Team:Grenoble/HumanPractice/developing

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<h2> Developing a solution </h2>
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<h1>Developing a solution</h1>
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To resolve this communication difficulty and to facilitate the understanding and collaboration between us (modelers and biologists), we have explored means to develop a tool that allows us to carry out our project.
+
-
</p>
+
<p> To resolve this communication difficulty and to facilitate the understanding and collaboration between us (modelers and biologists), we have developed an interdisciplinary communication tool.</p>
 +
 +
<p> For this purpose we prepared two educational flyers: </p>
-
<p> For this purpose we prepared two educational flyers:</p>
 
-
 
-
<ul>
 
-
<li>Flyer "Modeling for Biologists" which was realized by the biologists of our team, in order to explain to other biologist the essentials of model building.</li>
 
-
<li> Flyer "Biology for Modelers"" performed by the members of our team involved in computer modeling.</li>
+
 
-
</ul>
+
<ul>
-
+
<li>Flyer "<a href="https://static.igem.org/mediawiki/2011/9/91/M_for_B.png">Modelling for biologist</a>" which was realized by the biologists of our team under the supervision of the modelers, in order to explain the essentials of mathematical modelling approaches to other biologists. </li>  
 +
<li> Flyer "<a href="https://static.igem.org/mediawiki/2011/5/54/B_for_M.png">Synthetic Biology for modellers</a>" performed by the members of our team involved in computer modelling, under the supervision of the biologists and aimed at explaining the basics of genetics to other fellow modelers. </li>
 +
</ul>
 +
<p> Swapping the roles of the team members during the realization of the flyers allowed us to include the point of view of “non-experts” and to focus on essential points which often appear trivial and therefore unimportant to the experts.
 +
</p>
 +
 +
 +
<p>
<p>
-
The goal of our flyers realization was to bring the basics of synthetic biology and modeling to modelers and biologists respectively.
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<center>
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<a href="https://2011.igem.org/wiki/index.php?title=Team:Grenoble/HumanPractice/developing#compo">1. Content of the flyers</a>
 +
</center>
</p>
</p>
<p>
<p>
-
Swapping the roles of the team members during the realization of the flyers allowed us to have an external point of view to our own scientific field, which allows us to develop critical perception.  
+
<center>
-
 
