Team:Grenoble/Projet/Modelling

From 2011.igem.org

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  <a href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results"><img class="icon" src="https://static.igem.org/mediawiki/2011/e/e1/Icon_results.png"/></a>
  <a href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results"><img class="icon" src="https://static.igem.org/mediawiki/2011/e/e1/Icon_results.png"/></a>
   
   
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      <big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results" class="menu">Results :</a></big></big><br/>
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      <big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results" class="menu">Analysis of the system</a></big></big><br/>
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      <a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results#Validation">Validation of our genetical network</a><br/>
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      <a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results#Simulation">Simulation of the bacteria distribution on the plate</a><br/>
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      <a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results#Device">Device</a><br/><br/>
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        <a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results#Stability">Stability Studies of the Toggle Switch</a><br/>
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      <a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Results#Device">Device Specificities</a><br/><br/>
    </p>
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    </optgroup>
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    <optgroup label="Deterministic Modelling" >
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    <optgroup label="Construction of the model" >
                                  
                                  
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                                     <option value="/Deterministic#Our_EquationsTS" >Our equations - Toggle switch</option>
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                                     <option value="/Deterministic#Our_EquationsTS" >Establishment of the equation - Toggle switch</option>
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                                     <option value="/Deterministic#Our_EquationsQS" >Our equations - Quorum sensing</option>
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                                     <option value="/Deterministic#Our_EquationsQS" >Establishment of the equation - Quorum sensing</option>
                                  
                                  
                                     <option value="/Deterministic#Our_algorithms" >Our algorithms</option>
                                     <option value="/Deterministic#Our_algorithms" >Our algorithms</option>
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                                    <option value="/Deterministic#Isoclines">Isoclines and Hysteresis</option>
 
                                  
                                  
                                      
                                      
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                             <optgroup label="Stochastic Modelling">
                             <optgroup label="Stochastic Modelling">
                                  
                                  
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                                     <option value="/Stochastic#Geof">Random Aspect of the system</option>
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                                     <option value="/Stochastic#Geof">Sensitivity to noise</option>
                                  
                                  
                                     <option value="/Stochastic#Gillespie_algorithm">Gillespie algorithm</option>
                                     <option value="/Stochastic#Gillespie_algorithm">Gillespie algorithm</option>
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                             <optgroup label="Parameters">
                             <optgroup label="Parameters">
                              
                              
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    <option value="/Parameters">Our parameters</option>
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    <option value="/Parameters">Table of parameters</option>
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    <option value="/Parameters">Sensitivity to parameters</option>
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    </optgroup>
                              
                              
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                             <optgroup label="Results">
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                             <optgroup label="Analysis of the system">
                              
                              
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    <option value="/Results#Validation">Validation of our Network</option>
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    <option value="/Results#Validation">Simulation of bacteria distribution</option>
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<option value="/Results#Validation">Stability of the system</option>
    <option value="/Results#Device">Device specificities</option>
    <option value="/Results#Device">Device specificities</option>

Revision as of 19:09, 23 October 2011

Grenoble 2011, Mercuro-Coli iGEM


Modelling

In the particular case of our circuit and final use of the bacteria, the modelling team had to check the effectiveness of our circuit of course, but also had to give the specificities (size, number of bacteria, IPTG gradient specificities) of the measuring device we intend to produce.

Table of content

In the next pages we first expose technically which algorithms we used for both deterministic modelling and stochastic modelling and explain our MATLAB scripts (available here) in the hope it could help future modelling teams.
We exposed the results in the last section, for anyone who is interested in the results only

Construction of the model :
Establishment of the equation Toggle switchQuorum sensing
Our algorithms


Stochastic Modelling :
Sensitivity to noise
Gillespie algorithm
Mean, standard deviation and statistical properties

Parameters
Table of parameters
Sensitivity to parameters


Analysis of the system
Simulation of the bacteria distribution on the plate
Stability Studies of the Toggle Switch
Device Specificities

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