Difference between revisions of "Team:Fudan-TSI/Attributions"

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This html document is created by Tian Huang for Team Fudan iGEM 2018.
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We make it compatible on laptop and mobile devices by using Materialize 1.0.0-rc.2.
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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://2019.igem.org/Judging/Medals">medal criterion</a> or <a href="https://2019.igem.org/Judging/Awards"> award listed below</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://2019.igem.org/Judging/Pages_for_Awards"> Instructions for Pages for awards</a>.</p>
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<div class="column full_size">
 
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<h1>Attributions</h1>
 
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<p>This page is your opportunity to explain what parts of your project you did and what was done by technicians, advisers, etc. This requirement is not about literature references - these can and should be displayed throughout your wiki.
 
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</p>
 
  
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<h3> Bronze Medal Criterion #3</h3>
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<p> All of the work done in your project must be attributed correctly on this page. You must clearly state the work that was done by the students on your team and note any work that was done by people outside of your team, including the host labs, advisors, instructors, and individuals not on the team roster.
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Please see the <a href="https://2019.igem.org/Judging/Medals">Medals requirements page</a> for more details.</p>
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    <title>2019 Team:Fudan -Attributions</title>
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</head>
  
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<body>
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<!-- Fudan div at igem.org -->
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<div id="FudanWrapper" class="white">
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<h3> What should this page contain?</h3>
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<ul>
 
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<li>Clearly state what the team accomplished</li>
 
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<li>General Support</li>
 
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<li>Project support and advice</li>
 
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<li>Fundraising help and advice</li>
 
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<li>Lab support</li>
 
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<li>Difficult technique support</li>
 
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<li>Project advisor support</li>
 
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<li>Wiki support</li>
 
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<li>Presentation coaching</li>
 
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<li>Human Practices support</li>
 
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<li> Thanks and acknowledgements for all other people involved in helping make a successful iGEM team</li>
 
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</ul>
 
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</div>
 
  
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<div class="column third_size">
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            <div id="contentBanner" class="figureBanner orangeBg">
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<p>Tell us if your institution teaches an iGEM or synthetic biology class and when you started your project:</p>
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                <div class="row">
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<ul>
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                    <div class="col s12 hide-on-med-and-up">
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<li>Does your institution teach an iGEM or synthetic biology course?</li>
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                        <h1>Attributions</h1>
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<li>When did you start this course?</li>
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                    </div>
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<li>Are the syllabus and course materials freely available online?</li>
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                    <div class="col s12 hide-on-med-and-up">
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<li>When did you start your brainstorming?</li>
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                        <span>Unity is strength... when there is teamwork and collaboration, wonderful things can be achieved.</span>
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<li>When did you start in the lab?</li>
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                    </div>
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<li>When did you start working on  your project?</li>
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                </div>
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</ul>
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                <div id="figureBannerTitle" class="hide-on-small-only">
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</div>
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                    <h1>Attributions</h1>
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                    <p><span>Unity is strength... when there is teamwork and collaboration, wonderful things can be achieved.</span></p>
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                </div>
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                <div class="hide-on-small-only">
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                    <img alt="2018 team Fudan title attributions" src="https://static.igem.org/mediawiki/2018/5/5f/T--Fudan--title_attri.jpg">
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            </div>
  