+
<a href="https://2011.igem.org/wiki/index.php?title=Team:Grenoble/HumanPractice/developing#evalu">2. Flyers evaluation</a>
 +
</center>
</p>
</p>
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</div>
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<p>
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<center>
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<a href="https://2011.igem.org/wiki/index.php?title=Team:Grenoble/HumanPractice/developing#conclu">3. Conclusion</a>
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</center>
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</p>
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</div>
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<div class="blocbackground">
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<h2>Interest for the iGEM community</h2>
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<a href="https://static.igem.org/mediawiki/2011/a/ad/Interaction2.png"><img src="https://static.igem.org/mediawiki/2011/a/ad/Interaction2.png" width="500px"/></a>
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</center>
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<p>
 +
Interest for iGEM community ?! Sure !! Since the strength of iGEM teams often reposes on bringing together a critical mass of expertise in different disciplines, we developed flyers that can foster the communication between experts and thus enhance their work efficiency. Especially during the initial phases of the project, the flyers could boost interdisciplinary work within mixed teams. It therefore makes sense to integrate them in the iGEM KIT so as to make them available to the iGem community right from the start.
 +
            </p>
 +
<p>
 +
As an educational tool, universities or high schools can also use the flyers. They help explaining the basics of synthetic biology and pinpoint the complementarity between experimental and theoretical approaches in engineering.
 +
</p>
 +
</div>
 +
<div id="compo"></div>
 +
<div class="blocbackground">
<div class="blocbackground">
-
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<h2>Content of the Flyers</h2>
-
<p> Since our team spent a long period of time to overcome communication difficulties by developing the flyers, we would like to share our solution with present and future iGEM teams.  Flyers could then be used by all the interdisciplinary teams during the initial phases, when the subject is going to be debated. It could also be integrated in the iGEM KIT, which may certainly facilitate its accessibility to the concerned teams. </p>
+
</div>
-
<p> Also, flyers could be used by Universities or even High Schools to explain the basics of synthetic biology and the complementarity between experimental and theoretical approaches in engineering. </p>
+
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<img src="https://static.igem.org/mediawiki/2011/5/57/Flyer_Compo_1.png"></img>
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<img src="https://static.igem.org/mediawiki/2011/4/42/Flyer_Compo_2.png"></img>
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<img src="https://static.igem.org/mediawiki/2011/5/57/Flyer_Compo_3.png"></img>
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<img src="https://static.igem.org/mediawiki/igem.org/c/cf/Flyer_Compo_4.png"></img>
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<img src="https://static.igem.org/mediawiki/igem.org/7/7f/Flyer_Compo_5.png"></img>
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<img src="https://static.igem.org/mediawiki/igem.org/f/f4/Flyer_Compo_6.png"></img>
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<!--
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<h5>1. Modelling for biologists </h5>
 +
<p>
 +
To elaborate this flyer, we tried to answer the following question : « What does a biologist need to know about modeling basics in order to efficiently collaborate with modelers?”.
 +
</p>
 +
<p>
 +
Our approach was based on a step by step building up of a differential equation expressing the variation of protein concentration as a function of time. Below are details of critical points exposed on this flyer:
 +
</p>
 +
<ol>
 +
<li>
 +
Building the equation: as a first step, we identify the principal phenomena (rate of synthesis, of degradation, of repression) and their respective parameters (protein concentration, synthesis rate, constant of degradation) involved in the construction of such equation. As an example, we took GFP protein expression.
 +
</li>
 +
<li>
 +
Interpreting the curves: here we showed how to interpret the different cases obtained while interpreting the differential equation.
 +
</li>
 +
<li>
 +
Highlighting biologist intervention: finally, we underline the role of the biologist by precisely identifying the critical steps during its interaction with a modeler, in particular in the experimental determination of parameters used by the modeler.
 +
</li>
 +
</ol>
 +
<center>
 +
<a href="https://static.igem.org/mediawiki/2011/7/74/BIO_1.png"><img src="https://static.igem.org/mediawiki/2011/7/74/BIO_1.png" height="300px"/></a>
 +
</center>
 +
<div class="legend">
 +
Click on the picture above to see it fullscreen.
 +
</div>
 +
 +
<h5> 2. Biology for modelers </h5>
 +
<p>
 +
To elaborate this flyer, we tried to answer the following question: « What does modeler need to know about synthetic biology in order to efficiently work with biologists?”.
