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Team:Groningen/Modelling/Characterization
From 2009.igem.org
(Difference between revisions)
m (The concentrations of the second experiment should also be off by a factor of 0.3, fixed that.) |
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| Line 185: | Line 185: | ||
} | } | ||
cost += Math.sqrt(curcost/xt.timeKey.length); // Compute the square root of the average of the squares (RMS) | cost += Math.sqrt(curcost/xt.timeKey.length); // Compute the square root of the average of the squares (RMS) | ||
| + | |||
| + | // Set last solution | ||
| + | e[i].solution = {'cost':curcost, 'xt':xt}; | ||
} | } | ||
return cost/e.length; // Take the average of the RMS values for all graphs, making it "easier" to disregard certain experiments in favour of the rest. | return cost/e.length; // Take the average of the RMS values for all graphs, making it "easier" to disregard certain experiments in favour of the rest. | ||
| Line 233: | Line 236: | ||
var E = computeCost(c,experiments); | var E = computeCost(c,experiments); | ||
var cBest = c, EBest = E; | var cBest = c, EBest = E; | ||
| + | |||
| + | // Show initial situation | ||
| + | for(var i in e) e[i].bestSolution = e[i].solution; | ||
| + | showOutputs('cur',E,c,dc); | ||
| + | showOutputs('',EBest,cBest); | ||
// Set up iteration | // Set up iteration | ||
| Line 257: | Line 265: | ||
cBest = cNew; | cBest = cNew; | ||
EBest = ENew; | EBest = ENew; | ||
| + | for(var i in e) e[i].bestSolution = e[i].solution; | ||
showOutputs('',EBest,cBest); | showOutputs('',EBest,cBest); | ||
} | } | ||
| Line 369: | Line 378: | ||
|} | |} | ||
|} | |} | ||
| + | |||
| + | <!-- Model graphs start here --> | ||
| + | <html> | ||
| + | <script type="text/javascript" src="/Team:Groningen/Modelling/Model.js?action=raw"></script> | ||
| + | <script type="text/javascript" src="/Team:Groningen/Modelling/Arsenic.js?action=raw"></script> | ||
| + | </html> | ||
| + | {{GraphHeader}} | ||
| + | {{graph|Team:Groningen/Graphs/Characterization/GlpF}} | ||
Revision as of 10:34, 5 October 2009
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- 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 | ||||
| E |
|
|
|
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