"
Team:Paris/Modeling/f3bis
From 2008.igem.org
(Difference between revisions)
| Line 1: | Line 1: | ||
| - | [[Image:f3env.png|thumb]] | + | [[Image:f3env.png|thumb]] (see [[Team:Paris/Modeling/Oscillations#Biochemical_Assumptions|the considerations on the use of EnvZ]] |
| - | We have [EnvZ] = {coef<sub>env</sub>}''expr(pTet)'' = {coef<sub>env</sub>} ƒ1([aTc]<sub>i</sub>) | + | We have [EnvZ]<sub>produced</sub> = {coef<sub>env</sub>}''expr(pTet)'' = {coef<sub>env</sub>} ƒ1([aTc]<sub>i</sub>) |
| + | |||
| + | and [EnvZ]<sub>total</sub> = [EnvZ]<sub>basal</sub> + [EnvZ]<sub>produced</sub> | ||
and [FliA] = {coef<sub>FliA</sub>}''expr(pBad)'' = {coef<sub>FliA</sub>} ƒ2([arab]<sub>i</sub>) | and [FliA] = {coef<sub>FliA</sub>}''expr(pBad)'' = {coef<sub>FliA</sub>} ƒ2([arab]<sub>i</sub>) | ||
Revision as of 08:39, 16 October 2008
We have [EnvZ]produced = {coefenv}expr(pTet) = {coefenv} ƒ1([aTc]i)
and [EnvZ]total = [EnvZ]basal + [EnvZ]produced
and [FliA] = {coefFliA}expr(pBad) = {coefFliA} ƒ2([arab]i)
So, if we denote phosphorylated OmpR by OmpR*, we have
that we can then introduce in the previous expression (ƒ 3) :
| param | signification | unit | value |
| [expr(pFlhDC)] | expression rate of pFlhDC with RBS E0032 | nM.s-1 | see "findparam" need for 20 + 20 measures and 5x5 measures for the SUM? |
| γGFP | dilution-degradation rate of GFP(mut3b) | min-1 | 0.0198 |
| [GFP] | GFP concentration at steady-state | nM | need for 20 + 20 measures and 5x5 measures for the SUM? |
| (fluorescence) | value of the observed fluorescence | au | need for 20 + 20 measures and 5x5 measures for the SUM? |
| conversion | conversion ratio between fluorescence and concentration | nM.au-1 | (1/79.429) |
| param | signification corresponding parameters in the equations | unit | value |
| β12bis | production rate of FliA-pFlhDC with RBS E0032 replace β12 (not written) | nM.min-1 | |
| (K11bis/{coeffliA}) | activation constant of FliA-pFlhDC K11bis | nM | |
| n11bis | complexation order of FliA-pFlhDC replace n11 (not written) | no dimension | |
| β2bis | production rate of EnvZ-pFlhDC with RBS E0032 β2bis | nM.min-1 | |
| (K19bis/{coefenvZ}) | activation constant of EnvZ-pFlhDC replace K19 (not written) | nM | |
| n19bis | complexation order of EnvZ-pFlhDC n19bis | no dimension |
Then, if we have time, we want to verify the expected relation
