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| - | {{Team:Aachen/Header}} | + | {{Team:Aachen/Stylesheet}} |
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| - | <style>
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| - | #contentSub, #footer-box, #catlinks, #search-controls, #p-logo, .printfooter, .firstHeading,.visualClear {display: none;} /*-- hides default wiki settings --*/
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| - | <!-- here ends the section that changes the default wiki template to a white full width background --> | + | <div style="font-size:300%;color:#0069b8;margin-left:40px;">Cellock Holmes - A Case of Identity</div ><br/> |
| | | | |
| - | <!--====================================================================--> | + | <div style="width:490px;margin-left:40px;margin-right:20px;float:left"> |
| - | <!--====================================================================--> | + | <div style="font-size:175%;margin-top:12px;">Welcome to the iGEM Aachen 2014 Wiki!</div > |
| - | <!--==================== 1ST BLOCK STARTS ==============================--> | + | <p style="margin-left:0px;margin-right:0px;">Until now, an ideal method to detect pathogenic bacteria is still elusive. The existing techniques require expensive equipment, trained personnel or labourious routines. </p> |
| - | <table class="transbg" width="100%" cellspacing="0"> | + | |
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| - | <td></td>
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| - | <td width="975px" align="center">
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| - | <table class="transbg" width="1100px" cellspacing="0"> | + | <p style="margin-left:0px;margin-right:0px;">We, the iGEM team Aachen, have developed a '''novel biosensor system''' called ''Cellock Holmes'' that '''detects bacteria on solid surfaces''' using a low-cost, rapid and portable technique.</p> |
| - | <tr>
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| - | <td class="contentcell" width="95%" height="400px" align="center">
| + | <p style="margin-left:0px;margin-right:0px;">In this project, we demonstrate a unique way of combining '''Open Source biology, software and hardware'''.</p> |
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| + | </div> |
| - | <!--====================================================================-->
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| - | <!--==================== TEXT STARTS HERE ==============================-->
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| - | <h1>
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| - | Welcome to the Teamwiki of the iGEM Aachen in 2014!
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| - | </h1>
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| - | </br>
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| - | </br>
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| - | </br>
| + | |
| - | <h1>
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| - | Cellock Holmes - a case of identity | + | |
| - | </h1>
| + | |
| - | <h2> Nosocomial infections - solving a real-world problem </h2>
| + | |
| - | <img style="float: left; margin: 15px 15px 15px 15px;" src="https://static.igem.org/mediawiki/2014/a/ad/Aachen_Cellock_Rand.png" width="250" /> | + | |
| - | <img style="float: right; margin: 15px 15px 15px 15px;" src="https://static.igem.org/mediawiki/2014/4/4f/Aachen_Cellock_lyingdown.png" width="350" />
| + | |
| - | <p>
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| - | Existing sterilizing methods fail to completely eradicate harmful pathogens on solid surfaces, resulting in a high number of patients (~3.2 million in Europe1) to be treated annually due to such infections. The European Union estimated that at least 800,000 of these cases would be preventable by implementing an intensive hygiene program, raising the necessity for a real-time detection technique. Current techniques fail since they are not effective, economical and rapid2.
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| - | </p>
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| - | <p>
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| - | Our iGEM Aachen team, consisting of life science, engineering as well as computer science students, aims to tackle these difficulties by developing a real-time pathogen detection technique, called ‘Cellock Holmes’, using SynBio and open hardware.
| + | |
| - | </p> | + | |
| - | <p>
| + | |
| - | Our project is not only applicable to the detection of pathogens but we are looking to develop it further into a platform for a general 2D detection of nearly any cell or substance.
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| - | </p>
| + | |
| - | </br></br></br>
| + | |
| | | | |
| - | <h2>
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| - | Strategy and focus
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| - | </h2>
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| - | <p>
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| - | While detection is the first step, characterization and quantification are equally important to reliably assess the danger of an infection.
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| - | </p>
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| - | <p>
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| - | <i> Cellock Holmes </i> is devised based upon a SynBio approach comprising of a <b> two-dimensional biosensor and a measurement device </b>. The two-dimensional biosensor (Figure 1) is designed to recognize quorum sensing molecules secreted by the pathogen cells and generate a distinct fluorescence signal.
