Difference between revisions of "Team:UCopenhagen/Model"

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<h3></h3>
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                        <h1><a name="Top">M O D E L</a></h1> 
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                    <h2 class="section-heading">Introduction</h2>
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                    <p class="lead">
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The modelling part of IGEM Copenhagen 2017 simulates the behavior of the Number Control and Interdependency subprojects of our synthetic endosymbiosis. The modelling parameters are as far as possible based on experimental results and estimates.
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<br><br>
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The modelling was meant to serve 3 main tasks:
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<ul style="text-align:left; color:white;">
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<li>1)As an in silico representation of the combined host-endosymbiont system which we couldn’t physically create in the wet lab given the available amount of time and resources at our disposal.
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</li>
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<li>2)As a way to predict parameter dependencies and feasibility of the real system and thus give inspiration to the design of wet lab experiments and future usages.
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</li>
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<li>3)As a very simple software toolbox to be used in practical implementations of future synthetic endosymbiosis setups.
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</li>
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</ul>
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</p>
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<br>
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<p class="lead">
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A total of 4 different models have been made and are described separately below. All parameters and sources can be found in Table 1.
  
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<h3>★  ALERT! </h3>
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<p>This page is used by the judges to evaluate your team for the <a href="https://2017.igem.org/Judging/Medals">medal criterion</a> or <a href="https://2017.igem.org/Judging/Awards"> award listed above</a>. </p>
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<p> Delete this box in order to be evaluated for this medal criterion and/or award. See more information at <a href="https://2017.igem.org/Judging/Pages_for_Awards"> Instructions for Pages for awards</a>.</p>
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<h1> Modeling</h1>
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                    <h2 class="section-heading">Model 1 </h2>
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                                        <p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/f/f8/MODEL1_JF_ucph.png" alt="" width="250" height="200">
  
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<p>Mathematical models and computer simulations provide a great way to describe the function and operation of BioBrick Parts and Devices. Synthetic Biology is an engineering discipline, and part of engineering is simulation and modeling to determine the behavior of your design before you build it. Designing and simulating can be iterated many times in a computer before moving to the lab. This award is for teams who build a model of their system and use it to inform system design or simulate expected behavior in conjunction with experiments in the wetlab.</p>
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/f/f1/Mdoef_UCPH.png" alt="" width="250" height="200">
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<h3> Gold Medal Criterion #3</h3>
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To complete for the gold medal criterion #3, please describe your work on this page and fill out the description on your <a href="https://2017.igem.org/Judging/Judging_Form">judging form</a>. To achieve this medal criterion, you must convince the judges that your team has gained insight into your project from modeling. You may not convince the judges if your model does not have an effect on your project design or implementation.  
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                    <h2 class="section-heading">Model 2</h2>
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                    <p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/0/07/Kdsfj_UCPH.png" alt="" width="250" height="200">
 
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</p>
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<p class="lead">
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<figure>
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<br><br>
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                    <img class="img-responsive" src="https://static.igem.org/mediawiki/2017/1/1b/Tryptophan_production_and_growth_UCopenhagen.png" alt="" width="250" height="200">
  
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<figcaption style="color:white"><b>Figure 3 </b>: Interdependency host consumption versus symbiont production of tryptophan. The plots show the average number of endosymbionts needed pr host at different values of the two parameters. Left plot has a larger range of values than the right plot.</figcaption>
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Please see the <a href="https://2017.igem.org/Judging/Medals"> 2017 Medals Page</a> for more information.  
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/a/aa/Drdjfhs_UCPH.png" alt="" width="250" height="200">
 
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<h3>Best Model Special Prize</h3>
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                    <h2 class="section-heading">Model 3</h2>
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/5/56/Fkslnfjn_UCPH.png" alt="" width="250" height="200">
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</p>
  
