Team:Colombia Uniandes/Modeling

From 2013.igem.org

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(Nickel removal system)
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[[File:NickelSymbols.jpg|400px|thumb|center|'''Symbols used in the document and simulation''']]
[[File:NickelSymbols.jpg|400px|thumb|center|'''Symbols used in the document and simulation''']]
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<li><b>No: </b> We are going to work with contaminated water that is going to have Nickel ions in the media outside our bacteria. The change in concentration of theses ions only depends in the rate at which they are taken by the cells. It may enter by diffusion or by the porines. 
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Revision as of 22:27, 17 July 2013

Diferential ecuations

We use the mathematical model to check if the design works, before starting to work at the lab. To develop this model the first step is the do the deterministic model, which is based in differential equations. This type of model describe the mean behaviour for each of the substances in the synthetic circuit over time. However, it does not take into account the probabilities involved in each of the events described, the population interactions and the noise of the system.

The deterministic model is based in the law of mass conservation and expresses the inputs and outputs of the system with expressions that use the law of mass action and known models like HIll's or Michaelis Menten.

Below are shown and explained the differential equations that allowed us to work in both projects:


Glucocorticoid sensor

Below it is shown how differential equations for the Glucocorticoid Sensor based in the circuit shown in the project description . However, before describing the modeled system ,it is necessary to know all the symbols that will be use in the documents and the simulation. The following table contains all the substances involved in the processes and the constants required for the simulation.

Symbols used in the document and simulation


Nickel removal system

As in the Glucocorticoid Sensor project the differential equations were based on the circuit shown in the project description . Before explaining the equations ,it is necessary to know all the symbols that will be use in the documents and the simulation. The following table contains all the substances involved in the processes and the constants required for the simulation.

Symbols used in the document and simulation