Difference between revisions of "Team:Minnesota/Model"

 
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{{Minnesota}}
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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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<!--- THIS IS WHERE THE HTML BEGINS --->
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<head>
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Basic Parts
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<div class="menu_button" >
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<div class="expand_collapse_icon">  </div> HUMAN PRACTICES
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</div>
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<!-- human practices submenu -->
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<div class="submenu_wrapper">
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<a href="https://2018.igem.org/Team:Minnesota/Human_Practices">
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<div class="submenu_button"  id="Silver_page">
 +
HUMAN PRACTICES
 +
</div>
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</a>
 +
 
 +
<a href="https://2018.igem.org/Team:Minnesota/Public_Engagement">
 +
<div class="submenu_button" id="Gold_Integrated_page">
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Education and Engagement
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</div>
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</a>
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</div>
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<div class="menu_button">
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<div class="expand_collapse_icon">  </div> AWARDS
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</div>
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<!-- awards submenu -->
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<div class="submenu_wrapper">
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<a href="https://2018.igem.org/Team:Minnesota/Applied_Design">
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<div class="submenu_button"  id="Applied_Design_page">
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Applied Design
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</a>
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<a href="https://2018.igem.org/Team:Minnesota/Entrepreneurship">
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<div class="submenu_button"  id="Entrepreneurship_page">
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Entrepreneurship
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</div>
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</a>
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<a href="https://2018.igem.org/Team:Minnesota/Hardware">
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<div class="submenu_button"  id="Hardware_page">
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Hardware
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</a>
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<a href="https://2018.igem.org/Team:Minnesota/Measurement">
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<div class="submenu_button"  id="Measurement_page">
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Measurement
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</a>
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<a href="https://2018.igem.org/Team:Minnesota/Model">
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<div class="submenu_button"  id="Model_page">
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</div>
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</a>
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<div class="submenu_button"  id="Plant_page">
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</a>
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<a href="https://2018.igem.org/Team:Minnesota/Software">
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<div class="submenu_button"  id="Software_page">
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</div>
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<div class="menu_bottom_padding" >
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</div>
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</div>
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−
</div>
 
−
<div class="clear"></div>
 
  
−
<div class="column full_size">
 
−
<h3> Gold Medal Criterion #3</h3>
 
−
<p>
 
−
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.
 
−
<br><br>
 
−
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.
 
−
</p>
 
  
−
<p>
 
−
Please see the <a href="https://2018.igem.org/Judging/Medals"> 2018
 
−
Medals Page</a> for more information.
 
−
</p>
 
 
</div>
 
</div>
  
−
<div class="column two_thirds_size">
 
−
<h3>Best Model Special Prize</h3>
 
  
−
<p>
 
−
To compete for the <a href="https://2018.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://2018.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.
 
−
<br><br>
 
−
You must also delete the message box on the top of this page to be eligible for the Best Model Prize.
 
−
</p>
 
  
 +
<!-- start of content -->
 +
<div class="igem_2018_content_wrapper">
 +
<h1> #Minnesota 2018 </h1>
 +
 +
 +
<!------------------------------------ MAKING A NAVIGATION BAR------------------------------------------>
 +
<div class="navbar">
 +
        <a href="https://2018.igem.org/Team:Minnesota">Home</a>
 +
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          <div class="dropdown">
 +
            <button class="dropbtn">+Team</button>
 +
            <div class="dropdown-content">
 +
              <a href="https://2018.igem.org/Team:Minnesota/Team" target="_blank"> Team Members </a>
 +
              <a href="https://2018.igem.org/Team:Minnesota/Collaborations" target="_blank"> Collaborations </a>
 +
            </div>
 +
          </div>
 +
       
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        <div class="dropdown">
 +
            <button class="dropbtn">+Project</button>
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 +
              <a href="https://2018.igem.org/Team:Minnesota/Description">Description</a>
 +
              <a href="https://2018.igem.org/Team:Minnesota/Design">Design</a>
 +
              <a href="https://2018.igem.org/Team:Minnesota/Experiments">Experiments</a>
 +
              <a href="https://2018.igem.org/Team:Minnesota/Notebook">Notebook</a>
 +
              <a href="https://2018.igem.org/Team:Minnesota/Model">Model</a>
 +
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 +
              <a href="https://2018.igem.org/Team:Minnesota/Attributions">Attributions</a>
 +
              <a href="https://2018.igem.org/Team:Minnesota/Interlab">Interlab</a>
 +
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            </div>
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        <div class="dropdown">
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            <button class="dropbtn">+Parts</button>
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 +
              <a href="https://2018.igem.org/Team:Minnesota/Basic_Part">Basic Parts</a>
 +
              <a href="https://2018.igem.org/Team:Minnesota/Composite_Part">Composite Parts</a>
 +
            </div>
 +
          </div>
 +
       
 +
        <div class="dropdown">
 +
            <button class="dropbtn">+Human Practices</button>
 +
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 +
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 +
              <a href="https://2018.igem.org/Team:Minnesota/Public_Engagement">Education and Engagement</a>
 +
            </div>
 +
        </div>
 +
 +
 +
 +
        <a href="https://2018.igem.org/Team:Minnesota/Safety">Safety</a>
 +
        <a href="https://2018.igem.org/Team:Minnesota/Judging">Medal Requirement</a>
 +
        <a href="https://igem.org/2018_Judging_Form?team=Minnesota">JUDGING FORM</a>
 +
        <p> #MINNESOTA 2018 </p>
 
