Difference between revisions of "Team:EPF Lausanne/Timeline"

 
(27 intermediate revisions by 3 users not shown)
Line 1: Line 1:
 +
{{:Team:EPF_Lausanne/Test/Top_Nav}}
 
<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en" dir="ltr">
 
<html xmlns="http://www.w3.org/1999/xhtml" xml:lang="en" lang="en" dir="ltr">
−
  <head>
+
−
<style type="text/css">
+
<body id="Content">   
−
 
+
<div class="classy-bar">
−
   #contentSub, #footer-box, #catlinks, #search-controls,
+
  <div class="container">
−
  #p-logo, .printfooter, .firstHeading, .visualClear {
+
     <div class="row">
−
      display: none;
+
      <div class="col-md-12 text-center">
−
  }
+
        <h2>Timeline</h2>
−
  #globalWrapper, #content {   
+
      </div>
−
    width: 100%;
+
−
    height: 100%;
+
−
    border: 0px;
+
−
    background-color: #161BFB;
+
−
    margin: 0px;
+
−
    padding: 0px;
+
−
    font-size: 100%;
+
−
  }
+
−
img.resize50{
+
−
  max-width:50%;
+
−
  max-height:50%;
+
−
}
+
−
</style>
+
−
    <!--
+
−
    Stone Template
+
−
    http://www.templatemo.com/preview/templatemo_452_stone
+
−
    -->
+
−
 
+
−
    <!-- Latest compiled and minified CSS -->
+
−
    <link rel="stylesheet" href="http://maxcdn.bootstrapcdn.com/bootstrap/3.3.5/css/bootstrap.min.css">
+
−
   
+
−
    <!-- Bootstrap Stylesheet -->
+
−
    <link rel="stylesheet" href="https://2015.igem.org/Team:EPF_Lausanne/Test/css/bootstrap?action=raw&amp;ctype=text/css" type="text/css">
+
−
   
+
−
    <!-- FontAwesome Icons -->
+
−
    <link rel="stylesheet" href="http://maxcdn.bootstrapcdn.com/font-awesome/4.3.0/css/font-awesome.min.css">
+
−
   
+
−
    <!-- Normailize Stylesheet -->
+
−
    <link rel="stylesheet" href="https://2015.igem.org/Team:EPF_Lausanne/Test/css/normalize?action=raw&amp;ctype=text/css" type="text/css">
+
−
 
+
−
    <!-- Main Styles -->
+
−
    <link rel="stylesheet" href="https://2015.igem.org/Team:EPF_Lausanne/Test/css/templatemo-style?action=raw&amp;ctype=text/css" type="text/css">
+
−
 
+
−
    <!-- Footer -->
+
−
    <link rel="stylesheet" href="https://2015.igem.org/Team:EPF_Lausanne/css/footer?action=raw&amp;ctype=text/css" type="text/css">
+
−
 
+
−
    <script src="https://2015.igem.org/Team:EPF_Lausanne/Test/js/mordernizr-2.6.2?action=raw&amp;ctype=text/js"></script>
+
−
 
+
−
</head>
+
−
<body  class="loading">
+
−
    <!--[if lt IE 7]>
+
−
    <p class="chromeframe">You are using an <strong>outdated</strong> browser. Please <a href="http://browsehappy.com/">upgrade your browser</a> or <a href="http://www.google.com/chromeframe/?redirect=true">activate Google Chrome Frame</a> to improve your experience.</p>
+
−
    <![endif]-->
+
−
 
+
−
    <!-- HEADER -->
+
−
    <div class="site-header">
+
−
        <div class="container">
+
−
            <div class="row">
+
−
                <nav class="navbar navbar-default navbar-static-top">
+
−
                    <div class="navbar-header">
+
−
                        <button class="navbar-toggle" type="button" data-toggle="collapse" data-target="#main-menu">
+
−
                            <span class="sr-only">Toggle navigation</span>
+
−
                            <i class="fa fa-bars"></i>
+
−
                        </button>
+
−
                        <a class="navbar-brand" href="https://2015.igem.org/Team:EPF_Lausanne">Bio Logic</a>
+
−
                    </div>
+
−
                    <div class="collapse navbar-collapse" id="main-menu">
+
−
                        <ul class="nav navbar-nav navbar-right">
+
−
                            <li><a href="https://2015.igem.org/Team:EPF_Lausanne">Home</a></li>
+
−
                            <li class="dropdown">
+
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Project <span class="caret"></span></a>
+
−
                            <ul class="dropdown-menu">
+
−
                                <li><a href="https://2015.igem.org/Team_EPF_Lausanne/Project/Background">Background</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Project/Description">Description</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Project/Applications">Applications</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Project/Modelling">Modelling</a></li>
+
−
                            </ul>
+
−
                            </li>
+
−
                            <li class="dropdown">
+
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Achievements <span class="caret"></span></a>
+
−
                            <ul class="dropdown-menu">
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Achievements/Vivo">In vivo</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Achievements/Silico">In silico</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Achievements/Judging">Judging</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Achievements/Parts">Parts</a></li>
+
−
                            </ul>
+
−
                            </li>
+
−
                            <li class="dropdown">
+
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Policy and Practices <span class="caret"></span></a>
+
−
                            <ul class="dropdown-menu">
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Policy/Ethic">Ethics</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Policy/Safety">Safety</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Policy/Human">Human Practices</a></li>
+
−
                            </ul>
+
−
                            </li>
+
−
                            <li class="dropdown">
+
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Notebook <span class="caret"></span></a>
+
−
                            <ul class="dropdown-menu">
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Notebook/Ecoli">E. Coli</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Notebook/Yeast">Yeast</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Notebook/Protocols">Protocols</a></li>
+
−
                            </ul>
+
−
                            </li>
+
−
                            <li class="dropdown">
+
−
                            <a href="#" class="dropdown-toggle" data-toggle="dropdown" role="button" aria-haspopup="true" aria-expanded="false">Team <span class="caret"></span></a>
+
−
                            <ul class="dropdown-menu">
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Team/Meet">Meet us</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Timeline">Timeline</a></li>
+
−
                                <li><a href="https://2015.igem.org/Team:EPF_Lausanne/Team/Aknowledgements">Aknowledgements</a></li>
+
−
                            </ul>
+
−
                            </li>
+
−
                        </ul>
+
−
                    </div>
+
−
                </nav>       
+
−
            </div>
+
−
        </div>
+
−
    </div> <!-- .site-header -->
+
−
 