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            <!-- main content of the page -->
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            <div class="container">
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                <!-- side navigator of page content -->
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                <main style="margin: 0;">
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                    <div class="section container">
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                        <h2>Project design</h2>
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                        <p>
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                            Zijie Yang and Dr. Cai, through discussions, came up with the first draft of <a href="/Team:Fudan-TSI/Results" target="_blank">3-layer</a> transmembrane logic gates with mutual effort, Ziyan Yu, through literal reading, designed the experiments to <a href="/Team:Fudan-TSI/Optimization" target="_blank">optimize</a> <a href="/Team:Fudan-TSI/Basic_Part" target="_blank">the Notch core</a>. Everyone on the team contributed to the improvement of the project.
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                        </p>
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                        <h2>Experiment</h2>
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                        <p>Based on <a href="https://2017.igem.org/Team:Fudan" target="_blank">previous experience</a> designing genetic circuits response to different input densities, Zijie Yang and Ziyan Yu came up with the genetic circuits for the project. Dr. Cai gave comments and provided several references aiding the improvement.
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                        </p>
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                        <p>Ziyan Yu, Chuyue Zhang, Yuyan Zeng, and Rongrong Du were responsible for the majority of <a href="/Team:Fudan-TSI/Protocols" target="_blank">molecular cloning</a>. Fangfei Ye, Mitchell Wan, and Jingbo Fu assisted in some molecular cloning.
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                        </p>
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                        <p>
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                            Zijie and Ziyan conducted cell culture, transient transfection, and <a href="/Team:Fudan-TSI/Measurement" target="_blank">flow cytometry analysis</a>. Zijie constructed the stable cell lines using retroviral infection and cell sorting.
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                        </p>
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                        <p>
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                            Rongrong purified EGFP protein, attached the protein to beads, which were used in our shaking test for SynNotch activation.
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                        </p>
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                        <p>
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                            Dr. Cai provided numerous suggestions and advice on experimental design and data analysis.
 +
                        </p>
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                        <p>
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                            Mitchell conducted the Addon thought experiments (<a href="/Team:Fudan-TSI/Addon#ribo" target="_blank">ribo</a>, <a href="/Team:Fudan-TSI/Addon#TALE" target="_blank">TALE</a>, and <a href="/Team:Fudan-TSI/Addon#T2" target="_blank">T2</a>) with advice from Dr. Cai.
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                        </p>
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                        <h2>InterLab</h2>
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                        <p>
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                            Mitchell Wan completed <a href="/Team:Fudan-TSI/Interlab" target="_blank">the experiments</a> with help from Zijie Yang and people from iGEM team <a href="https://2018.igem.org/Team:Fudan-CHINA" target="_blank">Fudan-CHINA</a>.
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                        </p>
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                        <h2>Model</h2>
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                        <p>Yiheng Wang came up with the model on <a href="/Team:Fudan-TSI/Model#Transcriptional_Amplifer" target=_blank>transcriptional amplifier</a>.</p>
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                        <p>
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                            Lingwei Zhang simulated <a href="/Team:Fudan-TSI/Model#NotchLigandkinetics" target="_blank">multi-cell interactions and evolution</a> with a population perspective. Lingwei also built our <a href="/Team:Fudan-TSI/Software" target="_blank">software</a> based on his modeling results.
 +
                        </p>
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                        <p>
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                            Zijie Yang and Yijie Pan provided suggestions to different details in our modeling.
 +
                        </p>
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                        <h2>Software</h2>
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                        <p>
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                            Lingwei Zhang wrote up our <a href="/Team:Fudan-TSI/Software" target="_blank">software</a>.
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                        </p>
 +
                        <h2>Integrated HP</h2>
 +
                        <p>
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                            Jingbo Fu, Yuyan Zeng, Fangfei Ye, and Rongrong Du made huge efforts in advertising our project and <a href="/Team:Fudan-TSI/Human_Practices" target="_blank">human practice activities</a> to the public.
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                        </p>
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                        <p>
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                            Jingbo led the surveys, organized the <a href="/Team:Fudan-TSI/Human_Practices#section1" target="_blank">interviews</a> with researchers and doctors. Everyone on the team heartily helped and participated in various HP events.
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                        </p>
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                        <p>
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                            Zijie Yang and Ziyan Yu invited Prof. Blacklow to Fudan University, and accompany his visit.
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                        </p>
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                        <p>
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                            Jingbo and Yuyan kept in contact with <a href="/Team:Fudan-TSI/Public_Engagement#section1" target="_blank">high schools</a>, organizers responsible for the summer camp, and other undergraduate students. They led our presentations for them, and everyone on the team participated actively.
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                        </p>
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                        <p>
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                            Jingbo designed and trained high school students from Qibao Dwight High School during this summer, also organized the multi-disciplinary <a href="/Team:Fudan-TSI/Public_Engagement#section4" target="_blank">debate</a> on project safety and ethical topics.
 +
                        </p>
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                        <p>
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                            Fangfei planned and assembled the <a href="/Team:Fudan-TSI/Bio-Art" target="_blank">Bio-Art Display</a> and everyone on the team took part in making the Display come true.
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                        </p>
 +
                        <h2>Art design</h2>
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                        <p>
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                            Fangfei Ye is responsible for all <a href="/Team:Fudan-TSI/Design_Intention" target="_blank">art design</a>, which includes our team logo, team flag, team uniform (Dr. Cai gave comments), team name card, brochures, our posters, as well as materials related to our human practice events.
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                        </p>
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                        <h2>Wiki</h2>
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                        <p>
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                            Tian Huang built the wiki template with Materialize framework. Fangfei Ye and Tian coded the site, while rest of the team worked on content write-up. Dr. Cai gave comments on the coding and writeup.
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                        </p>
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                        <h2>Support</h2>
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                        <p>
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                            Dr. Lu and Dr. Cai secured the primary funding for the team. Dr. Cai provided the lab space. All team members participated in the crowdfunding campaign.</p>
  
