Team:Warwick/Measurements

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<a href="https://2014.igem.org/Team:Warwick"style="color:#000000"> <b> Home </b> </a> </td>
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<a href="https://2014.igem.org/Team:Warwick"style="color:#000000"> <b> </b> </a> <a href=https://2014.igem.org/Team:Warwick><img src="https://static.igem.org/mediawiki/2014/9/9a/Home.png" border="20" align=20px" height ="20px" alt="Image and video hosting by TinyPic">
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<a href="https://2014.igem.org/Team:Warwick/Team"style="color:#000000"> <b> Team </b> </a> </td>
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<a href="https://2014.igem.org/Team:Warwick/Team"style="color:#000000"> <b> </b> </a> <a href=https://2014.igem.org/Team:Warwick/Team><img src="https://static.igem.org/mediawiki/2014/0/01/Agents.png" border="20" align=20px" height ="20px" alt="Image and video hosting by TinyPic">
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<a href="https://igem.org/Team.cgi?year=2014&team_name=Warwick"style="color:#000000"> <b> Official Team Profile </b> </a></td>
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<a href="https://2014.igem.org/Team:Warwick/Project"style="color:#000000"> <b> </b> </a> <a href=https://2014.igem.org/Team:Warwick/Project><img src="https://static.igem.org/mediawiki/2014/9/92/Project.png" border="20" align=20px" height ="20px" alt="Image and video hosting by TinyPic">
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<a href="https://2014.igem.org/Team:Warwick/Project"style="color:#000000"> <b> Project </b> </a></td>
 
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<a href="https://2014.igem.org/Team:Warwick/Parts"style="color:#000000"> <b> Parts </b> </a></td>
 
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<a href="https://2014.igem.org/Team:Warwick/Modeling"style="color:#000000"> <b> Modeling </b> </a></td>
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<a href="https://2014.igem.org/Team:Warwick/Project"style="color:#000000"> <b> </b> </a> <a href=https://2014.igem.org/Team:Warwick/Project><img src="https://static.igem.org/mediawiki/2014/7/79/Parts.png" border="20" align=20px" height ="20px" alt="Image and video hosting by TinyPic">
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<a href="https://2014.igem.org/Team:Warwick/Notebook"style="color:#000000"> <b> Notebook </b> </a></td>
 
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<a href="https://2014.igem.org/Team:Warwick/Safety"style=" color:#000000"> <b> Safety </b> </a></td>
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<a href="https://2014.igem.org/Team:Warwick/Project"style="color:#000000"> <b> </b> </a> <a href=https://2014.igem.org/Team:Warwick/Modeling><img src="https://static.igem.org/mediawiki/2014/3/3c/Modeling.png" border="20" align=20px" height ="20px" alt="Image and video hosting by TinyPic">
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<a href="https://2014.igem.org/Team:Warwick/Attributions"style="color:#000000"> <b> Attributions </b> </a></td>
 
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<a href="https://2014.igem.org/Team:Warwick/Measurements"style="color:#000000"> <b> Measurements </b> </a></td>
 
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<img src="http://i.imgur.com/9H9wR7a.gif" style="width: 405px; float: left; margin-bottom: 34px; margin-right: 30px;"><img src="http://i.imgur.com/mzf4wvV.gif" style="width: 405px; float: left; margin-bottom: 34px; margin-right: 30px;"><img src="http://d3dsacqprgcsqh.cloudfront.net/photo/aVQjp2M_460sa_v1.gif" style="width: 405px; float: left; margin-bottom: 34px; margin-right:30px;">
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<a href="https://2014.igem.org/Team:Warwick/Project"style="color:#000000"> <b>  </b> </a> <a href=https://2014.igem.org/Team:Warwick/Notebook><img src="https://static.igem.org/mediawiki/2014/9/95/Notebook.png
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<a href=https://2014.igem.org/Team:Warwick/Safety><img src="https://static.igem.org/mediawiki/2014/8/84/Safety.png
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<a href=https://2014.igem.org/Team:Warwick/Attributions><img src="https://static.igem.org/mediawiki/2014/archive/1/16/20140806085423%21Sponsors.png
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<a href=https://2014.igem.org/Team:Warwick/Measurements><img src="https://static.igem.org/mediawiki/2014/b/b4/Measurements.png
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<p> Please be sure to keep these links, your audience will want to find your: </p>
 