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| - | </p>
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| | | | |
| - | <figure style="float: left; margin: 0px 15px 15px 0px;"> | + | <!-- ACHIEVEMENTS --> |
| - | <img src="https://static.igem.org/mediawiki/2014/e/ec/Aachen_Infografik_sampling_biosensor.png" width="700" />
| + | <table style="width:490px;margin-left:20px;margin-right:40px;float:right"> |
| - | <figcaption> | + | <tr><td><div style="font-size:175%;margin-top:12px;">Achievements</div></td></tr> |
| - | <i>Figure 1: Sampling of microorganisms (left) for the detection with a 2D biosensor (right)</i></figcaption> | + | |
| - | </figure>
| + | |
| - | <p>
| + | |
| - | In parallel, the team also aims to develop a more flexible novel molecular detection system for the biosensor based on binding proteins and genetic probes.
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | In parallel, the team also aims to develop a more flexible novel molecular detection system for the biosensor based on binding proteins and genetic probes.
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | These molecular approaches were selected as a reasonable spectrum from the established to novel and high-potential modules.
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | The Aachen team is committed to consider all aspects of the entire project, including biosafety. The living cells inside the measurement device are ensured to be killed by irradiation with strong UV light. In this way neither the sampled pathogens nor the genetically modified sensor cells can escape our biosensor unit.
| + | |
| - | </p>
| + | |
| - | </br></br></br> | + | |
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| - | <!--===================== TEXT ENDS HERE ===============================--> | + | <tr> |
| - | <!--====================================================================--> | + | <td><p style="margin-left:0px;margin-right:20px;overflow:auto;"> To watch our <b>final presentation</b> just click <a href="https://www.youtube.com/watch?v=-pKLyq3BD0k" target="_blank"> here </a>.</p></td> |
| - | <!--====================================================================--> | + | |
| - | </td> | + | |
| | </tr> | | </tr> |
| - | <!-- back to top link -->
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| - | <tr><td></html>{{Team:Aachen/JumpUp}}<html></td></tr>
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| - | </table>
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| - | </td> | + | <tr> |
| - | <td></td> | + | <td><p style="margin-left:0px;margin-right:20px;overflow:auto;">The whole project was awarded <b>Best Measurement Project</b> and won the track.</p></td> |
| | + | <td><img style="margin-bottom:25px;" src="https://static.igem.org/mediawiki/igem.org/0/0a/Icons_measurement.png" width="80px" align="right" /></td> |
| | </tr> | | </tr> |
| - | </table>
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| - | <!--===================== 1ST BLOCK ENDS ===============================-->
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| - | <!--==================== 2ND BLOCK STARTS ==============================-->
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| - | <table class="transbg" width="100%" cellspacing="0">
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| | <tr> | | <tr> |
| - | <td></td> | + | <td><p style="margin-left:0px;margin-right:20px;overflow:auto;">Our image analysis software <i>Measurarty</i> was awarded <b>Best Supporting Software</b> in the overgrad section.</p></td> |
| - | <td width="975px" align="center"> | + | <td><img style="margin-bottom:25px;" src="https://static.igem.org/mediawiki/2014/1/18/Aachen_SupportingSoftware.png" width="80px" align="right" /></td> |
| | + | </tr> |
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| - | <table class="transbg" width="975px" cellspacing="0">
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| | <tr> | | <tr> |
| - | <td class="contentcell" width="95%" height="400px" align="center"> | + | <td><p style="margin-left:0px;margin-right:20px;overflow:auto;">Our work on biosafety was rewarded with the <b>Safety Commendation</b> special award.</p></td> |
| - | <!--====================================================================--> | + | <td><img style="margin-bottom:25px;" src="https://static.igem.org/mediawiki/2014/8/86/Aachen_Icon_Safety.png" width="80px" align="right" /></td> |
| - | <!--====================================================================--> | + | </tr> |
| - | <!--==================== TEXT STARTS HERE ==============================--> | + | |
| - | <h2> | + | |
| - | Modular hardware ‒ Open for versatility
| + | |
| - | </h2> | + | |
| - | <figure style="float: right; margin: 0px 15px 15px 0px;" > | + | |
| - | <img src="https://static.igem.org/mediawiki/2014/3/36/Aachen_Infografik_measuring.png" width="400" />
| + | |
| - | <figcaption>
| + | |
| - | <i>Figure 2 Measurement device based on counting of visual signal density</i></figcaption>
| + | |
| - | </figure> | + | |
| - | <p>
| + | |
| - | By embracing the open hardware approach and using both low- and high-level components such as Arduino microcontrollers and Raspberry Pi, we maximize the measurement device’s versatility.
