Difference between revisions of "Team:TNCR Korea/Model"

 
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{{TNCR_Korea}}
 
 
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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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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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Please see the <a href="https://2017.igem.org/Judging/Medals"> 2017 Medals Page</a> for more information.  
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<h3>Best Model Special Prize</h3>
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<p>
 
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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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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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<h5> Inspiration </h5>
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<h3>Model</h3>
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<center><h1> Edited </h1></center></br></br></br>
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<p>1. Efficiency</p>
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<p><font color="red">
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TNCR_Korea team tried to suggest a different improved method of utilizing the anderson promoter with gene expression regulating purpose in the future.</font></p>
 
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Here are a few examples from previous teams:
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We are aware that an essential advantage of 3A Assembly method is no need for gel purification which tends to be inefficient when it comes to small pieces of DNA less than 200bp. However, the sequence of Anderson promoter is extraordinarily short—33bp. Thus, it becomes comparatively inefficient to check the sequence. </p></br>
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<p>
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<ul>
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2. Feasibility</p>
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<li><a href="https://2016.igem.org/Team:Manchester/Model">Manchester 2016</a></li>
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<p>
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<li><a href="https://2016.igem.org/Team:TU_Delft/Model">TU Delft 2016  </li>
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iGEM initially encouraged the teams to identify the presence of EcoR1 or Pst1 site. The DPP4 sequence, which is one of the vectors we use, contains two Pst1 sites. Accordingly, the additional presence of the particular site that restriction enzyme is likely to mistakenly recognize leads to decomposition of DPP4. Conversely, the ligation process of infusion cloning method (Figure 3) does not require restriction enzyme cutting of insert gene: we can indiscriminately utilize the gene we want even if there are EcoR1, Pst1 sites.</p>
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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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<p><font color="red">Infusion ligation method that we adapted is only requiring the same 10 base pair lengh sequence between cut vector and insert gene. Like fasten by a staple, if each forward side and reverse side of the cutted vector as well as insert gene is same, it can be simply fused by infusion ligase.</font>
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<li><a href="https://2014.igem.org/Team:Waterloo/Math_Book">Waterloo 2014</a></li>
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</p></br></br></br></br>
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<p>1.  We add Anderson promoter to PCR primer sequence by using primer design method for infusion ligation process, which ensures accuracy and convenience.</p><p><font color="red"> Because the band is not accurately identified if the primer does not work properly.</font></p><p> The success of ligation can be manifested by the success of PCR. Although 33bp is so short that it cannot be precisely detected by gel band, proper indication of the band can confirm the success of gene ligation of Anderson promoter. </p></br></br></br></br></br>
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Latest revision as of 02:24, 2 November 2017

TNCR_KOREA — Digestable Gluten

Project

Model










Edited




1. Efficiency

TNCR_Korea team tried to suggest a different improved method of utilizing the anderson promoter with gene expression regulating purpose in the future.

We are aware that an essential advantage of 3A Assembly method is no need for gel purification which tends to be inefficient when it comes to small pieces of DNA less than 200bp. However, the sequence of Anderson promoter is extraordinarily short—33bp. Thus, it becomes comparatively inefficient to check the sequence.


2. Feasibility

iGEM initially encouraged the teams to identify the presence of EcoR1 or Pst1 site. The DPP4 sequence, which is one of the vectors we use, contains two Pst1 sites. Accordingly, the additional presence of the particular site that restriction enzyme is likely to mistakenly recognize leads to decomposition of DPP4. Conversely, the ligation process of infusion cloning method (Figure 3) does not require restriction enzyme cutting of insert gene: we can indiscriminately utilize the gene we want even if there are EcoR1, Pst1 sites.

Infusion ligation method that we adapted is only requiring the same 10 base pair lengh sequence between cut vector and insert gene. Like fasten by a staple, if each forward side and reverse side of the cutted vector as well as insert gene is same, it can be simply fused by infusion ligase.





1. We add Anderson promoter to PCR primer sequence by using primer design method for infusion ligation process, which ensures accuracy and convenience.

Because the band is not accurately identified if the primer does not work properly.

The success of ligation can be manifested by the success of PCR. Although 33bp is so short that it cannot be precisely detected by gel band, proper indication of the band can confirm the success of gene ligation of Anderson promoter.