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| − | {{Newcastle/navbar}} | + | {{Newcastle/navbar2}} |
| | <html> | | <html> |
| | <head> | | <head> |
| − | <title>Alternative Roots/Attributions</title> | + | <title>Alternative Roots/Software</title> |
| | </head> | | </head> |
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| | <!-- home | | <!-- home |
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| − | <section id="home" class="s-home target-section" data-parallax="scroll" data-image-src="https://static.igem.org/mediawiki/2018/9/96/T--Newcastle--SoftHeader.jpeg"> | + | <section id="home" class="s-home target-section" data-parallax="scroll" data-image-src="https://static.igem.org/mediawiki/2018/f/fb/T--Newcastle--SoftwareCover.png"> |
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| − | Attributions,<br>
| + | Software Overview |
| − | Acknowledgements & Sponsors <br>
| + | |
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| | </h1> | | </h1> |
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| | <div class="home-content__buttons"> | | <div class="home-content__buttons"> |
| − | <a href="#Attributions" class="smoothscroll btn btn--stroke"> | + | <a onclick="location.href='https://2018.igem.org/Team:Newcastle/Software/OT'" class="smoothscroll btn btn--stroke"> |
| − | Attributions | + | OpenTrons |
| | </a> | | </a> |
| − | <a href="#Acknowledgements" class="smoothscroll btn btn--stroke"> | + | <a onclick="location.href='https://2018.igem.org/Team:Newcastle/Software/NH1'" class="smoothscroll btn btn--stroke"> |
| − | Acknowledgements
| + | NH-1 |
| − | </a>
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| − | <a href="#sponsors" class="smoothscroll btn btn--stroke">
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| − | Sponsors | + | |
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| − | <div class="home-content__scroll">
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| − | <a href="#Attributions" class="scroll-link smoothscroll">
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| − | <span>Scroll Down</span>
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| − | <!-- services
| + | <!-- about |
| − | ================================================== -->
| + | ================================================== --> |
| − | <section id='Attributions' class="s-services">
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| | + | <section id='Opentrons' class="s-services"> |
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| | <div class="row section-header has-bottom-sep" data-aos="fade-up"> | | <div class="row section-header has-bottom-sep" data-aos="fade-up"> |
| | <div class="col-full"> | | <div class="col-full"> |
| − | <h3 class="subhead">2018 Newcastle iGEM</h3> | + | <h3 class="subhead"></h3> |
| − | <h1 class="display-2">ATTRIBUTIONS</h1> | + | <h1 class="display-1">Overview</h1> |
| | </div> | | </div> |
| | </div> <!-- end section-header --> | | </div> <!-- end section-header --> |
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| − | <div class="row services- list block- 1- 2 block-tab-full"> | + | <div class="row about- desc" data- aos="fade- up"> |
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| − | <div class="col-block service-item" data-aos="fade-up">
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| − | <div class="service-icon">
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| − | <i class="icon-paint-brush"></i>
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| − | </div>
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| − | <div class="service-text">
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| − | <h3 class="h2">Initial Project Idea</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Lewis Tomlinson</li>
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| − | <li>Connor Trotter</li>
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| − | <li>Chris Carty</li>
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| − | <li>Frank Eardley</li>
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| − | <li>Heather Bottomley</li>
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| − | <li>Luke Waller</li>
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| − | <li>Patrycja Ubysz</li>
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| − | <li>Umar Farooq</li>
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| − | <li>Will Tankard</li>
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| − | <li>Sadiya Quazi</li>
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| | | | |
| − | </ul> | + | <p style="font-size:100%">A significant proportion of the Alternative Roots project was based on software, whether that was for automation of experiments via the Opentrons OT-2 or small-scale plant growth via our NH-1. Both systems were carefully programmed by our team for efficiency and reliability.</p> |
| − | </div>
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| − | </div>
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| − | <div class="col-block service-item" data-aos="fade-up">
| + | <p style="font-size:100%">Newcastle were fortunate to win an Opentrons OT-2 liquid-handling robot in 2018. The OT-2 is programmed in Python and is equipped with two pipettes capable of pipetting between 1 and 300 µL as well as a temperature module, capable of maintaining temperatures between 0-100 °C. We have created and deposited code that allows OT-2 users to automate small-scale (100 µL) heat-shock transformations of <i>E. coli</i>. The value of this code was demonstrated when it was used to perform a statistical ‘Definitive Screening Design’ screen to examine the impact that transformation buffers have on transformation efficiency. As a result, we identified a new buffer composition with 10-fold improved transformation efficiency. Perhaps more importantly, the combination of the code and the robot resulted in greater reliability than the manual protocol.</p> |
| − | <div class="service-icon">
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| − | <i class="icon-group"></i> | + | <br> |
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| − | <h3 class="h2">Project Support</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
| + | |
| − | <li>Dr. Thomas Howard</li>
| + | |
| − | <li>Dr. Jon Marles-Wright</li>
| + | |
| − | <li>Dr. Jem Stach</li>
| + | |
| − | <li>Dr. Alice Banks</li>
| + | |
| − | <li>Dr. Colette Whitfield</li>
| + | |
| − | <li>Jasmine Bird</li>
| + | |
| − | <li>Alba Iglesias-Vilches</li>
| + | |
| − | <li>Dr. Maxim Kapralov</li>
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| − | <li>Dr. Maria Del Carmen Montero-Calasanz</li>
| + | |
| − | <li>Dr. Vasilios Andriotis</li>
| + | |
| − | </ul>
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| | </div> | | </div> |
| | </div> | | </div> |