 +
</p>
 +
<p> 
 +
Our approach was based on the step by step description of a genetic circuit construction. Below are the details of critical points exposed on this flyer:
 +
</p>
 +
<ol>
 +
<li>Composition of the circuit: we first identify the main elements (Gene, Promoter, Terminator…) composing a genetic circuit and detail their role and interactions.</li>
 +
<li>Circuit’s reguIation: here we present an example of a regulation network in which LacI and IPTG  play the roles of repressor and activator, respectively.</li>
 +
<li>Highlighting modeler intervention: finally, we underline the role of the modeler by identifying the critical steps during its interaction with a biologist.</li>
 +
</ol>
 +
-->
 +
-
<h3> Flyers composition </h3>
+
<div id="evalu"></div>
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<div class="blocbackground">
+
<div class="blocbackground">
-
+
-
<h5> 1. Modeling for biologists </h5>
+
<h2> Flyers evaluation </h2>
 +
 +
<p> To estimate the educational impact of our flyers, we organized a meeting with  46 students (mostly Undergraduate, Graduate and PhD) from various backgrounds (Life Sciences, Physics and Electronic Engineering and Computer Sciences).  
 +
None of them was involved in our project and synthetic biology was for most of them unheard of. Three <a href="https://static.igem.org/mediawiki/igem.org/6/6d/Test_Human_Practice_%283%29.pdf">quiz</a> sessions were held on August 20th/October 25th in Grenoble and on September 20th in Paris.
 +
The session in Paris involved the <a href="https://2011.igem.org/Team:Grenoble/HumanPractice/collaboration">collaboration</a> with <a href="https://2011.igem.org/Team:Paris_Bettencourt"> iGEM Paris Bettencourt 2011</a> team and they recruited students from the Master Interdisciplinary Approach of the Living (AIV: Approche Interdisciplinaire du Vivant) from the Center of Interdisciplinary Research (CIR) at Paris Descartes University.</p>
 +
<p>We prepared a <a href="https://static.igem.org/mediawiki/igem.org/6/6d/Test_Human_Practice_%283%29.pdf">quiz</a> to evaluate the content and the efficiency of our flyers in promoting interdisciplinary communication skills.</p>
 +
</div>
-
<p> To elaborate this flyer, we tried to answer at following question : « What does a biologist need to know about modeling basics in order to efficiently collaborate with modelers?”.</p>
+
<div class="position_diapo">
 +
<div class="style_diapo ">
 +
  <div class="items">
 +
  <div>
 +
<img src="https://static.igem.org/mediawiki/igem.org/6/6b/Eval_1.png"></img>
 +
  </div>
 +
  <div>
 +
<img src="https://static.igem.org/mediawiki/igem.org/0/00/Eval_2.png"></img>
 +
  </div>
 +
  <div>
 +
<img src="https://static.igem.org/mediawiki/igem.org/7/70/Eval_3.png"></img>
 +
  </div>
 +
  <div>
 +
<img src="https://static.igem.org/mediawiki/igem.org/d/d6/Eval_4.png"></img>
 +
  </div>
 +
  <div>
 +
<img src="https://static.igem.org/mediawiki/igem.org/0/00/Eval_5.png"></img>
 +
  </div>
 +
 +
  </div>
 +
</div>
-
<p> Our approach was based on step by step building up of a differential equation construction.  This equation expresses the variation of protein concentration as function of time. Below are the details of critical points exposed on this flyer:
+
<div class="prev"></div>
 +
<div class="next"></div>
 +
<div class="navi"></div>
 +
</div>
-
<ul>  
+
<!--
 +
<ol>
 +
<li>Experimental and theorical aspects of a synthetic biology project (we took our system as a study case).</li>
 +
<li>Interdisciplinarity in synthetic biology.</li>
 +
<li>Composition of the flyers (contents and design).</li>
 +
</ol>
-
<ol>1. Building the equation: as a first step, we identify the principal phenomena (synthesis, degradation, repression) and their respective parameters (protein concentration, synthesis rate, constant of degradation) involved in the construction of such equation. For that, we took GFP protein expression as an example. </ol>
+
<p>The experiment was conducted in this way:</p>
-
<ol>2. Interpreting the curves: here we showed how to interpret the different cases obtained while resolving the differential equation. </ol>
+
-
<ol>3. Highlighting biologist intervention: finally, we underline the role of the biologist by precisely identifying the critical steps during its interaction with a modeler. </ol>  
+
<ul>
-
</ul>
+
<ul>
-
+
<li>Students were divided into  two groups: group (A) received the flyers and group (B), as negative control, did not receive them.</li>
-
<h5> 2. Biology for modelers </h5>
+
<li>In each group, the participants were paired (Biologist-Modeler) in order to study the interaction aspect.</li>
-
<p> To elaborate this flyer, we tried to answer at following question: « What does modeler need to know about synthetic biology in order to efficiently work with biologists?”.</p>
+
<li>Groups were physically departed to prevent contact during the test.</li>
-
+
<li>The quiz was given to all participants. And at the same time, the flyers were given to the group A.</li>
-
<p> Our approach was based on the step by step description of genetic circuit construction. Below are the details of critical points exposed on this flyer:
+
<li>All the participants were monitored during the test.</li>
 +
<li>The answers of the quiz were collected after 45 minutes.</li>
 +
</ul>
 +
</ul>
 +