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<!-- Links to other team pages -->
 
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<ul>
 
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<li><a href="https://2014.igem.org/Team:Warwick">Home</a> </li>
 
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<li><a href="https://2014.igem.org/Team:Warwick/Team">Team</a> </li>
 
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<li><a href="https://igem.org/Team.cgi?year=2013&team_name=Warwick">Official Team Profile</a> </li>
 
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<li><a href="https://2014.igem.org/Team:Warwick/Project">Project</a> </li>
 
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<li><a href="https://2014.igem.org/Team:Warwick/Parts">Parts</a> </li>
 
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<li><a href="https://2014.igem.org/Team:Warwick/Modeling">Modeling</a> </li>
 
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<li><a href="https://2014.igem.org/Team:Warwick/Notebook">Notebook</a> </li>
 
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<li><a href="https://2014.igem.org/Team:Warwick/Safety">Safety</a> </li>
 
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<li><a href="https://2014.igem.org/Team:Warwick/Attributions">Attributions</a> </li>
 
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<p>There are a few wiki requirements teams must follow:</p>
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<li>All pages, images and files must be hosted on the <a href ="https://2014.igem.org/Special:Upload"> 2014.igem.org server</a>. </li>
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<li>All pages must be created under the team’s name space.</li>
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<li>As part of your documentation, keep the links from the menu to the left. </li>
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<li>The <a href="https://static.igem.org/mediawiki/igem.org/6/60/Igemlogo_300px.png"> iGEM logo </a> should be placed on the upper part of every page and should link to <a href="https://2014.igem.org/Main_Page">2014.igem.org</a>.</li>
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<p>Visit the <a href="https://2014.igem.org/Wiki_How-To"> Wiki How To page </a> for a complete list of requirements, tips and other useful information. </p>
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Our modelling in this project has several aims :
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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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<p>We are currently working on providing teams with some easy to use design templates.
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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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<br> In the meantime you can also view other team wikis for inspiration! Here are some very good examples</p>
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<li> <a href="https://2013.igem.org/Team:SDU-Denmark/"> 2013 SDU Denmark </a> </li>
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<li> <a href="https://2013.igem.org/Team:SYSU-China">2013 SYSU China</a> </li>
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<li> <a href="https://2013.igem.org/Team:Shenzhen_BGIC_ATCG"> 2013 Shenxhen BGIG ATCG </a></li>
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<li> <a href="https://2013.igem.org/Team:Colombia_Uniandes">2013 Colombia Unianades </a></li>
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<li> <a href="https://2013.igem.org/Team:Lethbridge">2013 Lethbridge</a></li>
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<p><p>
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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><p>
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<p>For a full wiki list, you can visit <a href="https://igem.org/Team_Wikis?year=2013">iGEM 2013 web sites </a> and <a href="https://igem.org/Team_Wikis?year=2012">iGEM 2012 web sites</a>  lists. </p>
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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><p>
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<p>This wiki will be your team’s first interaction with the rest of the world, so here are a few tips to help you get started: </p>
 
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<li>State your accomplishments! Tell people what you have achieved from the start. </li>
 
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<li>Be clear about what you are doing and what you plan to do.</li>
 
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<li>Make sure information is easy to find; nothing should be more than 3 clicks away.  </li>
 
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<li>Avoid using very small fonts and low contrast colors; information should be easy to read.  </li>
 
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<li>Start documenting your project as early as possible; don’t leave anything to the last minute before the Wiki Freeze. For a complete list of deadlines visit the <a href="">iGEM 2013 calendar</a> </li>
 
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<li>Have lots of fun! </li>
 
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Revision as of 13:06, 6 August 2014

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Image and video hosting by TinyPic

Our modelling in this project has several aims :
  • To find the amount of DPP-IV reduction reached when the system reaches equilibrium
  • To find a way to control the level of DPP-IV reduction
  • 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
  • To find out how long does it take for the system to reach equilibrium
  • To find out the level of reduction we need to treat diabetes
  • 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?)

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.

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.


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