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| − | <i class="icon-megaphone"></i>
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| − | </div>
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| − | <div class="service-text">
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| − | <h3 class="h2">Chemotaxis</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Connor Trotter</li>
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| − | <li>Sadiya Quazi</li>
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| − | <li>Lewis Tomlinson</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <i class="icon-cube"></i>
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| − | </div>
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| − | <div class="service-text">
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| − | <h3 class="h2">Endophyte Development</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Lewis Tomlinson</li>
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| − | <li>Frank Eardley</li>
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| − | <li>Luke Waller</li>
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| − | </ul>
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| − | </div>
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| − | <i class="icon-earth"></i>
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| − | <h3 class="h2">Operon Development</h3>
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Heather Bottomley</li>
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| − | <li>Patrycja Ubysz</li>
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| − | </ul>
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| − | <h3 class="h2">Wiki Development</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Will Tankard</li>
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| − | <li>Umar Farooq</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <div class="col-block service-item" data-aos="fade-up">
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| − | <div class="service-icon"><i class="icon-lego-block"></i></div>
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| − | <div class="service-text">
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| − | <h3 class="h2">Hardware</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Umar Farooq</li>
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| − | <li>Luke Waller</li>
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| − | <li style="padding-right: 120px;">Chris Carty</li>
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| − | <li>Lewis Tomlinson</li>
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| − |
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <div class="col-block service-item" data-aos="fade-up">
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| − | <div class="service-icon"><i class="icon-lego-block"></i></div>
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| − | <div class="service-text">
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| − | <h3 class="h2">Software</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Umar Farooq</li>
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| − | <li>Luke Waller</li>
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| − | <li>Frank Eardley</li>
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| − | <li>Matthew Burridge</li>
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| − | </ul>
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| − | </div>
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| − | <div class="service-icon"><i class="icon-lego-block"></i></div>
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| − | <h3 class="h2">Biosynthesis Pathway Modelling</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Frank Eardley</li>
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| − | <li>Luke Waller</li>
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| − | <li>Umar Farooq</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <h3 class="h2">Interlab Study</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Kyle Stanforth</li>
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| − | <li>Sam Went</li>
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| − | <li style="padding-right: 120px;">Matthew Burridge</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <div class="service-icon"><i class="icon-lego-block"></i></div>
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| − | <h3 class="h2">Community Modelling</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li style="padding-right: 120px;">Patrycja Ubysz</li>
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| − | <li>Connor Trotter</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <div class="col-block service-item" data-aos="fade-up">
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| − | <div class="service-icon"><i class="icon-lego-block"></i></div>
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| − | <h3 class="h2">Outreach and Engagement</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Heather Bottomley</li>
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| − | <li>Will Tankard</li>
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| − |
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <div class="col-block service-item" data-aos="fade-up">
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| − | <div class="service-icon"><i class="icon-lego-block"></i></div>
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| − | <div class="service-text">
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| − | <h3 class="h2">Human Practices</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Will Tankard</li>
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| − | <li style="padding-right: 120px;">Chris Carty</li>
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| − | <li>Lewis Tomlinson</li>
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| − | <li>Umar Farooq</li>
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| − | <li>Luke Waller</li>
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| − | </ul>
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| − | <h3 class="h2">Branding & Merchandise</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible;">
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| − | <li>Chris Carty</li>
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| − | <li style="padding-right: 120px;">Umar Farooq</li>
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| − | <li>Will Tankard</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | </div> <!-- end services-list -->
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| | </section> <!-- end s-services --> | | </section> <!-- end s-services --> |