<p>  
 +
At the end of the test, we also gave the flyers to the participants of group B and ask them whether they would have been useful. Finally, we invited all the participants to debate about interdisciplinarity in such a discipline.  
 +
</p>  
 +
<p>
 +
By collecting their different opinions and analyzing the videos, we made the following conclusions:
 +
</p>
 +
<ol>
 +
<li>
 +
Participants of group B (without flyers) showed more difficulties than those of group A to interact and to understand the questions.
 +
</li>
 +
<li>
 +
During the test the flyers were read several times by group A participants, revealing their utility as educational support. 
 +
</li>
 +
<li>
 +
The importance of modeling in synthetic biology needed to be more explicitly represented on our flyers. We completed them in this way. The new version is given here.
 +
</li>
 +
<li>
 +
All the participants were convinced that biologists and modelers have to work closely together in order to carry out a project in synthetic biology, concluding that the vision and applications of this emerging field will certainly influence many other scientific and engineering disciplines.
 +
</li>
 +
</ol>
-
<ul>  
+
<center>
-
+
<a href="https://static.igem.org/mediawiki/2011/b/ba/Brainstorming_test.png"><img src="https://static.igem.org/mediawiki/2011/b/ba/Brainstorming_test.png" width=500px/></a>
-
<ol>1. Composition of the circuit: we first identify the main elements (Gene, Promoter, Terminator…) composing a genetic circuit and detail their interactions. </ol>
+
</center>
-
<ol>2. Circuit’s reguIation: here we present an example of a regulation network in which LacI and IPTG  play the roles of a Respressor and Activator, respectively.  </ol>
+
<div class="legend">
-
<ol>3. Highlighting modeler intervention: finally, we underline the role of the modeler by identifying the critical steps during its interaction with a biologist.  </ol>  
+
<!--
-
</ul>
+
<strong>Figure 372:</strong>  
-
+
-->
-
</p>
+
<!--
 +
Brainstorming with the participants
 +
</div>
-
</div>
+
<p>
 +
The positive feedback received from the participants encouraged us to renew this experience with 10 students coming from Paris Descartes University by collaborating with the iGEM Paris Bettencourt 2011 team. These students have freshly integrated the Master called "Interdisciplinary Approach of Living"  (AIV: Approche Interdisciplinaire du Vivant) from the Center of Interdisciplinary Research (CIR).
 +
</p>
 +
<p>
 +
The Quiz conditions were similar to those realized in Grenoble, except that for practical reasons, we have prepared numerical quiz. Students could then answered the questions on line.
 +
</p>
 +
<p>
 +
Concerning the answers about the mechanism of the genetic system, we found that students from group A (Test with flyers) give more precise answers, which is in concordance with the previous results obtained in Grenoble. The interaction between students will be studied soon after analyzing the videos documents.
 +
</p>
 +
-->
 +
<div id="conclu"></div>
-
<h3> Flyers evaluation </h3>
+
<div class="blocbackground">
-
+
-
<div class="blocbackground">
+
-
+
-
+
-
<p> An understanding and consideration of the public perception of our Human Practice work is essential to ensure that we have achieved our fixed objective.</p>
+
-
<p>To estimate the educational impact of our flyers, we organized a meeting with 14 students (Graduate and PhD)  from various backgrounds (Life Sciences, Engineering and  Computer Science). All of them were completely external to our project and studying in fields non related to synthetic biology.</p>
+
-
<p>We prepared a quiz to be given to all participants to evaluate their interdisciplinary knowledge. Three major axes were then focused on: </p>
+
-
<ul>  
+
<h2> Conclusion </h2>
-
+
-
<ol>1. Experimental and theorical aspects of a synthetic biology project (we took our system as a study case).  </ol>
+
-
<ol>2. Interdisciplinarity in synthetic biology.  </ol>
+
-
<ol>3. Composition of the flyers (contents and design). </ol>
+
-
</ul>
+
-
+
-
+
-
<p> The experiment was conducted in this way:</p>
+
-
<ul>  
+
<p>  
-
+
From this experience, we learned how to overcome interaction difficulties between scientists of different fields and foster efficient communication between team members. The interdisciplinary approach of synthetic biology helped us to enlarge our views on topics that are indeed closely related to our work in iGEM, but that we sometimes forget when we are just ‘doing science and engineering.
-
<ol>- Students were divided into  two groups: group (A)  received the flyers and group (B), as negative control, did not received them.  </ol>
+
</p>  
-
<ol>- In each group, the participants were paired in order to study the interaction aspect. </ol>
+
-
<ol>- Groups were physically departed to prevent contact during the test. </ol>
+
-
<ol>- The quiz was given to all participants. And at the same time, the flyers were given to the group A. </ol>
+
-
<ol>- All the participants were monitored during the test.  </ol>
+
-
<ol>- The answers of the quiz were collected after 45 minutes. </ol>
+
-
</ul>
+
-
<p> At the end of the test, we also gave the flyers to the participants of group B and ask them whether they would have been useful. Finally, we invited all the participants to debate about interdisciplinarity in such discipline. </p>  
+
<p>
-
 
+
Concretely, improving communication between modelers and biologist of the team made us realize the necessity to:
-
<p> By collecting their different opinions and analyzing the videos, we made the following conclusions:</p>
+
</p>
-
+
<ol>
-
<ul>  
+
<li>Characterize the initial state of the system.</li>
-
+
<li>Identify the crucial elements of the toggle switch and quorum sensing that should be measured.</li>
-
<ol>1.Participants of group B (without flyers) showed more difficulties than those of group A to interact and to understand the questions. </ol>
+
<li>Determine the necessary and sufficient set of parameters that specify the context and biological state of our system.</li>
-
<ol>2.During the test the flyers were read several times by group A participants, revealing their utility as educational support.  </ol>
+
</ol>
-
<ol>3.The importance of modeling in synthetic biology needed to be more explicitly represented on our flyers. We complete them in this way. The new version is given here. </ol>
+
-
<ol>4. All the participants were convinced that biologists and modelers have to work closely together in order to carry out a project in synthetic biology, concluding that the vision and applications of this emerging field will certainly influence many other scientific and engineering disciplines. </ol>
+
-
+
-
</ul>
+
-
+
-
+
-
<p> The positive feedback received from the participants encouraged us to renew this experience with 10 students coming from Paris Descartes University by collaborating with iGEM Paris Bettencourt 2011 team. These students have freshly integrated the Master called Interdisciplinary Approach of Living  (AIV: Approche Interdisciplinaire du Vivant) from the Center of Interdisciplinary Research (CIR).</p>
+
-
 
+
-
<p> The Quiz conditions were similar to those realized in Grenoble, except that for practical reasons, we have prepared numerical quiz. Students could then answered the questions on line.</p>
+
-
 
+
-
<p> Concerning the answers about the mechanism of the genetic system, we found that students from group A (Test with flyers) give more precise answers, which is in concordance with the previous results obtained in Grenoble. However, the interaction between students will be studied soon after analyzing the videos documents. </p>  
+
-
 
+
-
 
+
-
</div>
+
-
<h3> Conclusion </h3>
+
<center>
-
+
<a href="https://2011.igem.org/Team:Grenoble/HumanPractice" title="Click to return to Human Practice overview"><img height="100px" src="https://static.igem.org/mediawiki/2011/6/64/Bouton_general_human_practice.png"/></a>
-
<div class="blocbackground">
+
<div class="legend">
-
+
Click on the icon above to return to the Human Practice overview.
-
+
</div>
-
<p> From this experience, we learned how to overcome interaction difficulties between scientists of different fields and foster efficient communication between team members coming. The interdisciplinary approach of synthetic biology made us to enlarge our views on topics that are indeed closely related to our work in iGEM, but that we sometimes forget when we are just ‘doing science and engineering.</p>  
+
</center>
-
<p> Concretely, improve communication between theoricians and experimentalists of the team made us realize the necessity to: </p>
+
</div>
-
+
-
<ul>
+
-
+
-
<ol> 1. Characterize the initial state of the system. </ol>
+
-
<ol> 2. Identify the crucial elements of the Toggle Switch and the Quorum Sensing that should be measured. </ol>
+
-
<ol> 3. Determine the necessary and sufficient set of parameters that specify context and biological state of our system. </ol>
+
-
+
-
</ul>
+
-
+
-
<a href="http://https://static.igem.org/mediawiki/2011/a/ad/Interaction2.png"><img src="http://https://static.igem.org/mediawiki/2011/a/ad/Interaction2.png" class="centerwide"/></a>
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{{:Team:Grenoble/Design/pied}}

Latest revision as of 02:28, 29 October 2011

Grenoble 2011, Mercuro-Coli iGEM


Developing a solution

To resolve this communication difficulty and to facilitate the understanding and collaboration between us (modelers and biologists), we have developed an interdisciplinary communication tool.

For this purpose we prepared two educational flyers:

  • Flyer "Modelling for biologist" which was realized by the biologists of our team under the supervision of the modelers, in order to explain the essentials of mathematical modelling approaches to other biologists.
  • Flyer "Synthetic Biology for modellers" performed by the members of our team involved in computer modelling, under the supervision of the biologists and aimed at explaining the basics of genetics to other fellow modelers.

Swapping the roles of the team members during the realization of the flyers allowed us to include the point of view of “non-experts” and to focus on essential points which often appear trivial and therefore unimportant to the experts.

1. Content of the flyers

2. Flyers evaluation

3. Conclusion

Interest for the iGEM community

Interest for iGEM community ?! Sure !! Since the strength of iGEM teams often reposes on bringing together a critical mass of expertise in different disciplines, we developed flyers that can foster the communication between experts and thus enhance their work efficiency. Especially during the initial phases of the project, the flyers could boost interdisciplinary work within mixed teams. It therefore makes sense to integrate them in the iGEM KIT so as to make them available to the iGem community right from the start.

As an educational tool, universities or high schools can also use the flyers. They help explaining the basics of synthetic biology and pinpoint the complementarity between experimental and theoretical approaches in engineering.

Content of the Flyers

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Flyers evaluation

To estimate the educational impact of our flyers, we organized a meeting with 46 students (mostly Undergraduate, Graduate and PhD) from various backgrounds (Life Sciences, Physics and Electronic Engineering and Computer Sciences). None of them was involved in our project and synthetic biology was for most of them unheard of. Three quiz sessions were held on August 20th/October 25th in Grenoble and on September 20th in Paris. The session in Paris involved the collaboration with iGEM Paris Bettencourt 2011 team and they recruited students from the Master Interdisciplinary Approach of the Living (AIV: Approche Interdisciplinaire du Vivant) from the Center of Interdisciplinary Research (CIR) at Paris Descartes University.

We prepared a quiz to evaluate the content and the efficiency of our flyers in promoting interdisciplinary communication skills.

Conclusion

From this experience, we learned how to overcome interaction difficulties between scientists of different fields and foster efficient communication between team members. The interdisciplinary approach of synthetic biology helped us to enlarge our views on topics that are indeed closely related to our work in iGEM, but that we sometimes forget when we are just ‘doing science and engineering.

Concretely, improving communication between modelers and biologist of the team made us realize the necessity to:

  1. Characterize the initial state of the system.
  2. Identify the crucial elements of the toggle switch and quorum sensing that should be measured.
  3. Determine the necessary and sufficient set of parameters that specify the context and biological state of our system.
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