</div>
 
</div>
 +
<br/>
 +
 +
 +
<style>
 +
body{text-align:center}
 +
</style>
 +
 +
 +
<span style="font-size:25px; color:black">Model:<br/>
 +
We used Monod growth model to modify the bacteria growth curve at IPTG as the substrate. The equation is μ(t)=μmax*S(t)/(K+S(t)) where, <br/>μ is the growth rate at a certain time, μmax is the highest growth rate for the whole system, S is the substrate(IPTG) concentration which will change based on time and K is half velocity constant.<br/> The equation of substrate changing is S’(t)= (-1/Y)*x’(t), where Y is the yield coefficient. x’(t) is given microbial growth rate for the population x(t) that equals μ(t)*x(t).<br/> In this model, we assumed that K= 0.02 mg/L, μmax= 0.1 h^-1, Y=0.8.
 +
</span>
 +
<br/>
 +
<img src="https://static.igem.org/mediawiki/2018/5/5d/T--Minnesota--Monod_model.jpeg" height="250" width="250" margin:20px 10px; />
 +
<br/>
 +
<span style="font-size:25px; color:red">
 +
Model of bacteria growth curve in IPTG.
 +
</span>
 +
<br/>
 +
 +
 +
 +
<style>
 +
/*************************** Page Formatting ****************************/
 +
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<style>
 +
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 +
        .navbar {
 +
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 +
          height: 100px;
 +
          background-color: #333;
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          margin-top: -60px;
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 +
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 +
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 +
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 +
          font-size: 16px;
 +
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 +
          background-color: inherit;
 +
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 +
 +
        /* Add a red background color to navbar links on hover */
 +
        .navbar a:hover, .dropdown:hover .dropbtn {
 +
          background-color: red;
 +
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 +
 +
        /* Dropdown content (hidden by default) */
 +
        .dropdown-content {
 +
          display: none;
 +
          position: absolute;
 +
          background-color: #f9f9f9;
 +
          width: 160px;
 +
          box-shadow: 0px 8px 16px 0px rgba(0,0,0,0.2);
 +
          z-index: 1;
 +
        }
 +
 +
        /* Links inside the dropdown */
 +
        .dropdown-content a {
 +
          float: none;
 +
          color: black;
 +
          padding: 10px 12px;
 +
          text-decoration: none;
 +
          display: block;
 +
          text-align: left;
 +
        }
 +
 +
        /* Add a grey background color to dropdown links on hover */
 +
        .dropdown-content a:hover {
 +
          background-color: #ddd;
 +
        }
 +
 +
        /* Show the dropdown menu on hover */
 +
        .dropdown:hover .dropdown-content {
 +
          display: block;
 +
        }
 +
</style>
 +
 +
<style>
 +
 +
        body{
 +
          background-image: url(https://static.igem.org/mediawiki/2018/c/c5/T--Minnesota--Background2.jpeg);
 +
          background-size: cover;
 +
          background-size: cover;
 +
          height: 40vh;
 +
          background-size:100% 100%;
 +
          background-attachment: fixed;
 +
                    }
 +
</style>
  
  
−
<div class="column third_size">
 
−
<div class="highlight decoration_A_full">
 
−
<h3> Inspiration </h3>
 
−
<p>
 
−
Here are a few examples from previous teams:
 
 
</p>
 
</p>
−
<ul>
 
−
<li><a href="https://2016.igem.org/Team:Manchester/Model">2016 Manchester</a></li>
 
−
<li><a href="https://2016.igem.org/Team:TU_Delft/Model">2016 TU Delft</li>
 
−
<li><a href="https://2014.igem.org/Team:ETH_Zurich/modeling/overview">2014 ETH Zurich</a></li>
 
−
<li><a href="https://2014.igem.org/Team:Waterloo/Math_Book">2014 Waterloo</a></li>
 
−
</ul>
 
−
</div>
 
−
</div>
 
  
 +
</div>             <div class="visualClear"></div>
 +
            </div>
 +
    </div>
 +
 +
        </div>
 +
 +
        <!-- Side Menubar -->
 +
        <div id="sideMenu">
 +
            <a href="https://2018.igem.org">
 +
                <div id="home_logo" >
 +
                <img src="https://static.igem.org/mediawiki/2017/b/bf/HQ_menu_logo.jpg">
 +
                </div>
 +
            </a>
 +
 +
            <div style="clear:both; height:5px;"></div>
 +
 +
            <div id="menuDisplay"></div>  <!- Menu will be loaded here ->
 +
        </div>
 +
 +
        <!-- Pop_Why Div is definded here -->
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Team:Minnesota/2018/EDUCATION AND ENGAGEMENT/igem

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Team:Minnesota

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#Minnesota 2018

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#MINNESOTA 2018


Model:
We used Monod growth model to modify the bacteria growth curve at IPTG as the substrate. The equation is μ(t)=μmax*S(t)/(K+S(t)) where,
μ is the growth rate at a certain time, μmax is the highest growth rate for the whole system, S is the substrate(IPTG) concentration which will change based on time and K is half velocity constant.
The equation of substrate changing is S’(t)= (-1/Y)*x’(t), where Y is the yield coefficient. x’(t) is given microbial growth rate for the population x(t) that equals μ(t)*x(t).
In this model, we assumed that K= 0.02 mg/L, μmax= 0.1 h^-1, Y=0.8.

Model of bacteria growth curve in IPTG.

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