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| | + | <section id='team' class="s-services"> |
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| − | <!-- works
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| − | ================================================== -->
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| − | <section id='Acknowledgements' class="s-works">
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| − | <div class="intro-wrap"> | + | <div class="row section-header has-bottom-sep" data-aos="fade-up"> |
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| − | <div class="row section-header has-bottom -sep light-sep" data-aos="fade-up"> | + | |
| | <div class="col-full"> | | <div class="col-full"> |
| − | <h3 class="subhead">Additional Support</h3>
| + | <br> |
| − | <h1 class="display-2 display-2--light">ACKNOWLEDGEMENTS</h1>
| + | <br> |
| − | <font size="4" font face="verdana" font color="white">We would like to thank these people for helping us along the way. We have been supported by people from a diverse range of disciplines in every aspect of our project. </font>
| + | <br> |
| − | </div>
| + | <br> |
| | + | <h3 class="subhead"></h3> |
| | + | <h1 class="display-2">References & Attributions</h1> |
| | </div> | | </div> |
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| − | <div class="row services-list block-1-2 block-tab-full"> | + | </div> |
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| − | <div class="col-block service-item" data-aos="fade-up">
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| − | <div class="service-icon">
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| − | <i class="icon-paint-brush"></i>
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| − | </div>
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| − | <div class="service-text">
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| − | <h3 class="h2"style="color:white">Induction Talks</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible; color:white;">
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| − | <li>Dr. Jem Stach</li>
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| − | <li>Dr. Jon Marles-Wright</li>
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| − | <li>Dr. Thomas Howard</li>
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| − | <li>Dr. Kenneth Taylor</li>
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| − | <li>Dr. Harold Fellermann</li>
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| − | <li>Dr. Martyn Dade-Robertson</li>
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| − | <li>Professor Rachel Armstrong</li>
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| − | <li>Professor Phillip Wright</li>
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| − | <li>Dr. Dana Ofiteru</li>
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| − | <li>Dr. Maxim Kapralov</li>
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| − | <li>Dr. Angel Goni-Moreno</li>
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| − | <li>Dr. Nicholas Aldred</li>
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| − | <li>Dr. Vasilios Andriotis</li>
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| − | <li>Dr. Ilke Turkmendag</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | <div class="col-block service-item" data-aos="fade-up">
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| − | <div class="service-icon">
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| − | <i class="icon-paint-brush"></i>
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| − | </div>
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| − | <div class="service-text">
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| − | <h3 class="h2"style="color:white">Subject Specific Support</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible; color:white;">
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| − | <li>Dr. Alice Banks (Chemotaxis)</li>
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| − | <li>Dr. Maria Del Carmen Montero-Calasanz (Endophyte Development)</li>
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| − | <li>Bradley Brown (Wiki Development/Community Modelling))</li>
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| − | <li>Josh Isaac (Biosynthesis Pathway Modelling)</li>
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| − | <li>Aidan Clamp (Biosynthesis Pathway Modelling)</li>
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| − | <li>Connor Barker (Biosynthesis Pathway Modelling)</li>
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| − | <li>Dr. Martyn Dade-Robertson (Human Practices)</li>
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| − | <li>Professor Rachel Armstrong (Human Practices)</li>
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| − | </ul>
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| − | </div>
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| − | <i class="icon-paint-brush"></i>
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| − | </div>
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| − | <div class="service-text">
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| − | <h3 class="h2"style="color:white">Stakeholder Engagement</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible; color:white;">
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| − | <li>Professor Chris Tapsell (KWS Seeds)</li>
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| − | <li>Richard Ballard (Growing Underground)</li>
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| − | <li>Steve Dring (Growing Underground)</li>
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| − | <li>Tom Webster (GrowUp Urban Farms)</li>
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| − | <li>Nicola Cowell (Food Nation)</li>
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| − | <li>Paul Brown (GrowModule 365)</li>
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| − | <li>Clive Goodwin (Victoria Tunnels)</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| − | </div>
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| − | <div class="service-text">
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| − | <h3 class="h2"style="color:white">Newcastle University Farms</h3>
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| − | <!--<img src="">-->
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| − | <ul style="list-style-type:circle;overflow:visible; color:white;">
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| − | <li>Dr. Ankush Prashar</li>
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| − | <li>James Standen</li>
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| − | <li>Rachel Chapman</li>
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| − | </ul>
