Team:Warwick/Parts

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<h1 >WELCOME TO iGEM 2014! </h1>
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<p>Your team has been approved and you are ready to start the iGEM season!
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<br>On this page you can document your project, introduce your team members, document your progress <br> and share your iGEM experience with the rest of the world! </p>
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<p style="color:#E7E7E7"> <a href="https://2014.igem.org/wiki/index.php?title=Team:Warwick/Parts&action=edit"style="color:#FFFFFF"> Click here  to edit this page!</a> </p>
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<a href="https://2014.igem.org/Team:Warwick"style="color:#000000">Home </a> </td>
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<a href="https://2014.igem.org/Team:Warwick/Team"style="color:#000000"> Team </a> </td>
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<a href="https://igem.org/Team.cgi?year=2014&team_name=Warwick"style="color:#000000"> Official Team Profile </a></td>
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<a href="https://2014.igem.org/Team:Warwick/Project"style="color:#000000"> Project</a></td>
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<a href="https://2014.igem.org/Team:Warwick/Parts"style="color:#000000"> Parts</a></td>
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<a href="https://2014.igem.org/Team:Warwick/Modeling"style="color:#000000"> Modeling</a></td>
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        <img class = "headerImage" style = "width: 30%;" src="https://static.igem.org/mediawiki/2014/f/ff/RepliconLogoON.png">
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        <img class = "headerImage" style = "width: 12%;" src="https://static.igem.org/mediawiki/2014/f/f6/Warwick_logo.png">
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<a href="https://2014.igem.org/Team:Warwick/Notebook"style="color:#000000"> Notebook</a></td>
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            <li> <a href = "/Team:Warwick/Project"> PROJECT </a> </li>
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            <li> <a href = "/Team:Warwick/Team"> TEAM </a> </li>
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            <li> <a href = "/Team:Warwick/Parts"> PARTS </a> </li>
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            <li> <a href = "/Team:Warwick/Modelling"> MODELLING </a> </li>
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            <li> <a href = "/Team:Warwick/Notebook"> NOTEBOOK </a> </li>
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            <li> <a href = "/Team:Warwick/Human"> HUMAN PRACTICES </a> </li>
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            <li> <a href = "/Team:Warwick/Measurements"> MEASUREMENTS </a> </li>
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            <li> <a href = "/Team:Warwick/Interlab"> INTERLAB </a> </li>
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            <li> <a href = "/Team:Warwick/Attributions"> SPONSORS </a> </li>
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<a href="https://2014.igem.org/Team:Warwick/Safety"style=" color:#000000"> Safety </a></td>
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<a href="https://2014.igem.org/Team:Warwick/Attributions"style="color:#000000"> Attributions </a></td>
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<h1> PARTS </h1> <br> <br>
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<p>Our modelling in this project has several aims: </p>
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<ul> <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?) </li>
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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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<tr><td > <h3> Parts Submitted to the Registry </h3></td>
 
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<td > <h3>What information do I need to start putting my parts on the Registry? </h3></td>
 
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An important aspect of the iGEM competition is the use and creation of standard  biological parts. Each team will make new parts during iGEM and will submit them to the <a href="http://partsregistry.org"> Registry of Standard Biological Parts</a>. The iGEM software provides an easy way to present the parts your team has created. The "groupparts" tag will generate a table with all of the parts that your team adds to your team sandbox. 
 
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<strong>Note that if you want to document a part you need to document it on the <a href="http://partsregistry.org Registry"> Registry</a>, not on your team wiki.</strong> Future teams and other users and are much more likely to find parts on the Registry than on your team wiki.
 
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Remember that the goal of proper part documentation is to describe and define a part, so that it can be used without a need to refer to the primary literature. Registry users in future years should be able to read your documentation and be able to use the part successfully. Also, you should provide proper references to acknowledge previous authors and to provide for users who wish to know more.
 
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<h3>When should you put parts into the Registry?</h3>
 
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As soon as possible! We encourage teams to start completing documentation for their parts on the Registry as soon as you have it available. The sooner you put up your parts, the better recall you will have of all details surrounding your parts. Remember you don't need to send us the DNA to create an entry for a part on the Registry. However, you must send us the sample/DNA before the Jamboree. Only parts for which you have sent us samples/DNA are eligible for awards and medal requirements.
 
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The information needed to initially create a part on the Registry is:
 
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<li>Part Name</li>
 
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<li>Part type</li>
 
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<li>Creator</li>
 
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<li>Sequence</li>
 
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<li>Short Description (60 characters on what the DNA does)</li>
 
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<li>Long Description (Longer description of what the DNA does)</li>
 
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<li>Design considerations</li>
 
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We encourage you to put up <em>much more</em> information as you gather it over the summer. If you have images, plots, characterization data and other information, please also put it up on the part page. Check out part <a href="http://parts.igem.org/Part:BBa_K404003">BBa_K404003</a> for an excellent example of a highly characterized part.
 
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You can add parts to the Registry at our <a href="http://parts.igem.org/Add_a_Part_to_the_Registry"> Add a Part to the Registry</a> link.
 
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<tr><td colspan="3" > <h3> Parts Table</h3></td></tr>
 
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Any parts your team has created will appear in this table below:</td></tr>
 
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<groupparts>iGEM013 Warwick</groupparts>
 

Revision as of 14:40, 26 August 2014

PARTS



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.

Retrieved from "http://2014.igem.org/Team:Warwick/Parts"