Team:Bologna/Modeling

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<font face="Dom Casual" font size="3" color="#000000"><i><b>"The theory is when you know everything and nothing works. Practice is when everything works and nobody knows why. We have put together the theory and practice: there is nothing that works ... and nobody knows why."</b>
<font face="Dom Casual" font size="3" color="#000000"><i><b>"The theory is when you know everything and nothing works. Practice is when everything works and nobody knows why. We have put together the theory and practice: there is nothing that works ... and nobody knows why."</b>
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In order to test and characterize our T-REX device, we developed the following genetic circuit (Fig. 1):
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[[Image:circuit2OK.jpg|center|900px|thumb|<center>Figure 1 - Genetic Circuit to test CIS and TRANS' mRNA affinity</center>]]
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= Mathematical Model =
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The mathematical model is based on the law of mass action, and the processes involved in gene expression, that is transcription and translation, are considered similar to enzymathic reactions.<br>
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In this context, RNA polymerase and ribosome perform enzymes' role, while gene promoter and RBS sequence act as substrates.
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<br> The interaction between enzyme and substrate leads to the formation of a complex, yielding to the final product: mRNA for the RNA polymerase - promoter complex and ribosome - RBS sequence complex.
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Here below are shown all the reactions occurring the circuit (Fig. 1).
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[[Image:reactions.jpg|center|940px||thumb|Figure 1: Chemical Reactions]]<br>
[[Image:reactions.jpg|center|940px||thumb|Figure 1: Chemical Reactions]]<br>

Revision as of 22:09, 21 October 2009

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HOME TEAM PROJECT SOFTWARE MODELING WET LAB PARTS HUMAN PRACTICE JUDGING CRITERIA

"The theory is when you know everything and nothing works. Practice is when everything works and nobody knows why. We have put together the theory and practice: there is nothing that works ... and nobody knows why."

A. Einstein


In order to test and characterize our T-REX device, we developed the following genetic circuit (Fig. 1):

Figure 1 - Genetic Circuit to test CIS and TRANS' mRNA affinity


Mathematical Model


The mathematical model is based on the law of mass action, and the processes involved in gene expression, that is transcription and translation, are considered similar to enzymathic reactions.
In this context, RNA polymerase and ribosome perform enzymes' role, while gene promoter and RBS sequence act as substrates.
The interaction between enzyme and substrate leads to the formation of a complex, yielding to the final product: mRNA for the RNA polymerase - promoter complex and ribosome - RBS sequence complex. Here below are shown all the reactions occurring the circuit (Fig. 1).




Figure 1: Chemical Reactions

Figure 2: Differential Equations
Figure 3: Equilibrium Constants
Figure 4: Algebraic Constrains
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