Difference between revisions of "Team:JNFLS/Model"

(Prototype team page)
 
Line 1: Line 1:
 
{{JNFLS}}
 
{{JNFLS}}
 
<html>
 
<html>
−
<div id="container">
+
 
−
<h1>Model</h1>
+
 
−
<div class="container_in">
+
<div class="column full_size judges-will-not-evaluate">
−
<div class="container_in_content">
+
<h3>★  ALERT! </h3>
−
<h2>Motivation</h2>
+
<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>
−
<p>With the trend of more and more accurate trend in the field of synthetic biology, there is an increasing requirement of an accurate quantitative regulation of gene expression. Moreover, researchers can provide insight into how the quantitative regulation system can be improved with the application of mathematical model.</p>
+
<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>
−
<p>As we know, many kinds of tumors have characteristic anaerobic and necrotic areas, which is one of important reasons that tumors are resistant to radiotherapy and chemotherapy. The fdhF promoter is an anaerobic promoter that initiates expression only in an oxygen-deficient environment，which has great potential to be used as an important regulatory element for gene therapy. So, it is of great significance to understand how the promoter precisely activated under hypoxic conditions.</p>
+
−
<h2>Introduction</h2>
+
−
<p>We linked the fdhF promoter to E0849(gene of gfp and terminator). After construction of targeted plasmid, we transformed it into Ecoli-DH5a and shaked the bacteria to the appropriate concentration. Then, we took bacteria to go to Qilu Hospital of Shandong University and detected PCO2  and P02 with Blood-gas Analyzer. The result is shown below:</p>
+
−
<img class="medium" src="https://static.igem.org/mediawiki/2017/e/e9/JNFLS-Model-1.png" />
+
−
<em style="text-align:center;">Table 1：The GFP fluorescence intensity in different PCO2 condition.</em>
+
−
<h2>Model</h2>
+
−
<p>We had the experiment about fdhF with different CO2 concentration, and fitted it as Hill equation. It can be seen from the Fig. 5 intuitively that the data fitting result completely consistents with the expected results, and the positive feedback regulation of the Hill equation fully reflects the experimental content.</p>
+
−
<p><em>The expression of this experiment is</em></p>
+
−
<div class="imgs">
+
−
<img class="medium" src="https://static.igem.org/mediawiki/2017/8/84/JNFLS-Model-2.png" />
+
−
<img class="small" src="https://static.igem.org/mediawiki/2017/e/ef/JNFLS-Model-3.png" />
+
−
<em>Fig. 5. fdhF</em>
+
−
<em>where A = 129.8, α=-2694, δ=-39.24, m=-26.12, XM=75.61, ε=2717.</em>
+
 
</div>
 
</div>
−
<p>In order to verify the result of fitting, we have some parameters about it: SSE is 3.52e+6, R-square is 0.9337, Adjusted R-square is 0.8674, and RMDE is 839.1. These numbers show that we got a pretty fitting result.</p>
+
<div class="clear"></div>
 +
 
 +
<div class="column full_size">
 +
<h1> Modeling</h1>
 +
 
 +
<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>
 +
 
 
</div>
 
</div>
 +
<div class="clear"></div>
 +
 +
<div class="column half_size">
 +
<h3> Gold Medal Criterion #3</h3>
 +
<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>
 +
 +
<p>
 +
Please see the <a href="https://2017.igem.org/Judging/Medals"> 2017 Medals Page</a> for more information.
 +
</p>
 
</div>
 
</div>
 +
 +
<div class="column half_size">
 +
<h3>Best Model Special Prize</h3>
 +
 +
<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.
 +
<br><br>
 +
You must also delete the message box on the top of this page to be eligible for the Best Model Prize.
 +
</p>
 +
 +
</div>
 +
<div class="clear"></div>
 +
 +
<div class="column full_size">
 +
<h5> Inspiration </h5>
 +
<p>
 +
Here are a few examples from previous teams:
 +
</p>
 +
<ul>
 +
<li><a href="https://2016.igem.org/Team:Manchester/Model">Manchester 2016</a></li>
 +
<li><a href="https://2016.igem.org/Team:TU_Delft/Model">TU Delft 2016  </li>
 +
<li><a href="https://2014.igem.org/Team:ETH_Zurich/modeling/overview">ETH Zurich 2014</a></li>
 +
<li><a href="https://2014.igem.org/Team:Waterloo/Math_Book">Waterloo 2014</a></li>
 +
</ul>
 +
 +
 +
</div>
 +
 
</html>
 
</html>

Latest revision as of 20:30, 1 March 2018

HOME
TEAM
PROJECT
Description
Design
Experiments
Notebook
InterLab
Contribution
Model
Results
Demonstrate
Improve
Attributions
PARTS
Parts
Basic Parts
Composite Parts
Part Collection
SAFETY
HUMAN PRACTICES
Silver HP
Integrated and Gold
Public Engagement
AWARDS
Applied Design
Entrepreneurship
Hardware
Measurement
Model
Plant
Software
JUDGING FORM

JNFLS

★ ALERT!

This page is used by the judges to evaluate your team for the medal criterion or award listed above.

Delete this box in order to be evaluated for this medal criterion and/or award. See more information at Instructions for Pages for awards.

Modeling

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.

Gold Medal Criterion #3

To complete for the gold medal criterion #3, please describe your work on this page and fill out the description on your judging form. 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.

Please see the 2017 Medals Page for more information.

Best Model Special Prize

To compete for the Best Model prize, please describe your work on this page and also fill out the description on the judging form. Please note you can compete for both the gold medal criterion #3 and the best model prize with this page.

You must also delete the message box on the top of this page to be eligible for the Best Model Prize.

Inspiration

Here are a few examples from previous teams: