Team:Warwick/Parts/Testing

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             <li> <a href = "/Team:Warwick/Interlab"> INTERLAB </a> </li>
             <li> <a href = "/Team:Warwick/Interlab"> INTERLAB </a> </li>
             <li> <a href = "/Team:Warwick/Attributions"> ATTRIBUTIONS </a> </li>
             <li> <a href = "/Team:Warwick/Attributions"> ATTRIBUTIONS </a> </li>
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             <li> <a href = "/Team:Warwick/Judging"> JUDGING </a> </li>
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         </div>
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<div id="secondaryMenu">
<div id="secondaryMenu">
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<li> <a href = "/Team:Warwick/Parts/Testing"> TESTING MODULES </a> </li>
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<li> <a href = "/Team:Warwick/Parts/Aptazyme"> APTAZYME </a> </li>
<li> <a href = "/Team:Warwick/Parts/IRES"> IRES </a> </li>
<li> <a href = "/Team:Warwick/Parts/IRES"> IRES </a> </li>
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<li> <a href = "/Team:Warwick/Parts/sirna"> siRNA </a> </li>
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<li> <a href = "/Team:Warwick/Parts/Neomycin"> NEOMYCIN </a> </li>
<li> <a href = "/Team:Warwick/Parts/T7"> T7 </a> </li>
<li> <a href = "/Team:Warwick/Parts/T7"> T7 </a> </li>
<li> <a href = "/Team:Warwick/Parts/RdRp"> RdRp </a> </li>
<li> <a href = "/Team:Warwick/Parts/RdRp"> RdRp </a> </li>
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<li> <a href = "/Team:Warwick/Parts/3promoter"> 3' PROMOTER </a> </li>
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<li> <a href = "/Team:Warwick/Parts/P2a"> P2A </a> </li>
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<li> <a href = "/Team:Warwick/Parts/MS2"> MS2 </a> </li>
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<li> <a href = "/Team:Warwick/Parts/3promoter"> RNA PROMOTERS </a> </li>
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<li> <a href = "/Team:Warwick/Parts/Testing"> <span> TESTING MODULES </span> </a> </li>
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<li> <a href = "/Team:Warwick/Parts/bb"> EXISTING BIOBRICK </a> </li>
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             <h1> MODELLING </h1> <br> <br>
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             <h1> TESTING MODULES </h1> <br> <br>
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<p> Our modelling in this project has several aims: </p>
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<p> The following parts comprise of our miscellaneous collection. These parts were designed in order that we could test our BioBricks, and we have submitted them in the hope that if anyone were to pursure RNA systems in the future, then they would have pre-existing testing parts to use as a foundation.</p>
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<ul type="circle">
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<li>To find the amount of DPP-IV reduction reached when the system reaches equilibrium</li>
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<li>To find a way to control the level of DPP-IV reduction</li>
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<li>To find the minimum number of RdRps, replicons, etc to be initially transfected into the cell, which are required to achieve a steady state for the system</li>
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<li>To find out how long does it take for the system to reach equilibrium</li>
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<li>To find out the level of reduction we need to treat diabetes</li>
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<li>To find out how stable the system is (i.e. will the system only work in very specific situations, or in lots of different systems?)
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<p> We are currently using Simbiology in Matlab and Copasi to model the system. We are currently adapting several different models, which come from research into HCV replicons, to our system. If our models can be made to fit our experiments well, we may extend our project to try and find a way to control the level of DPP-IV which is reduced. In addition modelling the system will allow it to be better optimised in the future, and optimum values for constants such as the strength of the ribosome binding sites, and the number of siRNAs produced by each degradation, so that the effect of our biobrick can be optimised. </p>
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<p> We are currently using Simbiology in Matlab and Copasi to model the system. We are currently adapting several different models, which come from research into HCV replicons, to our system. If our models can be made to fit our experiments well, we may extend our project to try and find a way to control the level of DPP-IV which is reduced. In addition modelling the system will allow it to be better optimised in the future, and optimum values for constants such as the strength of the ribosome binding sites, and the number of siRNAs produced by each degradation, so that the effect of our biobrick can be optimised. </p>
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<p> Initially we determined that our system should reach some equilibrium after a certain amount of time. This is because firstly, HCV is a successful virus, so the replicons should not completely degrade away as time goes to infinity.  Secondly, since there are only a finite amount of resources within the cell, the number of replicons in the system cannot keep increasing forever. This means either the number of replicons must tend towards a certain constant (constant with respect to time), or the number of replicons should tend towards oscillations. </p>
 
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<p>
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442102">here</a> to learn about our Reverse GFP for E.Coli. </h2>  
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        \begin{eqnarray}
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\label{system1}
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442104">here</a> to learn about our R5 Testing Module. </h2>
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\frac{dm}{dt} &amp;=&amp; \alpha_m - \beta_m m - k_s ms
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\\ \label{system2}
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442105">here</a> to learn about our C2 TM. </h2>
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\frac{ds}{dt} &amp;=&amp; \alpha_s - \beta_s s - p_s k_s ms - k_r sr
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\\ \label{system3}
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442106">here</a> to learn about our Forwards GFP for human cells. </h2>
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\frac{dr}{dt} &amp;=&amp; \alpha_r - \beta_r r - p_r k_r sr
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\end{eqnarray}
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442107">here</a> to learn about our C2HP. </h2>
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</p>
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442109">here</a> to learn about our EMCV+forwards GFP. </h2>
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442110">here</a> to learn about our NKRF+forwards GFP. </h2>
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<h2> Click <a href="http://parts.igem.org/wiki/index.php?title=Part:BBa_K1442112">here</a> to learn about our Aptazyme+forwards GFP. </h2>
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</div>
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Latest revision as of 02:16, 18 October 2014

TESTING MODULES



The following parts comprise of our miscellaneous collection. These parts were designed in order that we could test our BioBricks, and we have submitted them in the hope that if anyone were to pursure RNA systems in the future, then they would have pre-existing testing parts to use as a foundation.

Click here to learn about our Reverse GFP for E.Coli.

Click here to learn about our R5 Testing Module.

Click here to learn about our C2 TM.

Click here to learn about our Forwards GFP for human cells.

Click here to learn about our C2HP.

Click here to learn about our EMCV+forwards GFP.

Click here to learn about our NKRF+forwards GFP.

Click here to learn about our Aptazyme+forwards GFP.

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