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Minnesota/22 June 2009
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'''Patrick'''<br> | '''Patrick'''<br> | ||
| - | I figured out how to fix the | + | I figured out how to fix the issue with deleting reactions. Unfortunately, changing designGUI appears to be impossible. So a work-around needs to be established for the non-linear parameter variations. |
'''Ben'''<br> | '''Ben'''<br> | ||
Latest revision as of 21:15, 29 July 2009
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Patrick
I figured out how to fix the issue with deleting reactions. Unfortunately, changing designGUI appears to be impossible. So a work-around needs to be established for the non-linear parameter variations.
Ben
Here is the first incarnation of the TNN model (many future models will simply change this one):
| Reaction | Forward Kinetic Constant | Reverse Kinetic Constant |
|---|---|---|
| RNAp + lacP + lacI4:lacO1 -> RNAp:lacP | 6.23E+05 | |
| RNAp + lacP + lacO1 ↔ RNAp:lacP | 1E+07 | 1 |
| RNA:lacP -> RNAp:lacP* | .01 | |
| RNAp:lacP* -> lacP + lacO1 + RNAp:DNAgfp | 30 | |
| RNAp:DNAgfp -> RNAp + gfp_mRNA | 30 | |
| gfp_mRNA + rib -> rib:gfp_mRNA | 100000 | |
| rib:gfp_mRNA -> rib:gfp_mRNA_1 + gfp_mRNA | 33 | |
| rib:gfp_mRNA_1 -> rib + gfp | 33 | |
| tetR2 + aTc ↔ tetR2:aTc | 2E+09 | 4E-04 |
| tetR2:aTc + aTc ↔ tetR2:aTc2 | 1E+08 | 1E-03 |
| tetR2:aTc + tetO1 ↔ tetR2:tetO1:aTc | 1E+08 | 1 |
| tetR2:aTc2 + tetO1 ↔ tetR2:tetO1:aTc2 | 1E+08 | 1E+05 |
| tetR2:tetO1 + aTc ↔ tetR2:tetO1:aTc | 1E+08 | 1E-03 |
| tetR2:tetO1:aTc + aTc ↔ tetR2:tetO1:aTc2 | 1E+08 | 1E-03 |
| tetR2 -> Ø | 2.89E-04 | |
| tetR2:aTc -> aTc | 2.89E-04 | |
| tetR2:aTc2 -> 2 aTc | 2.89E-04 | |
| tetR2 + nsDNA ↔ tetR2:nsDNA | 1000 | 3.2409 |
| tetR2:aTc + nsDNA ↔ tetR2:aTc:nsDNA | 1000 | 3.2409 |
| tetR2:aTc:nsDNA -> aTc + nsDNA | 1.93E-04 | |
| tetR2:nsDNA -> nsDNA | 1.93E-04 | |
| Ø -> tetR2 | 1E-11 | |
| Ø -> aTc | 3.3E-04 | |
| gfp_mRNA -> Ø | 1.16E-03 | |
| gfp -> Ø | 3.21E-05 |
