production rate1 μM/min[7]
αLuxI LuxI production rate1 μM/min[7]
ks1 AHLi production rate0.01 1/min[2]
ρR LuxR-AHL dimerization rate0.5 1/μM3min[1]
αRFP RFP production rate1 μM/mina.
βAcA Acetaldehyde repression coefficient7.124 μM[5]
βT TetR repression coefficient0.01 μMa.
βC CI repression coefficient0.008 μM[1]
βL LacI repression coefficient0.8 μM[1]
θR LuxR-AHL repression coefficient0.01 μM[1]
γTetR TetR degradation rate0.0692 1/mina.
γC CI degradation rate0.0692 1/min[1]
γL LacI degradation rate0.0231 1/min[1]
γG GFP degradation rate0.0692 1/min[1]
γLuxI LuxI degradation rate0.0167 1/min[3]
ks0 AHLi degradation rate1 1/min[2]
kse AHLe degradation rate1 1/min[2]
γR LuxR-AHL degradation rate0.0231 1/min[1]
γRFP RFP degradation rate0.0041 1/min[4]
n1 LacI cooperativity coefficient2[1]
n2 CI cooperativity coefficient2[1]
n3 TetR cooperativity coefficient2[2]
n4 LuxR-AHL cooperativity coefficient1[1]
n5 AlcR-AcA cooperativity coefficient1.352[5]
ηDiffusion rate across the cell membrane2[2]
ηext Average diffusion rate for all cells1[2]
NNumber of cells1a.
aXylRXylR production rate95.5 uM/min[7]
n6Xylene cooperativity coefficient2[7]
γXylRXylR degradation rate0.03553 1/mina.
KXylXylene activation coefficient40 uM[7]
KXylRXylR activation coefficient1.419*10-3 uM[6]
n7XylR cooperativity coefficient5[6]

a. - assumption

Microfluidics Model

Combined Model

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