Difference between revisions of "Team:Valencia UPV/Modeling"

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<h2> Modeling</h2>
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<h2>Modelling</h2>
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<p>Biological information processing </p>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling" class="button">Overview</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/DetModel" class="button">Deterministic model</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/Simulations" class="button">Simulations</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/AlaDNA2.0" class="button">AladDNA 2.0</a></li>
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<li style="margin-top: 1.2em;"><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/Conclusions" class="button">Conclusions</a></li>
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<h4>Note</h4>
 
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<p>In order to be considered for the <a href="https://2015.igem.org/Judging/Awards#SpecialPrizes">Best Model award</a>, you must fill out this page.</p>
 
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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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<h2>Overview<br />
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<p>When new things are created, there is no clue about its behavior, which causes uncertainty. This is the reason why modeling has become a significant part of any project.               </p>
  
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<p>We started by figuring out how it should work in a tree diagram, keeping the idea simple:</p>
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Here are a few examples from previous teams:
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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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<div style="float:left"><img style="width:30em" src=https://static.igem.org/mediawiki/2015/9/9a/Valencia_upv_overviewcircuito.png></div><br/>
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<p>Basically, our aim is the biological design of a decoder that only expresses the codified genetic information when, where and which is desired by the user. The biological components that allow us this implementation in living organisms are two switches, two recombinases and a library of different binding domains. All those elements have been coordinated in this cascade of three different levels.</p>
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<div style="float:right"><img style="width: 13em;margin-left: 1em;" src=https://static.igem.org/mediawiki/2015/3/3c/Valencia_upv_overviewdetmodel.png></div>
  
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<p>Our deterministic model uses mathematical information contained in its equations, in order to provide results that depict the behavior of our device. After deterministic model, it is time to test our biological machine in different conditions. <div style="float:left"><img src=https://static.igem.org/mediawiki/2015/d/db/Valencia_upv_overviewsimulations.png></div> As organisms are supposed to be in a closed device, environmental variability was not the critical point. We have analyzed the influence of different color combinations of light, duration of those, numbers of gene copies and values of tetramerization. </p>
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<p>One of the main points when innovative devices are being tested, is “how”. How does AladDNA behave? This is the main question that we want to answer with our modeling task.</p>
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<p>Take a sit and enjoy this wander in our mathematical chaos!</p>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/DetModel" class="button alt">Deterministic model</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/Simulations" class="button alt">Simulations</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/AlaDNA2.0" class="button alt">AladDNA 2.0</a></li>
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<li><a href="https://2015.igem.org/Team:Valencia_UPV/Modelling/Conclusions" class="button alt">Conclusions</a></li>
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Revision as of 23:13, 17 September 2015

Link title Valencia UPV iGEM 2015

Overview

When new things are created, there is no clue about its behavior, which causes uncertainty. This is the reason why modeling has become a significant part of any project.

We started by figuring out how it should work in a tree diagram, keeping the idea simple:




Basically, our aim is the biological design of a decoder that only expresses the codified genetic information when, where and which is desired by the user. The biological components that allow us this implementation in living organisms are two switches, two recombinases and a library of different binding domains. All those elements have been coordinated in this cascade of three different levels.




Our deterministic model uses mathematical information contained in its equations, in order to provide results that depict the behavior of our device. After deterministic model, it is time to test our biological machine in different conditions.

As organisms are supposed to be in a closed device, environmental variability was not the critical point. We have analyzed the influence of different color combinations of light, duration of those, numbers of gene copies and values of tetramerization.

One of the main points when innovative devices are being tested, is “how”. How does AladDNA behave? This is the main question that we want to answer with our modeling task.

Take a sit and enjoy this wander in our mathematical chaos!