Difference between revisions of "Team:ShanghaiFLS China/Model"

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<html lang="en">
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<title>ShanghaiFLS_China: Demonstrate</title>
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            <h1> 
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            <a href="https://2019.igem.org/Team:ShanghaiFLS_China">Team:ShanghaiFLS_China</a>
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        </div>
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        <label for="drop" class="toggle"></label>
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                <li class="mr-lg-4 mr-3"><a href="https://2019.igem.org/Team:ShanghaiFLS_China">Home</a></li>
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                <li class="mr-lg-4 mr-3">
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                <label for="drop-2" class="toggle">Team<span class="fa fa-angle-down" aria-hidden="true"></span> </label>
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                <a>Team<span class="fa fa-angle-down" aria-hidden="true"></span></a>
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                <ul>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Team">Team</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Collaborations">Collaborations</a></li>
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                <ul>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Description">Description</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Design">Design</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Experiments">Experiments</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Notebook">Notebook</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Contribution">Contribution</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Results">Results</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Model">Modeling</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Demonstrate">Demonstrate</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Attributions">Attributions</a></li>
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                <label for="drop-2" class="toggle">Parts<span class="fa fa-angle-down" aria-hidden="true"></span> </label>
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                <a>Parts<span class="fa fa-angle-down" aria-hidden="true"></span></a>
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                <ul>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Parts">Parts Overview</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Basic_Part">Basic Parts</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Composite_Part">Composite Parts</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Part_Collection">Part Collection</a></li>
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                </ul>
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                </li>
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                <li class="mr-lg-4 mr-3"><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Safety">Safety</a></li>
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                <a>Human Practices<span class="fa fa-angle-down" aria-hidden="true"></span></a>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Human_Practices">Integrated Human Practices</a></li>
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                    <li><a href="https://2019.igem.org/Team:ShanghaiFLS_China/Public_Engagement">Education and Engagement</a></li>
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                    <h2 class="editContent">Model</h2>
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<p></p>
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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://2019.igem.org/Judging/Medals">medal criterion</a> or <a href="https://2019.igem.org/Judging/Awards"> award listed below</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://2019.igem.org/Judging/Pages_for_Awards"> Instructions for Pages for awards</a>.</p>
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                    <h3 class="editContent">This is</h3>  
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                    <h2 class="editContent">ShanghaiFLS_China</h2>  
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                    <p>We designed our constructs (pGMP1-pAOX1-GFP, pAPM1-pAOX1-GFP and pGMP1-pAPM1-AOX1-GFP) using homogenous promoters and transcription factors in P. pastoris GS115 to moderately up-regulate the activity of the AOX1 (alcohol oxidase 1) promoter. To get an idea of how much more efficient our constructs will be compared with the wild-type P. pastoris, we tried to model our constructs based on various statistics published in Wang et al., 2016, Shi et al., 2019 and Liang et al., 2012. Based on these data, we calculated basic parameters for each promoter and transcription factor in our three constructs, specifically, the activity of a promoter under the effect of 1 unit transcription factor. This first step is very important as our construct involves promoters and two transcription factors that not only interact among themselves but also with their copies in the P. pastoris GS115 strain, resulting in a very complicated combined effect. Modeling individual promoters and transcription factors is like creating the building blocks for predicting something more complex. And indeed, with these building blocks, we relatively successfully calculated the eventual GFP expression by pAOX1 in each of our constructs and compared that to the GFP expression by pAOX1 in the pAOX1-GFP strain (GFP expressed by AOX1 promoter homologously reintegrated into wild type P. pastoris GS115, in which GFP indicates pAOX1 activity).</p>
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                    <a href="https://static.igem.org/mediawiki/2019/9/93/T--ShanghaiFLS_China--model.pdf"> Model </a>
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<h1> Modeling</h1>
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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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Convince the judges that your project's design and/or implementation is based on insight you have gained from modeling. This could be either a new model you develop or the implementation of a model from a previous team. You must thoroughly document your model's contribution to your project on your team's wiki, including assumptions, relevant data, model results, and a clear explanation of your model that anyone can understand.  
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The model should impact your project design in a meaningful way. Modeling may include, but is not limited to, deterministic, exploratory, molecular dynamic, and stochastic models. Teams may also explore the physical modeling of a single component within a system or utilize mathematical modeling for predicting function of a more complex device.
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<h3>Best Model Special Prize</h3>
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To compete for the <a href="https://2019.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://2019.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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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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<h3> Inspiration </h3>
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Here are a few examples from previous teams:
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<ul>
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<li><a href="https://2018.igem.org/Team:GreatBay_China/Model">2018 GreatBay China</a></li>
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<li><a href="https://2018.igem.org/Team:Leiden/Model">2018 Leiden</a></li>
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<li><a href="https://2016.igem.org/Team:Manchester/Model">2016 Manchester</a></li>
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<li><a href="https://2016.igem.org/Team:TU_Delft/Model">2016 TU Delft</li>
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<li><a href="https://2014.igem.org/Team:ETH_Zurich/modeling/overview">2014 ETH Zurich</a></li>
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<li><a href="https://2014.igem.org/Team:Waterloo/Math_Book">2014 Waterloo</a></li>
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            <p>Copyright &copy; iGEM 2019, team: ShanghaiFLS_China. All rights reserved. Email: SFLS_x_iGEM@outlook.com</p>
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Revision as of 14:02, 16 October 2019

ShanghaiFLS_China: Demonstrate

Copyright © iGEM 2019, team: ShanghaiFLS_China. All rights reserved. Email: SFLS_x_iGEM@outlook.com