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<p class="lead">
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To compete for the <a href="https://2017.igem.org/Judging/Awards">Best Model prize</a>, please describe your work on this page  and also fill out the description on the <a href="https://2017.igem.org/Judging/Judging_Form">judging form</a>. Please note you can compete for both the gold medal criterion #3 and the best model prize with this page.
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/d/d8/Qejlnfro_UCPH.png" alt="" width="250" height="200">
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You must also delete the message box on the top of this page to be eligible for the Best Model Prize.
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<h5> Inspiration </h5>
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Here are a few examples from previous teams:
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                    <h2 class="section-heading">Model 4</h2>
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                    <p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/3/36/LNDLNWREJ_UCPH.png" alt="" width="250" height="200">
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</p>
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<p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/4/4d/Fsklen_UCPH.png" alt="" width="250" height="200">
 
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<ul>
 
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<li><a href="https://2016.igem.org/Team:Manchester/Model">Manchester 2016</a></li>
 
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<li><a href="https://2016.igem.org/Team:TU_Delft/Model">TU Delft 2016  </li>
 
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<li><a href="https://2014.igem.org/Team:ETH_Zurich/modeling/overview">ETH Zurich 2014</a></li>
 
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<li><a href="https://2014.igem.org/Team:Waterloo/Math_Book">Waterloo 2014</a></li>
 
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</ul>
 
  
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<a href="https://2017.igem.org/File:Video_5.mov">See Video 1 here</a><br><br>
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<a href="https://2017.igem.org/File:Video_6.mov">See Video 2 here</a><br><br>
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<p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/a/a9/Lksnfljn_UCPH.png" alt="" width="250" height="200">
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</p>
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<p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/b/b9/Lksnflj_UCph.png" alt="" width="250" height="200">
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</p>
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<p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/6/62/Sdknceoqq_ucn.png" alt="" width="250" height="200">
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</p>
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<p class="lead">
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<img class="img-responsive" src="https://static.igem.org/mediawiki/2017/9/95/A%C3%A6ojqrhnfjgdr_ucph.png" alt="" width="250" height="200">
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</p>
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<a href="https://static.igem.org/mediawiki/2017/3/32/Parameter_sheet_Ucopenhagen.pdf">See Parameters here</a><br><br>
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<a href="https://static.igem.org/mediawiki/2017/e/e4/Model_formulas_UCopenhagen.pdf">See formulas here</a><br><br>
  
 
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                    <h2>Find Incell here:</h2>
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                            <a href="https://twitter.com/iGEM_Copenhagen" target="_blank" class="btn btn-default btn-lg"><i class="fa fa-twitter fa-fw"></i> <span class="network-name">Twitter</span></a>
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                        </li>
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                        </li>
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                        <li>
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                            <a href="https://www.instagram.com/igemku2017" target="_blank" class="btn btn-default btn-lg"><i class="fa fa-instagram fa-fw"></i> <span class="network-name">Instagram</span></a>
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Latest revision as of 03:59, 2 November 2017

M O D E L

Introduction

The modelling part of IGEM Copenhagen 2017 simulates the behavior of the Number Control and Interdependency subprojects of our synthetic endosymbiosis. The modelling parameters are as far as possible based on experimental results and estimates.

The modelling was meant to serve 3 main tasks:

  • 1)As an in silico representation of the combined host-endosymbiont system which we couldn’t physically create in the wet lab given the available amount of time and resources at our disposal.
  • 2)As a way to predict parameter dependencies and feasibility of the real system and thus give inspiration to the design of wet lab experiments and future usages.
  • 3)As a very simple software toolbox to be used in practical implementations of future synthetic endosymbiosis setups.


A total of 4 different models have been made and are described separately below. All parameters and sources can be found in Table 1.

Model 1

Model 2



Figure 3 : Interdependency host consumption versus symbiont production of tryptophan. The plots show the average number of endosymbionts needed pr host at different values of the two parameters. Left plot has a larger range of values than the right plot.

Model 3

Find Incell here: