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| − | {{USTC-Software/Header2}} | + | {{USTC-Software/html/header}} |
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| | <html> | | <html> |
| | <link href="https://2019.igem.org/Template:USTC-Software/css/default?action=raw&ctype=text/css" rel="stylesheet" | | <link href="https://2019.igem.org/Template:USTC-Software/css/default?action=raw&ctype=text/css" rel="stylesheet" |
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| | <script src="https://2019.igem.org/Template:USTC-Software/js/bootstrap?action=raw&ctype=text/javascript" | | <script src="https://2019.igem.org/Template:USTC-Software/js/bootstrap?action=raw&ctype=text/javascript" |
| | type="text/javascript"></script> | | type="text/javascript"></script> |
| | + | <div id="autoMenu2" class="autoMenu2"></div> |
| | <div class="container"> | | <div class="container"> |
| | <div class="row"> | | <div class="row"> |
| − | <div class="col-lg- 3 col-md-0"> | + | <!-- <div class="col-lg- 2 col-md-0" >--> |
| − | <div class="autoMenu d-none d-lg-block" data-autoMenu id="autoMenu"></div> | + | <!-- <div class="autoMenu d-none d-lg-block" data-autoMenu id="autoMenu"></div >--> |
| − | </div>
| + | <!-- </div>--> |
| − | <div class="col-lg-9 col-md-12"> | + | <div class="col-lg-12 col-md-12"> |
| | <div class="card page-content"> | | <div class="card page-content"> |
| | <div class="card-body"> | | <div class="card-body"> |
| − | <h1 class="text-center">Human Practice</h1> | + | <h1 class="text-center">Public Engagement</h1> |
| − | <h3>Earlier Stage</h3> | + | <h3>Public Engagement-Let's begin with games and coffee</h3> |
| − | <h4>Visit to Huaheng Biotech</h4> | + | <h4>iSTC-interesting Synthetic Transaction and Cooperation</h4> |
| − | <div class="passage">Huaheng Biotech is a company which the leading position around the world, in the field of
| + | |
| − | alanine products producing using methods of microbiological fermentation. They had put a major capital
| + | |
| − | investment in research and development. After communicating with their research leader, we took a visit to
| + | |
| − | their plant and had a meetup with their researchers. <br>
| + | |
| − | <div class="text-center psgImg">
| + | |
| − | <img src="https://static.igem.org/mediawiki/2019/e/e0/T--USTC-Software--hp1.jpg" alt="">
| + | |
| − | </div>
| + | |
| − | Despite their high level of research, they said that there remained no good pre-analytical way to decide how
| + | |
| − | to improve their process of production. The existing way and tools had too many limits to be used by
| + | |
| − | researchers so that they could only experiment with changes thought out of experience. Also, with careful
| + | |
| − | consideration of environmental protection, they kept on finding ways to improve their products while not
| + | |
| − | impact productive rates. <br>
| + | |
| − | | + | |
| − | </div>
| + | |
| − | <h4>Meeting with Prof. Jiong Hong</h4>
| + | |
| | <div class="passage"> | | <div class="passage"> |
| − | After acknowledging the problems faced in the real world, we went to have a meeting with our PI, professor | + | In order to promote public awareness of synthetic biology and introduce its basic ideas to the laymen, |
| − | Jiong Hong. Prof. Hong informed us about the existence of Flux Balance Analysis and further researches based
| + | our team is devoted to the development of a board game which aims at instructing non-biologists to understand |
| − | on it. Then we had some investigation about FBA, only to find that all existing tools to do FBA lack the
| + | what biobricks can do and how can we use them to make new things. |
| − | ease of use despite the beauty of its method. It first came into our mind to build a great FBA tool that | + | |
| − | meets the requirements of real production environments. | + | |
| | <br> | | <br> |
| − | <div class="text-center psgImg"> | + | As games have become a significant part of our spare time, and most youngsters would rather play games to have fun. |
| − | <img src="https://static.igem.org/mediawiki/2019/3/36/T--USTC-Software--hp_hongjiong.jpg" alt="">
| + | We consider it a perfect opportunity to introduce synthetic biology to them. |
| − | </div> | + | <br> |
| | + | To attract more people without such background to be interested in this area, we develop this board game specially |
| | + | designed for synthetic biology. In this game, even laymen can have fun. We greatly weakened the hardcore and |
| | + | annoying part of synthetic biology when we keep the main idea of it. |
| | </div> | | </div> |
| − | <h4>Preliminary product design</h4> | + | <h4>USTC1958 Café</h4> |
| | <div class="passage"> | | <div class="passage"> |
| − | We proposed a revolutionary workflow that would greatly improve efficiency and decrease the complexity of | + | In our broader community, there's a café called USTC1958, which is the highest rating café in Hefei, |
| − | using. In other words, we designed a high-level framework to automatically solve many inner logics and thus | + | according to the internet. We consider it a great way to interact with them. They may add color to our project while we can add new elements for them. |
| − | simplify the process of analysis.
