Team:Grenoble/Projet/Modelling

From 2011.igem.org

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      <big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Deterministic" class="menu">Deterministic Modelling :</a></big></big><br/>
      <big><big><a href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Deterministic" class="menu">Deterministic Modelling :</a></big></big><br/>
       
       
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<a class="menu">Our equations and how we obtained them.</a><br/>
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<a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Deterministic#Our_EquationsTS">Our equations and how we obtained them :</a><a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Deterministic#Our_EquationsTS"> Toggle switch</a><a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Deterministic#Our_EquationsQS">Quorum sensing</a><br/>
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<a class="menu">Our algorithms</a><br/>
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<a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Deterministic#Our_algorithms">Our algorithms</a><br/>
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<a class="menu">Isoclines and Hysteresis</a><br/><br/>
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<a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Deterministic#Isoclines">Isoclines and Hysteresis</a><br/><br/>
       
       
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  <a ><img class="icon" src="https://static.igem.org/mediawiki/2011/6/67/Icon_stochastic.png"/></a>
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  <a href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Stochastic"><img class="icon" src="https://static.igem.org/mediawiki/2011/6/67/Icon_stochastic.png"/></a>
   
   
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<big><big><a class="menu">Stochastic Modelling :</a></big></big><br/>
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<big><big><a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Stochastic">Stochastic Modelling :</a></big></big><br/>
       
       
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<a class="menu">Geoffrey</a><br/>
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<a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Stochastic#Geof">Geoffrey</a><br/>
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<a class="menu">Gillespie algorithm</a><br/>
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<a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Stochastic#Gillespie_algorithm">Gillespie algorithm</a><br/>
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<a class="menu">Mean, standard deviation and statistical properties</a><br/><br/>
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<a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Stochastic#Stats">Mean, standard deviation and statistical properties</a><br/><br/>
  <a><img class="icon" src="https://static.igem.org/mediawiki/2011/3/34/Icon_parameters.png"/></a>
  <a><img class="icon" src="https://static.igem.org/mediawiki/2011/3/34/Icon_parameters.png"/></a>
   
   
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<br/><big><big><a class="menu">Parameters</a></big></big><br/><br/><br/><br/>
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<br/><big><big><a class="menu" href="https://2011.igem.org/Team:Grenoble/Projet/Modelling/Parameters">Parameters</a></big></big><br/><br/><br/><br/>
  <a><img class="icon" src="https://static.igem.org/mediawiki/2011/e/e1/Icon_results.png"/></a>
  <a><img class="icon" src="https://static.igem.org/mediawiki/2011/e/e1/Icon_results.png"/></a>
   
   
      <big><big><a class="menu">Results :</a></big></big><br/>
      <big><big><a class="menu">Results :</a></big></big><br/>
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      <a class="menu">Validation of our genetical network</a><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">Device</a><br/><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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    </p>
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    <optgroup label="Deterministic Modelling" >
    <optgroup label="Deterministic Modelling" >
                                  
                                  
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                                     <option value="/Deterministic#Our_equations" >Our equations</option>
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                                     <option value="/Deterministic#Our_EquationsTS" >Our equations - Toggle switch</option>
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                                    <option value="/Deterministic#Our_EquationsQS" >Our equations - Quorum sensing</option>
                                  
                                  
                                     <option value="/Deterministic#Our_algorithms" >Our algorithms</option>
                                     <option value="/Deterministic#Our_algorithms" >Our algorithms</option>

Revision as of 09:48, 20 September 2011

Grenoble 2011, Mercuro-Coli iGEM


Modelling

Table of content

Our synthetic biology constructions feature tens of parameters and at this scale human brains can only guess how the whole system would work. We of course needed mathematical modelling in order to check the effectiveness of the genetic circuit.

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

In the next pages we expose which algorithms we used for both deterministic modelling and stochastic modelling, explain our MATLAB scripts (available here) and finally give the results of our simulations.

Deterministic Modelling :
Our equations and how we obtained them : Toggle switchQuorum sensing
Our algorithms
Isoclines and Hysteresis

Stochastic Modelling :
Geoffrey
Gillespie algorithm
Mean, standard deviation and statistical properties


Parameters



Results :
Validation of our genetical network
Device

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