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Team:Paris Bettencourt/Modeling/Parameters
From 2011.igem.org
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<li><i>Cytoplasmic expression of a reporter gene by co-delivery of T7 RNA polymerase and T7 promoter sequence with cationic liposomes</i>, | <li><i>Cytoplasmic expression of a reporter gene by co-delivery of T7 RNA polymerase and T7 promoter sequence with cationic liposomes</i>, | ||
X Gao and L Huang, accessible <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC309671/pdf/nar00061-0090.pdf">here</a></li> | X Gao and L Huang, accessible <a href="http://www.ncbi.nlm.nih.gov/pmc/articles/PMC309671/pdf/nar00061-0090.pdf">here</a></li> | ||
| - | <li><i>Molecular Biology for Masters</i> by Dr. G. R. Kantharaj, accessible<a href="http://mol-biol4masters.masters.grkraj.org/html/Prokaryotic_DNA_Replication13-T7_Phage_DNA_Replication.htm"> here</a></li> | + | <li><i>Molecular Biology for Masters</i> by Dr. G. R. Kantharaj, accessible <a href="http://mol-biol4masters.masters.grkraj.org/html/Prokaryotic_DNA_Replication13-T7_Phage_DNA_Replication.htm">here</a></li> |
<ol> | <ol> | ||
</div> | </div> | ||
Revision as of 11:40, 12 September 2011
Parameters
| Parameter | Description | Value | Unit | Reference |
|---|---|---|---|---|
 |
Concentration of X | NA | molecules per cell |
Notation convention |
 |
Delay due to protein X production and maturation | NA | s | Notation convention |
 |
Maximal production rate of pVeg promoter (constitutive) | 0.02 | molecules.s-1 or pops |
Estimated, see the justification |
 |
Maximal production rate of pLac promoter | 0.02 | molecules.s-1 or pops |
Estimated, see the justification |
 |
Maximal production rate of pT7 promoter | 0.02 | molecules.s-1 or pops |
Estimated, see the justification |
 |
Dissociation constant for IPTG to LacI | 1200 | molecules per cell |
Aberdeen 2009 wiki |
 |
Dissociation constant for LacI to LacO (pLac) | 700 | molecules per cell |
Aberdeen 2009 wiki |
 |
Dissociation constant for T7 RNA polymerase to pT7 | 10 | molecules per cell |
We used the classic assumption 1nM=1 molecule per cell and [1] |
 |
Translation rate of proteins | 0.9 | s-1 | Estimated, see the justification |
 |
Dilution rate in exponential phase | 2.88x10-4 | s-1 | Calculated with a 40 min generation time. See explanation |
 |
Degradation rate of mRNA | 2.88x10-3 | s-1 | Uri Alon (To Be Confirmed) |
 |
Degradation rate of GFP | 10-4 | s-1 | BioNumbers |
 |
Degradation rate of RFP | 10-4 | s-1 | Estimated equal to GFP degradation rate |
 |
Delay due tT7 RNA polymerase production and maturation | 300 | s | [2] |
 |
Delay due GFP production and maturation | 360 | s | BioNumbers |
 |
Delay due RFP production and maturation | 360 | s | Estimated equal to GFP delay (similar molecules) |
 |
Delay due to mRNA production | 30 | s | BioNumbers with an approximation: all our contructs are around 1-2kb |
References