| + | |
| | <br> | | <br> |
| − | <div class="text-center psgImg"> | + | Talking with the café owner, she spoke highly of our projects and enthusiasm, and also showed great interest in |
| − | <img src="https://static.igem.org/mediawiki/2019/b/b2/T--USTC-Software--downside1.png" alt="">
| + | synthetic biology. As an attractive café owner, she provided brilliant suggestions for our team name, logo, and |
| − | </div> | + | uniform. Since we don't have a teammate in the art relating majors, their advice had a great influence on us. |
| | <br> | | <br> |
| − | <div class="text-center psgImg"> | + | Meanwhile, we gave an overview of synthetic biology to them. They were interested in it and willing to add some |
| − | | + | "synthetic" elements in the café. We offered to rendered our board game, which may help the customer kill time |
| − | <img src="https://static.igem.org/mediawiki/2019/4/49/T--USTC-Software--downside2.png" alt="">
| + | and subtly teach them some aspects of synthetic biology. Thus we can make complex scientific information flow into the community. |
| − | </div>
| + | |
| − | We first considered to support a wild and customized searching function based on the optimization of
| + | |
| − | databases. After a job done by UESTC-Software in 2018, we wanted to do some upgrade of the scale of | + | |
| − | databases.
| + | |
| | <br> | | <br> |
| − | Then we visited Wenfei Yu, the leader of team USTC in 2018, and got acknowledged about some common databases | + | It's really marvelous that more and more people will start learning with games and coffee. |
| − | used in Syn-Biology and their shortcomings. Also, we became aware of cobrapy, a tool that offers several
| + | |
| − | APIs to do FBA.
| + | |
| − | <br>
| + | |
| − | To help us, USTC 2019 team gave us a hand, which enabled us to be instantly familiar with cobra. <br>
| + | |
| − | <div class="text-center psgImg">
| + | |
| − | <img src="https://static.igem.org/mediawiki/2019/3/34/T--USTC-Software--hp_cobra.jpg" alt="">
| + | |
| − | </div>
| + | |
| − | </div>
| + | |
| − | <h3>Mid-term: A Change of Emphasis</h3>
| + | |
| − | <h4>Meetup with SYSU 2019 team</h4>
| + | |
| − | <div class="passage">
| + | |
| − | We went to Guangzhou in July and visited the iGEM team of Sun Yat-sen University. In the meetup, we
| + | |
| − | introduced our projects to each other. At that time, we devoted ourselves to optimize our database which was
| + | |
| − | at a great scale and then linking the output to FBA’s input. However, our idea hadn’t been fully approved by
| + | |
| − | the SYSU team and their professor. They put forward that out idea about optimizing massive databases was not
| + | |
| − | targeted for Synthetic Biology. In other words, there was a bias in our aim, for the work done to optimize
| + | |
| − | the databases will distract us to design FBA workflow and its efficiency.
| + | |
| − | <br>
| + | |
| − | In the emergency meeting that night we all admitted that the problem did exist. Then we decided immediately
| + | |
| − | a change of emphasis of our project, which would more concentrated on the optimization of FBA and the whole
| + | |
| − | framework.
| + | |
| − | | + | |
| − | </div>
| + | |
| − | <h4>Discussion with upperclassmen</h4>
| + | |
| − | <div class="passage">
| + | |
| − | He helped us tease out our whole project and his clear thinking impressed us very much. He then raised a
| + | |
| − | question that whether we can provide a recommendation of Biobricks when we end up giving graphs of analysis.
