Team:Groningen/Modelling/Characterization
From 2009.igem.org
(Difference between revisions)
m |
m |
||
Line 200: | Line 200: | ||
time:[60,600,1200,2400,3600]}}, | time:[60,600,1200,2400,3600]}}, | ||
Singh2008: // We assume 5g/L wet cells were used... (at 1100kg/m^3) | Singh2008: // We assume 5g/L wet cells were used... (at 1100kg/m^3) | ||
- | {constants:{Vc:(0.004545455),Vs:(1-(0.004545455)) | + | {constants:{Vc:(0.004545455),Vs:(1-(0.004545455)),pro:0,ars2T:0, |
- | proF:1.6605e-9 | + | proF:1.6605e-9},AsT:0.467154987e-6, |
data:{AsexT:[0.419211538e-6,0.391262322e-6,0.378368845e-6, | data:{AsexT:[0.419211538e-6,0.391262322e-6,0.378368845e-6, | ||
0.361791516e-6,0.332907991e-6,0.320748614e-6], | 0.361791516e-6,0.332907991e-6,0.320748614e-6], | ||
Line 210: | Line 210: | ||
AsT:[0.4e-6,1e-6,2e-6,5e-6,20e-6,50e-6,100e-6]}},*/ | AsT:[0.4e-6,1e-6,2e-6,5e-6,20e-6,50e-6,100e-6]}},*/ | ||
Kostal2004fig3B: //fig 3B | Kostal2004fig3B: //fig 3B | ||
- | {constants:{Vc:0.006666667,Vs:(1-0.006666667) | + | {constants:{Vc:0.006666667,Vs:(1-0.006666667),pro:0,ars2T:0,proK:1.6605e-9},AsT:20e-6, |
- | + | ||
data:{AsinT:[2.25e-4,3.47e-4,4.19e-4,3.93e-4,4.19e-4,4.82e-4,4.82e-4,4.95e-4], | data:{AsinT:[2.25e-4,3.47e-4,4.19e-4,3.93e-4,4.19e-4,4.82e-4,4.82e-4,4.95e-4], | ||
time:[582,1212,1890,2514,3144,3828,4260,6036]}},/* | time:[582,1212,1890,2514,3144,3828,4260,6036]}},/* | ||
Line 355: | Line 354: | ||
cSol.k8 = 1000; | cSol.k8 = 1000; | ||
cSol.k8_K7 = 1e6; | cSol.k8_K7 = 1e6; | ||
- | + | // cSol.tauBbeta4 = 180000; | |
- | + | // cSol.tauB = 180; | |
- | + | // cSol.beta4 = 1000; | |
- | + | // cSol.tauR = 60; | |
- | + | // cSol.beta1 = 1000; | |
- | + | // cSol.tauFbetaF = 120000; | |
- | + | // cSol.tauF = 60; | |
- | + | // cSol.betaF = 2000; | |
- | + | // cSol.tauKbetaK = 9240; | |
- | + | // cSol.tauK = 60; | |
- | + | // cSol.betaK = 154; | |
- | + | // cSol.tauGbeta5 = 3960; | |
- | + | // cSol.tauG = 60; | |
- | + | // cSol.beta5 = 66; | |
showOutputs('sol',computeCost(cSol,experiments),cSol); | showOutputs('sol',computeCost(cSol,experiments),cSol); | ||
Line 378: | Line 377: | ||
c.k8 = 1000; | c.k8 = 1000; | ||
c.k8_K7 = 1e6; | c.k8_K7 = 1e6; | ||
- | + | // cSol.tauBbeta4 = 180000; | |
- | + | // cSol.tauB = 180; | |
- | + | // cSol.beta4 = 1000; | |
- | + | // cSol.tauR = 60; | |
- | + | // cSol.beta1 = 1000; | |
- | + | // cSol.tauFbetaF = 120000; | |
- | + | // cSol.tauF = 60; | |
- | + | // cSol.betaF = 2000; | |
- | + | // cSol.tauKbetaK = 9240; | |
- | + | // cSol.tauK = 60; | |
- | + | // cSol.betaK = 154; | |
- | + | // cSol.tauGbeta5 = 3960; | |
- | + | // cSol.tauG = 60; | |
- | + | // cSol.beta5 = 66; var dc = {}; | |
for(var a in c) dc[a] = 0; | for(var a in c) dc[a] = 0; | ||
var E = computeCost(c,experiments); | var E = computeCost(c,experiments); |
Revision as of 10:44, 13 October 2009
[http://2009.igem.org/Team:Groningen http://2009.igem.org/wiki/images/f/f1/Igemhomelogo.png]
|
---|
- Modelling
- DetailedModel
- Characterization
- Downloads
TODO: Talk about the devices we have and in what way we want to characterize them.
Uptake measurements
Time (min) | ||||||
---|---|---|---|---|---|---|
0 | 10 | 20 | 40 | 60 | ||
As(III)exT(0) (µM) | 0 | x | ||||
10 | x | x | x | x | x | |
20 | x | |||||
50 | x | |||||
100 | x |
To efficiently look at both time and concentration dependent processes we took samples as in the table on the right. Below we list all results, which have been used for fitting all necessary parameters.
TODO: List results. Take conversion from nmol/mg and mg/ml to µM and Vc/Vs into account.
best | cur | gradient | solved | |
---|---|---|---|---|
v5/K5 | ||||
v5 | ||||
K5 | ||||
k8/K7 | ||||
k8 | ||||
K7 | ||||
tauBbeta4 | ||||
tauB | ||||
beta4 | ||||
tauR | ||||
beta1 | ||||
tauFbetaF | ||||
tauF | ||||
betaF | ||||
tauKbetaK | ||||
tauK | ||||
betaK | ||||
tauGbeta5 | ||||
tauG | ||||
beta5 | ||||
E |
|
|
Loading graph...
| Loading graph...
|
Loading graph...
| Loading graph...
|
Loading graph...
|