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| − | </div>
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| − | </div>
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| | | | |
| − | <!-- end section-header -->
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| − | </div> <!-- end intro-wrap -->
| + | <button class="collapsible">Click for References & Attributions</button> |
| − | </section> <!-- end s-works -->
| + | <div class="content"> |
| | + | <div class="row about-desc" data-aos="fade-up"> |
| | + | <div class="col-full"> |
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| | + | <p class="about-para"><font size="2"><strong>Attributions: Umar Farooq |
| | + | </strong><font></p> |
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| − | <div class="row section-header" data-aos="fade-up">
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| − | <div class="col-full">
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| − | <h3 class="subhead">Our Sponsors</h3>
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| − | <h1 class="display-2">SPONSORS</h1>
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| − | </div>
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| − | </div> <!-- end section-header -->
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| − | <a href="#sponsors" title="" class="clients__slide"><img src="https://static.igem.org/mediawiki/2018/thumb/6/65/T--Newcastle--SAgELogo.png/600px-T--Newcastle--SAgELogo.png" /></a>
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| − | <a href="https://bbsrc.ukri.org/" title="" class="clients__slide"><img src="https://static.igem.org/mediawiki/2018/thumb/2/21/T--Newcastle--BBSRCSquare.png/600px-T--Newcastle--BBSRCSquare.png"></a>
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| − | <a href="https://wellcome.ac.uk/home" title="" class="clients__slide"><img src="https://static.igem.org/mediawiki/2018/thumb/b/be/T--Newcastle--Wellcomelogo.png/600px-T--Newcastle--Wellcomelogo.png"/></a>
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| − | <a href="https://www.idtdna.com/pages" title="" class="clients__slide"><img src="https://static.igem.org/mediawiki/2018/thumb/1/10/T--Newcastle--IDTLogo.png/600px-T--Newcastle--IDTLogo.png" /></a>
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| − | <a href="https://www.ncl.ac.uk/sage/" title="" class="clients__slide"><img src="https://static.igem.org/mediawiki/2018/thumb/4/42/T--Newcastle--Ibidi.png/600px-T--Newcastle--Ibidi.png" /></a>
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| − | <a href="http://opentrons.com/" title="" class="clients__slide"><img src="https://static.igem.org/mediawiki/2018/thumb/9/9a/T--Newcastle--OpenTronsLogoPNG.png/600px-T--Newcastle--OpenTronsLogoPNG.png" /></a>
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| − | <a href="https://seedcell.co.uk/" title="" class="clients__slide"><img src="https://static.igem.org/mediawiki/2018/thumb/8/86/T--Newcastle--SeedCellSquare2.png/600px-T--Newcastle--SeedCellSquare2.png" /></a>
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| − | </div> <!-- end clients -->
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| − | <div class="row clients-testimonials" data-aos="fade-up">
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| − | <div class="col-full">
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| − | <div class="testimonials">
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| − | <div class="testimonials__slide">
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| − |
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| − | <p>The iGEM Foundation is an independent, non-profit organization dedicated to the advancement of synthetic biology, education and competition,
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| − | and the development of an open community and collaboration. This is done by fostering an open, cooperative community and friendly competition.</p>
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| − |
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| − | <img src="https://static.igem.org/mediawiki/2018/thumb/b/bb/T--Newcastle--iGEMGrey.png/600px-T--Newcastle--iGEMGrey.png" alt="Author image" class="testimonials__avatar">
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| − | <div class="testimonials__info">
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| − | <span class="testimonials__name"></span>
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| − | <span class="testimonials__pos"></span>
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| − | </div>
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| − | </div>
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| − |
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| − | <div class="testimonials__slide">
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| − | <p>iGEMers are building a better world by solving problems with the help of synthetic biology.
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| − | We inspire responsible innovation through our efforts in biosafety, biosecurity and public outreach.</p>
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| − |
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| − | <img src="https://static.igem.org/mediawiki/2018/thumb/b/bb/T--Newcastle--iGEMGrey.png/600px-T--Newcastle--iGEMGrey.png" alt="Author image" class="testimonials__avatar">
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| − | <div class="testimonials__info">
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| − | <span class="testimonials__name"></span>
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| − | <span class="testimonials__pos"></span>
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| − | </div>
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| − | <div class="testimonials__slide">
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| − | <p> This global network is leading the field, taking what they learned in the competition and expanding it to continue to build a better world.</p>
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| − |
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| − | <img src="https://static.igem.org/mediawiki/2018/thumb/b/bb/T--Newcastle--iGEMGrey.png/600px-T--Newcastle--iGEMGrey.png" alt="Author image" class="testimonials__avatar">
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| − | <div class="testimonials__info">
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| − | <span class="testimonials__name"></span>
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| − | <span class="testimonials__pos"></span>
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| − | </div>
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| − | </div>
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