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | The visual signals generated by the biosensor will be captured by a camera (Figure 2) and analyzed by our measurement software, ‘Measurarty’. The software uses modern region- and graph-cut-based evaluation methods to analyze the data efficiently.
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | The device will be finally tailored to perfectly fit the needs of end users, for example by minimizing the need for electricity.
| + | |
| - | </p>
| + | |
| - | </br></br></br></br></br></br></br></br></br></br>
| + | |
| - | <h2>
| + | |
| - | Direct Applications
| + | |
| - | </h2>
| + | |
| - | <p>
| + | |
| - | Detection and identification of pathogens with Cellock Holmes is crucial in different scenarios such as
| + | |
| - | </p>
| + | |
| - | Hospitals
| + | |
| - | <p>
| + | |
| - | R&D labs
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | Nursing homes
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | Food & water industry
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | The cost-efficiency allows for a standardized method to <b> uncouple low-budget institutions from the need for expensive equipment and highly trained personnel.</b>
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | Furthermore, <b> we would like to conduct an economic review </b> of our project and, depending on the outcome, a business strategy based on the improvement and distribution of hardware and biological component kits.
| + | |
| - | </p>
| + | |
| | | | |
| - | <!--===================== TEXT ENDS HERE ===============================--> | + | <tr> |
| - | <!--====================================================================--> | + | <td><p style="margin-left:0px;margin-right:20px;overflow:auto;">We fulfilled all Bronze and Silver criteria and won a <b>Gold Medal</b>.</p></td> |
| - | <!--====================================================================--> | + | <td><img style="margin-bottom:25px;" src="https://static.igem.org/mediawiki/2014/5/5d/Aachen_Goldmedal_header.png" width="80px" align="right" /></td> |
| - | </td> | + | |
| | </tr> | | </tr> |
| - | <!-- back to top link -->
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| - | <tr><td></html>{{Team:Aachen/JumpUp}}<html></td></tr>
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| - | </table>
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| - | </td>
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| - | <td></td>
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| - | </tr>
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| | </table> | | </table> |
| - | <!--===================== 2ND BLOCK ENDS ===============================-->
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| - | <!--====================================================================-->
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| - | <!--==================== 3RD BLOCK STARTS ==============================-->
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| - | <table class="transbg" width="100%" cellspacing="0">
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| - | <tr>
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| - | <td></td>
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| | | | |
| - | <td align="center">
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| | | | |
| - | <table class="transbg" width="975px" cellspacing="0">
| + | <!-- NAVIGATION BUTTONS --> |
| - | <tr>
| + | <ul class="team-grid" style="width:530px;margin-left:20px;float:left"> |
| - | <td class="contentcell" width="95%" height="400px" align="center">
| + | |
| - | <!--====================================================================--> | + | |
| - | <!--====================================================================--> | + | |
| - | <!--==================== TEXT STARTS HERE ==============================-->
| + | |
| - | <h2>
| + | |
| - | The Device
| + | |
| - | </h2>
| + | |
| - | <div style="text-align: center"><img src="https://static.igem.org/mediawiki/2014/a/a6/Infografik_geraet_grob.png"/></div>
| + | |
| - | <p>
| + | |
| - | Our device Cellock Holmes is designed to be an automated 2D fluorescence analyser. We aim to be able to quickly measure the fluorescence emitted by our sensor cells and automatically analyze the emitted images with our software Measurarty. This will enabel us to reliably detect the amount of CFU (colony forming units) of the pathogens present on the sample. The device will have different filters for different wavelenghts included to be able to analyze different fluorescent proteins at the same time.
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | To learn more about our device check out
| + | |
| - | <a href="https://2014.igem.org/Team:Aachen/CellockHolmes">Cellock Holmes</a>.
