Difference between revisions of "Team:XMU-China/Model"

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{{XMU-China}}
 
 
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<title>2017.igem.org/Team:XMU-China/Model</title>
  
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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://2017.igem.org/Judging/Medals">medal criterion</a> or <a href="https://2017.igem.org/Judging/Awards"> award listed above</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://2017.igem.org/Judging/Pages_for_Awards"> Instructions for Pages for awards</a>.</p>
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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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<a href="https://2017.igem.org/Team:XMU-China"><img src="https://static.igem.org/mediawiki/2017/9/9a/T--XMU-China--iconhome.png"></a></li>
  
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<h3> Gold Medal Criterion #3</h3>
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<a>PROJECT</a>
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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.  
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<li><a href="https://2017.igem.org/Team:XMU-China/Description">Description</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Design">Design</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Demonstrate">Demonstrate</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Results">Results</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Applied_Design">Applied&nbsp;Design</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Parts">Parts</a></li>
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Please see the <a href="https://2017.igem.org/Judging/Medals"> 2017 Medals Page</a> for more information.  
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<a>NOTEBOOK</a>
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<li><a href="https://2017.igem.org/Team:XMU-China/Notebook">Notebook</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Experiments">Experiments</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Engineering">Engineering</a></li>
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<h3>Best Model Special Prize</h3>
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<li><a href="https://2017.igem.org/Team:XMU-China/Hardware">Overview</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Freeze-Dry">Freeze-Dry</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/East-Wind">East-Wind</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Accessories">Accessories</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/More_Chips">More&nbsp;Chips</a></li>
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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.
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<a>MODEL</a>
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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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<li><a href="https://2017.igem.org/Team:XMU-China/Model">Overview</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Modeling">Modeling</a></li>
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<a>HUMAN&nbsp;PRACTICES</a>
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<li><a href="https://2017.igem.org/Team:XMU-China/Human_Practices">Overview</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/HP/Silver">Silver</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/HP/Gold_Integrated">Gold</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Engagement">Engagement</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Entrepreneurship">Entrepreneurship</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Collaborations">Collaborations</a></li>
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<h5> Inspiration </h5>
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<a>OTHER&nbsp;WORK</a>
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Here are a few examples from previous teams:
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<li><a href="https://2017.igem.org/Team:XMU-China/InterLab">Interlab</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Contribution">Contribution</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Improve">Improve</a></li>
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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://2017.igem.org/Team:XMU-China/Measurement">Measurement</a></li>
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<li><a href="https://2016.igem.org/Team:TU_Delft/Model">TU Delft 2016  </li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Safety">Safety</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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<li><a href="https://2017.igem.org/Team:XMU-China/Team">Team</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Attributions">Attributions</a></li>
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<li><a href="https://2017.igem.org/Team:XMU-China/Judging">Judging</a></li>
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<br /><p>Quantitative analysis of the dynamics in cellular systems is a key aspect of synthetic biology and engineering with the tool of the mathematical model, which not only integrates gene expression data, but also provides an important approach to understanding the dynamics by quantifying the interaction between the regulatory components. At present, the mainstream methods of modeling control network include <strong>Petri net, Bayesian network and differential equation model.</strong><br /><br />
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In our project, the main idea is to construct certain kinds of recombinant plasmids by selecting the corresponding pollutant ion sensing promoters binding with the reporter genes with T7 amplification systems to <strong>decrease the detection limit.</strong> It is fairly essential to get the accuracy of experimental data since the experiment of detecting the intensity of signals which is transferred as detectable, is based on the gene circuit, where lays the purport of mathematical modeling.<br /><br />
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Our models can be divided into three different aspects. On the <a href="https://2017.igem.org/Team:XMU-China/Modeling">gene level</a>, we hope to confirm that the concentration of pollutant ions is positively correlated with the promoter activity. And also we hope to gain insight of the gene expression dynamics of our whole circuit using <strong>the differential equation model</strong>. Furthermore, we have made a series of regression models about luxAB and tried to explain the surival of freeze dried bacteria with <strong>the Boyle van't Hoff relationship</strong>. On the aspect of <a href="https://2017.igem.org/Team:XMU-China/HP/Gold_Integrated">human practices</a>, we manage to investigate the relationship between environmental pollutants and economic, and choose <strong>Grossman model</strong> to explore the relationship and the amount of GDP emission environment. </p>
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<p>Xiamen University, Fujian, China<br />
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No. 422, Siming South Road, Xiamen, Fujian, P. R. China 361005</p>
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Latest revision as of 16:34, 1 November 2017

2017.igem.org/Team:XMU-China/Model


Quantitative analysis of the dynamics in cellular systems is a key aspect of synthetic biology and engineering with the tool of the mathematical model, which not only integrates gene expression data, but also provides an important approach to understanding the dynamics by quantifying the interaction between the regulatory components. At present, the mainstream methods of modeling control network include Petri net, Bayesian network and differential equation model.

In our project, the main idea is to construct certain kinds of recombinant plasmids by selecting the corresponding pollutant ion sensing promoters binding with the reporter genes with T7 amplification systems to decrease the detection limit. It is fairly essential to get the accuracy of experimental data since the experiment of detecting the intensity of signals which is transferred as detectable, is based on the gene circuit, where lays the purport of mathematical modeling.

Our models can be divided into three different aspects. On the gene level, we hope to confirm that the concentration of pollutant ions is positively correlated with the promoter activity. And also we hope to gain insight of the gene expression dynamics of our whole circuit using the differential equation model. Furthermore, we have made a series of regression models about luxAB and tried to explain the surival of freeze dried bacteria with the Boyle van't Hoff relationship. On the aspect of human practices, we manage to investigate the relationship between environmental pollutants and economic, and choose Grossman model to explore the relationship and the amount of GDP emission environment.