| + | |
| − | For example, if modifications and analysis had been done to the user's model based on E. coli, the
| + | |
| − | researcher can immediately be acknowledged by our system which Biobricks he or she can use. After more
| + | |
| − | discussion, we found it would be a pretty useful function. So we decided to append our system with a micro
| + | |
| − | recommendation system for proper Biobricks. <br>
| + | |
| − | <div class="text-center psgImg">
| + | |
| − | <img src="https://static.igem.org/mediawiki/2019/4/42/T--USTC-Software--hp_upperclassman.jpg" alt="">
| + | |
| − | </div>
| + | |
| − | </div>
| + | |
| − | <h3>CCIC: Weighing and Cooperating</h3>
| + | |
| − | <div class="passage">
| + | |
| − | CCic, which stands for the Conference of China iGEMer Community, is the biggest synthetic biology conference
| + | |
| − | in China. This year we had a wonderful time there in Shenzhen. We did presentations and our idea was
| + | |
| − | evaluated by many experts and lovers in the field of synthetic biology. There we were encouraged to expand
| + | |
| − | our project to a platform, using which users can share their models, and see the history of modifying. It
| + | |
| − | enriched our project, made it closer to a mature one.
| + | |
| − | <br>
| + | |
| − | <div class="psgImg text-center">
| + | |
| − | <img src="https://static.igem.org/mediawiki/2019/8/8a/T--USTC-Software--hp_meetinccic.jpg" alt="">
| + | |
| − | </div>
| + | |
| − | </div>
| + | |
| − | <h4>Communication with Tongji 2019</h4>
| + | |
| − | <div class="passage">
| + | |
| − | After our presentation, teammates of Tongji 2019 found us and asked whether we can offer some more specific
| + | |
| − | suggestions, for their project was related to increasing generation rate of products of fermentation.
| + | |
| − | After knowing that we can only analyze changes of major metabolites’ flux, they were quite disappointed. We
| + | |
| − | talked to the professors and some senior students there at CCIC and they approved our design. For "it is not
| + | |
| − | unnecessary for a researcher who does flux analysis to do this job, for it should be considered during
| + | |
| − | experimental design. Your analysis of flux major metabolites is much more useful in a generative perspective
| + | |
| − | and considering the accuracy."
| + | |
| − | </div>
| + | |
| − | <h4>Cooperating with UESTC-Software</h4>
| + | |
| − | <div class="passage">
| + | |
| − | During the communication with UESTC-Software 2019, we came up with the idea to build our recommendation
| + | |
| − | system base on their well-handled data, for they had done a great job in collecting data and optimizing
| + | |
| − | databases. We then reached cooperation with each other and the first time opened up collaboration lying
| + | |
| − | deeply in the projects of iGEM Software Teams.
| + | |
| − | </div>
| + | |
| − | <h3>The Test Run</h3>
| + | |
| − | <h4>With USTC 2019</h4>
| + | |
| − | <div class="passage">
| + | |
| − | Team USTC has always been enthusiastic to help us test our tool and improve our project. We had done several
| + | |
| − | tests together, during which some small functions, such as optimizations with the display of graphs in the
| + | |
| − | output, comparisions between different but alike models and polishing UI of the interface, were added in.
| + | |
| − | </div>
| + | |
| − | <h4>With SJTU-Software 2019</h4>
| + | |
| − | <div class="passage">
| + | |
| − | unfinished yet
| + | |
| − | </div>
| + | |
| − | <h2 class="ref">References</h2>
| + | |
| − | <div class="ref-list">
| + | |
| − | <ul>
| + | |
| − | <li>1. https://www.ncbi.nlm.nih.gov</li>
| + | |
| − | <li>2. https://2018.igem.org/Team:UESTC-Software/Description</li>
| + | |
| − | </ul>
| + | |
| | </div> | | </div> |
| | </div> | | </div> |
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| − | <link href="https://2019.igem.org/Template:USTC-Software/css/autoMenu?action=raw&ctype=text/css" rel="stylesheet"> | + | <!--<link href="https://2019.igem.org/Template:USTC-Software/css/autoMenu?action=raw&ctype=text/css" rel="stylesheet">--> |
| − | <script src="https://2019.igem.org/Template:USTC-Software/js/autoMenu?action=raw&ctype=text/javascript"></script> | + | <!--<script src="https://2019.igem.org/Template:USTC-Software/js/autoMenu?action=raw&ctype=text/javascript"></script>--> |
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| | </html> | | </html> |