| + | |
| - | </p>
| + | |
| - | <!--===================== TEXT ENDS HERE ===============================-->
| + | |
| - | <!--====================================================================-->
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| - | <!--====================================================================-->
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| - | </td>
| + | |
| - | </tr>
| + | |
| - | <!-- back to top link -->
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| - | <tr><td></html>{{Team:Aachen/JumpUp}}<html></td></tr>
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| - | </table>
| + | |
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| - | </td> | + | <li style="width:225px;margin-left: 20px;margin-right: 20px;margin-bottom: 30px;margin-top: 10px;"> |
| - | <td></td> | + | <a href="https://2014.igem.org/Team:Aachen/Project" style="color:black"> |
| - | </tr> | + | <div class="team-item team-info" style="width:219px;height:219px;" > |
| - | </table> | + | <div class="menukachel" style="top:44%;">Project</div> |
| - | <!--===================== 3RDBLOCK ENDS ===============================--> | + | </div> |
| - | <!--====================================================================--> | + | <div class="team-item team-img" style="background: url(https://static.igem.org/mediawiki/2014/5/55/Aachen_14-10-16_Project_Cellocks_iNB.png); norepeat scroll 0% 0% transparent; background-size:100%;width:219px;height:219px;"> </div></a> |
| - | <!--====================================================================--> | + | </li> |
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| - | <!--====================================================================--> | + | <li style="width:225px;margin-left: 20px;margin-right: 20px;margin-bottom: 30px;margin-top: 10px;"> |
| - | <!--====================================================================--> | + | <a href="https://2014.igem.org/Team:Aachen/PolicyPractices" style="color:black"> |
| - | <!--==================== 4TH BLOCK STARTS ==============================--> | + | <div class="team-item team-info" style="width:219px;height:219px;line-height: 2em;" > |
| - | <table class="transbg" width="100%" cellspacing="0"> | + | <div class="menukachel">Policy & Practices</div> |
| - | <tr> | + | </div> |
| - | <td></td> | + | <div class="team-item team-img" style="background: url(https://static.igem.org/mediawiki/2014/b/b7/Aachen_14-10-16_PolicyPractices_main_iNB.png); norepeat scroll 0% 0% transparent; background-size:100%;width:219px;height:219px;"> </div></a> |
| | + | </li> |
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| - | <td align="center"> | + | </ul> |
| | + | </html> |
| | | | |
| - | <table class="transbg" width="975px" cellspacing="0"> | + | <html> |
| - | <tr> | + | <ul class="team-grid" style="width:1060px;margin-left:20px;margin-right:20px;float:right"> |
| - | <td class="contentcell" width="95%" height="400px" align="center">
| + | |
| - | <!--====================================================================-->
| + | |
| - | <!--====================================================================-->
| + | |
| - | <!--==================== TEXT STARTS HERE ==============================-->
| + | |
| - | <h2>
| + | |
| - | The software Measurarty
| + | |
| - | </h2>
| + | |
| - | <p>
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| - | The third part of our project is our software Measurarty. The software will allow us to analyze the fluorescence emitted by our sensor cells in a more advanced and better way than just using a simple Treshold. We will utilize a modern segmentation algorithm in combination with further, detailed image processing algorythms.
| + | |
| - | </p>
| + | |
| - | <p>
| + | |
| - | For more information check out our
| + | |
| - | <a href="https://2014.igem.org/Team:Aachen/Errorlog">Computational Part</a>.
| + | |
| - | </p>
| + | |
| | | | |
| - | <!--===================== TEXT ENDS HERE ===============================--> | + | <li style="width:225px;margin-left: 20px;margin-right: 20px;margin-bottom: 30px;margin-top: 10px;"> |
| - | <!--====================================================================--> | + | <a href="https://2014.igem.org/Team:Aachen/Interlab_Study" style="color:black"> |
| - | <!--====================================================================--> | + | <div class="team-item team-info" style="width:219px;height:219px;" > |
| - | </td> | + | <div class="menukachel" style="top:44%;">Interlab Study</div> |
| - | </tr> | + | </div> |
| - | <!-- back to top link --> | + | <div class="team-item team-img" style="background: url(https://static.igem.org/mediawiki/2014/3/39/Aachen_Interlab_Cellocks.png); norepeat scroll 0% 0% transparent; background-size:100%;width:219px;height:219px;"> </div></a> |
