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Team:IIT Delhi/Modelling
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<b>K (Activation coefficient):</b> Concentration of X* that is needed to significantly activate expression of Y.<br> | <b>K (Activation coefficient):</b> Concentration of X* that is needed to significantly activate expression of Y.<br> | ||
<b>n (Cooperativity coefficient):</b> Determined by the binding cooperativity of active for of repressor/activator to the binding site on promoter. | <b>n (Cooperativity coefficient):</b> Determined by the binding cooperativity of active for of repressor/activator to the binding site on promoter. | ||
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<b>For our model, the following equations were created for simulation using MATLAB:</b><br><br> | <b>For our model, the following equations were created for simulation using MATLAB:</b><br><br> | ||
<table style="text-align: left; width: 100%;" border="0" | <table style="text-align: left; width: 100%;" border="0" | ||
Revision as of 14:18, 27 September 2013
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| Modelling and Simulation Our model involves both activation and repression systems. Activation of asr promoter in acidic medium results in production of GFP and tetR proteins. Increasing tetR in the system results in repression of tet promoter and hence reduction in the production of RFP.
Rates of formation of the above mentioned proteins can directly be related to the respective respressor/activator by using Hill’s function. Rate of production of protein Y = f(X*), where f is an input Hill function, and X* is the active form of activator/repressor X.
The Hill parameters are β, K and n. β: Maximal rate of expression of protein. K (Activation coefficient): Concentration of X* that is needed to significantly activate expression of Y. n (Cooperativity coefficient): Determined by the binding cooperativity of active for of repressor/activator to the binding site on promoter. For our model, the following equations were created for simulation using MATLAB:
The input concentration of H+ and concentration of tetR are directly considered in the above equations. An assumption has been made here that all of the amount of activator/repressor is present in the active form. SIMULATION RESULTS:
GFP vs pH
RFP vs pH
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Feel Free to contact us at igemiitdelhi2013 at gmail dot com if you have queries; requests; suggestions et cetera. Thanks to iGEM and IIT Delhi, we had an awesome summer! |
Our
Project was supported by and done by the students of IIT Delhi, India.  |
This
project was done as a part of iGEM: iGEM Main Website  |
