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Team:Oxford/notebook
From 2014.igem.org
_NOTOC__
Lab Book
Information will be posted here soon! - Watch this space
Modelling
Model of part B possible repression and activation network scenarios
Finished the first draft of the model, will leave it until we have real data to feed back into the system. The model is very robust and allows any user to input a large variety of parameters and scenarios that could be realistically expected in the laboratory results. The output of the model is the colour that you can expect over time (the outputs of the real system will be from a combination of mCherry and GFP).
[DCM] calibration for solution-vapour equilibration
Testing the tolerance of E-coli and Pseudomonas strains to various concentrations of DCM (0mM, 5mM, 10mM, 20mM), the 15 mL falcon tube-contained system is modeled as a real binary solution/ideal gas, based on literature solubility data1, confirming negligible [DCM] deviation:
|
|
V(DCM) added (± 5E-4) /ml |
n(DCM)(l) unadjusted (± 8E-6) /mol |
[DCM] unadjusted (± 2E-3) /M |
p(DCM) (± 4E-2) /kPa |
n(DCM)(g) (± 4E-7) /mol |
n(DCM)(l) (± 9E-6) adjusted /mol |
[DCM] adjusted (± 2E-3) /M |
Δ[DCM] /M |
[DCM] % deviation |
|
(30°C, 5mM) |
1.6E-03 |
2.5E-05 |
5.0E-03 |
6.2E-01 |
1.6E-08 |
2.5E-05 |
5.0E-03 |
3.1E-06 |
6.3E-02 |
|
(30°C, 10mM) |
3.2E-03 |
5.0E-05 |
1.0E-02 |
3.1E-01 |
7.9E-09 |
5.0E-05 |
1.0E-02 |
1.6E-06 |
1.6E-02 |
|
(30°C, 20mM) |
6.4E-03 |
1.0E-04 |
2.0E-02 |
1.6E-01 |
3.9E-09 |
1.0E-04 |
2.0E-02 |
7.9E-07 |
3.9E-03 |
|
|
|
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|
|
|
|
|
|
|
|
(37°C, 5mM) |
1.6E-03 |
2.5E-05 |
5.0E-03 |
6.2E-01 |
1.5E-08 |
2.5E-05 |
5.0E-03 |
3.1E-06 |
6.2E-02 |
|
(37°C, 10mM) |
3.2E-03 |
5.0E-05 |
1.0E-02 |
3.1E-01 |
7.7E-09 |
5.0E-05 |
1.0E-02 |
1.5E-06 |
1.5E-02 |
|
(37°C, 20mM) |
6.4E-03 |
1.0E-04 |
2.0E-02 |
1.6E-01 |
3.8E-09 |
1.0E-04 |
2.0E-02 |
7.7E-07 |
3.9E-03 |
More detailed system modelling is therefore unnecessary.
