Difference between revisions of "Team:UNOTT/Modelling"

Revision as of 20:58, 2 September 2017

Modeling

All our models and simulations over the course of our project.

Predicting Fluoresce Intensity and Wavelengths Given Parameters
MISSION: SYNTHESISING BRICKS
MISSION: MUTATING DCAS9
MISSION: LIGATING BRICKS
MISSION: CONTROL PLASMID TRANSFORMATION

Predicting Fluoresce Intensity and Wavelengths Given Parameters

It was decided that the central aim for the modeling would be to write a simulation for the wet lab to use to show what they can expect during the construction of the bacteria. The parameters that were decided for the model would be the protein concentrations and wavelength of the lasers that would enter the culture.
Download our source code from our gitHub page
Constitutive Gene Expression For Protein and mRNA Expression over Time

Assuming the gene expression was unregulated and the gene is always on, the constitutive gene expression model was used to guide the model.
$$ sfGFP \underset{Transcriptin}{\rightarrow} mRNA \underset{Translation}{\rightarrow} sfGFP $$ $$ mRNA \underset{Degradation}{\rightarrow} \oslash $$ $$ sfGFP \underset{Degradation}{\rightarrow} \oslash $$
Using the Law of Mass Action, this model can be described as:
$$ mRNA = k_{1} -d _{1 } mRNA $$ $$ Protein = k_{2} \cdot mRNA - d_{2} \cdot Protein $$
Using this, we can calculate the concentration of proteins we can expect over time. This was useful because it allowed us to see how much protein was made which were emitting the light so we could make an accurate prediction of how much intensity there was at a certain amount of time.

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MISSION: SYNTHESISING BRICKS

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MISSION: MUTATING DCAS9

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MISSION: LIGATING BRICKS

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MISSION: CONTROL PLASMID TRANSFORMATION

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