Team:Colombia Uniandes/Modeling

From 2013.igem.org

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<li><b>V: </b> The complex bind to an enhancer, this union unfolds the DNA and allows the polymerase to produce our visible indicator (MCHERRY). The concentration of this signal will depend on the binding of the complex and the enhancer and the degradation rate of it.
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Revision as of 22:05, 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

Nickel removal system construct