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<div class="highlight decoration_A_full">
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<h3>Inspiration</h3>
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                </main>
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<p>Take a look at what other teams have done:</p>
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            </div>
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<ul>
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<li><a href="https://2011.igem.org/Team:Imperial_College_London/Team">2011 Imperial College London</a> (scroll to the bottom)</li>
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<li><a href="https://2014.igem.org/Team:Exeter/Attributions">2014 Exeter </a></li>
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<li><a href="https://2014.igem.org/Team:Melbourne/Attributions">2014 Melbourne </a></li>
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<li><a href="https://2014.igem.org/Team:Valencia_Biocampus/Attributions">2014 Valencia Biocampus</a></li>
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</ul>
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</div>
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</div>
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            <!--Abstract on content page-->
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            <div id="abstractContent" class="z-depth-2">
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                <a href="#!"><img alt=alt="project summary" src="https://static.igem.org/mediawiki/2018/9/96/T--Fudan--X.svg"></a>
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                <div class="container">
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                    <h2 style="margin: 0;padding: 10px 0;">Project Summary</h2>
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                    <p style="margin: 0">Contact-dependent signaling is critical for multicellular biological
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                        events, yet customizing contact-dependent signal transduction between
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                        cells remains challenging. Here we have developed the ENABLE toolbox, a
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                        complete set of transmembrane binary logic gates. Each gate consists of
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                        3 layers: Receptor, Amplifier, and Combiner. We first optimized synthetic
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                        Notch receptors to enable cells to respond to different signals across the
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                        membrane reliably. These signals, individually amplified intracellularly by
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                        transcription, are further combined for computing. Our engineered zinc finger-based
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                        transcription factors perform binary computation and output designed products.
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                        In summary, we have combined spatially different signals in mammalian cells,
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                        and revealed new potentials for biological oscillators, tissue engineering,
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                        cancer treatments, bio-computing, etc. ENABLE is a toolbox for constructing
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                        contact-dependent signaling networks in mammals. The 3-layer design principle
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                        underlying ENABLE empowers any future development of transmembrane logic circuits,
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                        thus contributes a foundational advance to Synthetic Biology.
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                    </p>
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                </div>
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            </div>
  
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            <!-- Floating Btns -->
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            <div class="floatingBtn">
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                <a href="#!" id="abstractBtn" class="btn">
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                    <i class="fa fa-sticky-note" style="font-size: 30px;line-height: 50px"></i>
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                </a>
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                <a href="#FudanWrapper" class="btn">
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                    <i class="fa fa-angle-up" style="font-size: 48px;line-height: 45px"></i>
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                </a>
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            </div>
  
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            <!-- Footer with sponsors and contact methods -->
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            <footer id="FudanFooter" class="page-footer grey">
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                <div class="container">
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                    <div class="row">
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                        <div id="sponsor" class="col m3 s12 row">
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                            <a href="https://2018.igem.org/Team:Fudan" target="_blank"><img alt="2018 Team:Fudan logo white" class="col s3 m6 l3" style="position:relative; padding: 0 0.3rem; margin:-0.15rem 0; left: -0.45rem;" src="https://static.igem.org/mediawiki/2018/7/73/T--Fudan--teamLogoWhite.png">
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                            </a><a href="http://www.fudan.edu.cn/en/" target="_blank"><img class="col s3 m6 l3" alt="Fudan University" src="https://static.igem.org/mediawiki/2018/f/f7/T--Fudan--schoolLogo.png">
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                        </a><a href="http://life.fudan.edu.cn/" target="_blank"><img class="col s3 m6 l3" style="margin-bottom: 4%;/* 该图比其他小一点，排版需要 */" alt="School of Life Sciences, Fudan University" src="https://static.igem.org/mediawiki/2018/1/1d/T--Fudan--schoolOfLifeSciencesIcon.png">
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                            <h3 class="col s12" style="text-align: left; color: rgba(255, 255, 255, 0.8); font-size: 18px">ENABLE: making cells even smarter</h3>
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                                        <li><a href="/Team:Fudan-TSI/Basic_Part">Basic parts</a></li>
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                                        <li><a href="/Team:Fudan-TSI/Safety">Safety</a></li>
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                                        <li><a href="/Team:Fudan-TSI/Software">Software</a></li>
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                                        <li><a href="/Team:Fudan-TSI/Collaborations">Collaborations</a></li>
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                                        <li><a href="/Team:Fudan-TSI/HP">Why we do this</a></li>
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                                    <span>Team</span>
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                                        <li><a href="/Team:Fudan-TSI/Attributions">Attributions</a></li>
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Revision as of 06:04, 29 August 2019

<script src="https://ajax.aspnetcdn.com/ajax/jQuery/jquery-1.11.3.min.js"></script> 2019 Team:Fudan -Attributions

Attributions

Unity is strength... when there is teamwork and collaboration, wonderful things can be achieved.

