Difference between revisions of "Team:ETH Zurich/Model"

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    <main>
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<h1 class="headline">Modeling</h1>
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        <h1>TOC</h1>
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        <div class="headline">
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            <h1>Model</h1>
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        </div>
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        <section>
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            <h5> Modeling</h5>
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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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            <h3> Gold Medal Criterion #3</h3>
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            <p>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.</p>
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    <p>When building a bacterial system meant to function in a more complex setting than in bulk in a test tube, modeling what would its behavior be in real conditions is key to aim for a credible development. Because the experimental conditions that were available to us to develop our system (in vitro experiments) were quite far from the actual situation (in vivo tumor colonization), a significant amount of work on the modeling was needed, particularly to implement the Tumor Sensor</p>
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            <p>Please see the <a href="https://2017.igem.org/Judging/Medals"> 2017 Medals Page</a> for more information.</p>
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            <h3>Best Model Special Prize</h3>
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    <p>With our model, we could make the link between what was happening during our in vitro experiments and what would correspondingly happen in the real case scenario in the tumor.</p>
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            <p>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.</p>
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        <h1>Model Map</h1>
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        <p>Our project relied heavily on estimating the environment in which CATE operates, as well as the changes that it brings about after colonizing a tumor shell. The Model Map below is a rough outline of our efforts; click on it to explore our modelling in more detail!</p>
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    <figure style="margin: 10px auto;">
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        <img alt="Model_Overview" src="https://static.igem.org/mediawiki/2017/2/2f/T--ETH_Zurich--overview_model.png" style="width: 1000px;" usemap="#Map"/>
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        <map name="Map" id="Map">
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            <area alt="" title="System Specifications" href="/Team:ETH_Zurich/Model/Environment_Sensing/system_specifications" shape="poly" coords="216,23,397,23,412,31,417,43,418,87,413,99,400,107,217,107,204,99,199,88,198,44,204,30">
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            <area alt="" title="Functional Parameter Space" href="/Team:ETH_Zurich/Model/Environment_Sensing/parameter_space" shape="poly" coords="478,89,655,90,672,98,677,107,679,150,672,164,661,172,477,173,465,166,459,160,457,111,463,96">
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            <area alt="" title="Parts Design Guidelines" href="/Team:ETH_Zurich/Model/Environment_Sensing/parameter_space#GuidelineToParts" shape="poly" coords="777,111,959,111,974,118,980,128,982,237,976,250,965,258,781,259,765,252,758,240,757,136,764,122">
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            <area alt="" title="Experiments" href="/Team:ETH_Zurich/Experiments" shape="poly" coords="783,381,953,380,955,453,785,453">
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            <area alt="" title="Parameter Fitting" href="/Team:ETH_Zurich/Model/Environment_Sensing/parameter_fitting" shape="poly" coords="505,309,687,309,701,315,705,324,707,375,697,385,687,390,506,392,493,384,487,375,485,328,493,314">
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            <area alt="" title="Our own Hybrid Promoter" href="/Team:ETH_Zurich/Model/Environment_Sensing/AND_gate_fitting" shape="poly" coords="509,417,685,417,699,423,705,434,706,495,698,508,685,512,507,513,493,507,485,497,487,431,495,421">
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            <area alt="" title="Tumor Sensor Model" href="/Team:ETH_Zurich/Model/Environment_Sensing/model" shape="poly" coords="247,211,428,211,440,219,447,228,448,278,441,287,429,294,249,297,233,288,227,279,227,233,234,219">
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            <area alt="" title="Voila" href="/Team:ETH_Zurich/Model/In_Silico_Final" shape="poly" coords="86,363,344,362,357,369,365,381,366,519,359,528,345,537,84,536,74,527,67,517,67,385,75,369">
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        </map>
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    </figure>
  
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            <h5> Inspiration </h5>
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            <p>Here are a few examples from previous teams:</p>
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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</a> </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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Latest revision as of 01:13, 2 November 2017

Modeling

When building a bacterial system meant to function in a more complex setting than in bulk in a test tube, modeling what would its behavior be in real conditions is key to aim for a credible development. Because the experimental conditions that were available to us to develop our system (in vitro experiments) were quite far from the actual situation (in vivo tumor colonization), a significant amount of work on the modeling was needed, particularly to implement the Tumor Sensor

With our model, we could make the link between what was happening during our in vitro experiments and what would correspondingly happen in the real case scenario in the tumor.

Model Map

Our project relied heavily on estimating the environment in which CATE operates, as well as the changes that it brings about after colonizing a tumor shell. The Model Map below is a rough outline of our efforts; click on it to explore our modelling in more detail!

Model_Overview