| - | <tr><td></html>{{Team:Aachen/JumpUp}}<html></td></tr>
| + | </li> |
| - | </table> | + | |
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| - | </td> | + | <li style="width:225px;margin-left: 20px;margin-right: 20px;margin-bottom: 30px;margin-top: 10px;"> |
| - | <td></td> | + | <a href="https://2014.igem.org/Team:Aachen/Collaborations" style="color:black"> |
| - | </tr> | + | <div class="team-item team-info" style="width:219px;height:219px;" > |
| - | </table> | + | <div class="menukachel" style="top:44%;">Collaborations</div> |
| - | <!--===================== 4TH BLOCK ENDS ===============================--> | + | </div> |
| - | <!--====================================================================--> | + | <div class="team-item team-img" style="background: url(https://static.igem.org/mediawiki/2014/8/81/Aachen_14-10-15_Collaborating_Cellocks_iNB.png); norepeat scroll 0% 0% transparent; background-size:100%;width:219px;height:219px;"> </div></a> |
| - | <!--====================================================================--> | + | </li> |
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| | + | <li style="width:225px;margin-left: 20px;margin-right: 20px;margin-bottom: 30px;margin-top: 10px;"> |
| | + | <a href="https://2014.igem.org/Team:Aachen/Notebook" style="color:black"> |
| | + | <div class="team-item team-info" style="width:219px;height:219px;" > |
| | + | <div class="menukachel" style="top:44%;">Notebook</div> |
| | + | </div> |
| | + | <div class="team-item team-img" style="background: url(https://static.igem.org/mediawiki/2014/4/42/Aachen_14-10-14_NotebookiFG.png); norepeat scroll 0% 0% transparent; background-size:100%;width:219px;height:219px;"> </div></a> |
| | + | </li> |
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| | + | <li style="width:225px;margin-left: 20px;margin-right: 20px;margin-bottom: 30px;margin-top: 10px;"> |
| | + | <a href="https://2014.igem.org/Team:Aachen/Attributions" style="color:black"> |
| | + | <div class="team-item team-info" style="width:219px;height:219px;" > |
| | + | <div class="menukachel" style="top:44%;">Team</div> |
| | + | </div> |
| | + | <div class="team-item team-img" style="background: url(https://static.igem.org/mediawiki/2014/c/cf/Aachen_main_Team.png); norepeat scroll 0% 0% transparent; background-size:100%;width:219px;height:219px;"> </div></a> |
| | + | </li> |
| | + | </ul> |
| | </html> | | </html> |
| - | {{Team:Aachen/Footer}}
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| | + | <a href="https://2014.igem.org/Team:Aachen/Team"><img src="https://static.igem.org/mediawiki/2014/d/d2/Aachen_Team_Aachen_Teamfoto_small.jpg" width="1012px" style="border: 3px solid #0069B3; border-radius: 20px; "></a> |
| | </html> | | </html> |
| | + | </center> |
| | + | |
| | + | {|cellpadding="12" |
| | + | |[[File:Logo_Buergerstiftung-Aachen_hoch.jpg|80px|center|Bürgerstiftung Aachen]] |
| | + | |[[File:Aachen_Niersverband_Firmenlogo.jpg|159px|Niersverband]] |
| | + | |[[File:Aachen_Genscript_Logo.png|120px|Genscript]] |
| | + | |[[File:Aachen_Eurofinsgenomics.png|97px|Eurofins Genomics]] |
| | + | |[[File:Aachen_Labomedic_Logo.jpg|128px|Labomedic]] |
| | + | |} |
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| | + | {|cellpadding="18" |
| | + | |[[File:Aachen_bmbf.jpg|163px|BMBF]] |
| | + | |[[File:Aachen_idt_.png|109px|IDT]] |
| | + | |[[File:M2p_labs_logo.jpg|52px|m2p labs]] |
| | + | |[[File:Aachen_Roth_Logo.png|55px|Carl Roth]] |
| | + | |[[File:Aachen_ProRWTH_logo.png|62px|link=http://www.prorwth.de/|pro RWTH]] |
| | + | |} |
| | + | {|cellpadding="13" |
| | + | |[[File:Aachen_Logo_iAMB.png|115px|link=http://www.iamb.rwth-aachen.de|Institute of Applied Microbiology - iAMB]] |
| | + | |[[File:Aachen_Logo_bio7.png|115px|link=http://www.molbiotech.rwth-aachen.de|Institute for Molecular Biotechnology]] |
| | + | |[[File:Aachen_Logo_HISynBio.png|123px|link=http://www.helmholtz.de/en/about_us/initiating_and_networking/assuring_excellence/synthetic_biology|Helmholtz Association - Initiative on Synthetic Biology]] |
| | + | |[[File:Aachen_Logo_ABBt.png|105px|link=http://www.biologie.rwth-aachen.de|Aachen Biology and Biotechnology - ABBt]] |
| | + | |[[File:Aachen_juelich.png|120px|link=http://www.fz-juelich.de/|Forschungszentrum Jülich]] |
| | + | |[[File:Aachen_FabLabAachenLogo.jpg|105px|link=http://hci.rwth-aachen.de/fablab|Fab Lab Aachen]] |
| | + | |[[File:Aachen_Schwaneberg_Group.png|75px|link=http://www.biotec.rwth-aachen.de|Schwaneberg Group]] |
| | + | |} |
| | + | <div> |
| | + | {{Team:Aachen/FooterFront}} |
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