Attributions

Unity is strength... when there is teamwork and collaboration, wonderful things can be achieved.

2018 team Fudan title attributions

Project design

Zijie Yang and Dr. Cai, through discussions, came up with the first draft of 3-layer transmembrane logic gates with mutual effort, Ziyan Yu, through literal reading, designed the experiments to optimize the Notch core. Everyone on the team contributed to the improvement of the project.

Experiment

Based on previous experience designing genetic circuits response to different input densities, Zijie Yang and Ziyan Yu came up with the genetic circuits for the project. Dr. Cai gave comments and provided several references aiding the improvement.

Ziyan Yu, Chuyue Zhang, Yuyan Zeng, and Rongrong Du were responsible for the majority of molecular cloning. Fangfei Ye, Mitchell Wan, and Jingbo Fu assisted in some molecular cloning.

Zijie and Ziyan conducted cell culture, transient transfection, and flow cytometry analysis. Zijie constructed the stable cell lines using retroviral infection and cell sorting.

Rongrong purified EGFP protein, attached the protein to beads, which were used in our shaking test for SynNotch activation.

Dr. Cai provided numerous suggestions and advice on experimental design and data analysis.

Mitchell conducted the Addon thought experiments (ribo, TALE, and T2) with advice from Dr. Cai.

InterLab

Mitchell Wan completed the experiments with help from Zijie Yang and people from iGEM team Fudan-CHINA.

Model

Yiheng Wang came up with the model on transcriptional amplifier.

Lingwei Zhang simulated multi-cell interactions and evolution with a population perspective. Lingwei also built our software based on his modeling results.

Zijie Yang and Yijie Pan provided suggestions to different details in our modeling.

Software

Lingwei Zhang wrote up our software.

Integrated HP

Jingbo Fu, Yuyan Zeng, Fangfei Ye, and Rongrong Du made huge efforts in advertising our project and human practice activities to the public.

Jingbo led the surveys, organized the interviews with researchers and doctors. Everyone on the team heartily helped and participated in various HP events.

Zijie Yang and Ziyan Yu invited Prof. Blacklow to Fudan University, and accompany his visit.

Jingbo and Yuyan kept in contact with high schools, organizers responsible for the summer camp, and other undergraduate students. They led our presentations for them, and everyone on the team participated actively.

Jingbo designed and trained high school students from Qibao Dwight High School during this summer, also organized the multi-disciplinary debate on project safety and ethical topics.

Fangfei planned and assembled the Bio-Art Display and everyone on the team took part in making the Display come true.

Art design

Fangfei Ye is responsible for all art design, which includes our team logo, team flag, team uniform (Dr. Cai gave comments), team name card, brochures, our posters, as well as materials related to our human practice events.

Wiki

Tian Huang built the wiki template with Materialize framework. Fangfei Ye and Tian coded the site, while rest of the team worked on content write-up. Dr. Cai gave comments on the coding and writeup.

Support

Dr. Lu and Dr. Cai secured the primary funding for the team. Dr. Cai provided the lab space. All team members participated in the crowdfunding campaign.

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Project Summary

Contact-dependent signaling is critical for multicellular biological events, yet customizing contact-dependent signal transduction between cells remains challenging. Here we have developed the ENABLE toolbox, a complete set of transmembrane binary logic gates. Each gate consists of 3 layers: Receptor, Amplifier, and Combiner. We first optimized synthetic Notch receptors to enable cells to respond to different signals across the membrane reliably. These signals, individually amplified intracellularly by transcription, are further combined for computing. Our engineered zinc finger-based transcription factors perform binary computation and output designed products. In summary, we have combined spatially different signals in mammalian cells, and revealed new potentials for biological oscillators, tissue engineering, cancer treatments, bio-computing, etc. ENABLE is a toolbox for constructing contact-dependent signaling networks in mammals. The 3-layer design principle underlying ENABLE empowers any future development of transmembrane logic circuits, thus contributes a foundational advance to Synthetic Biology.