+
−
     <div class="page-h promotion">
+
−
        <div class="container">
+
−
            <div class="row">
+
−
                <div class="col-md-12 text-center">
+
−
                    <h3>Description</h3>
+
−
                </div>
+
−
            </div>
+
−
        </div>
+
 
     </div>
 
     </div>
 +
  </div>
 +
</div>
  
−
    <div class="first-section">
+
<div class="timeline-section">
−
        <div class="container">
+
  <ul class="timeline">
−
            <div class="row">
+
    <li class="timeline-inverted">
−
                <div class="col-md-8 col-centered">
+
    <div class="timeline-badge info"></div>
−
                    <h3>Biologic Orthogonal GRNA-Implemented Circuit</h3>
+
    <div class="timeline-panel">
−
                    <p>This summer, the EPFL iGEM team strives to pave the way for simpler implementation of digital circuits in vivo. Using the newly discovered dCas9 as a synthetic transcription factor, we aim to design biocompatible transistor-like elements. Our ultimate goal is to make cells smarters by assembling these transistors into logic gates that are both chainable and parallelizable in a homogenous logic framework.</p>
+
      <div class="timeline-heading">
−
                    <h2>Thinking Binary</h2>
+
        <h4 class="timeline-title">Our project has a name!</h4>
−
                    <p>Boolean Logic is the bedrock of the digital revolution. Developed by George Boole in the mid-19th century, it is based on a simple set of values: 0 (“FALSE”) or 1 (“TRUE”). Modern computers represent all forms of information using strings of the same 0s and 1s (also named “Bits”). The processing of bits is handled by logical transistors - which can be seen as electronically controllable switches. Elementary logic operation are performed using cleverly assembled transistors. Such assemblies are named “logic gates”. Gates are the bricks with which complex behaviour is produced.</p>
+
        <h4 class="timeline-title">July 8th 2015</h4>
−
                    <h2>Biological computers</h2>
+
      </div>
−
                    <p>Since the early 2000’s, multiple synthetic biological gates have been built, revolutionizing our ability to dictate the way organisms react to stimuli. Their applications range from intelligent biosensors to cellular therapeutics with improved in vivo targeting and curing.<br>
+
      <div class="timeline-body">
−
                    Unfortunately, the development of programmable cells has been hampered by difficulties in the multiplication and chaining of logic elements. This has hindered the complexification of bio-circuits as well as the automation and flexibility of their design.<br>
+
        <p>After a few looongs discussions and many ideas we choose our name:</br><b>Bio LOGIC - Logic Orthogonal gRNA-Implemented Circuits</b></p>
−
                    To overcome these limitations, an ideal in vivo logic element should be modular, reusable, and orthogonal - i.e avoiding unwanted cross-talk with its host organism as well as other elements of the engineered circuit.</p>
+
      </div>
−
                    <h2>Cas9 Logic Gates</h2>
+
−
                    <p>Cas9 (CRISPR associated protein 9) is an RNA-guided DNA endonuclease that targets and cleaves any DNA sequence complementary to its guide RNA (gRNA). Our project will be based upon a derivative of this technology : catalytically “dead” Cas9 (dCas9) that lack the ability to cleave DNA. When fused to a RNA polymerase (RNAP) recruiting element (e.g. the omega subunit of RNAP in E. Coli or VP64 in eukaryotes), chimeric dCas9 can act as a  programmable transcription activator. In addition, activating dCas9 may also act as a DNA transcription inhibitor: depending on its gRNA-determined binding site, it has been shown in yeasts to sterically hinder RNAP recruitment to promoter sequences.<br>
+
−
                    Exploiting dCas9-omega/VP64’s ambivalence, we propose the creation of gRNA-controlled switch-like elements analogous to transistors. The state of the switch would be solely dependent on the position of dCas9 relative to the promoter. The content of the gRNA-targeted sequences might therefore be designed such that each transistor is orthogonal to other logic elements. Using gRNA to make what could be seen as “biological wires”,  we also hope to achieve chainability of the transistors and thus complexification of bio-circuits.</p>
+
−
                </div>
+
−
            </div>
+
−
        </div>
+
 
     </div>
 
     </div>
−
 
+
    </li>
−
 
+
    <li>
−
     <div class="fourth-section">
+
     <div class="timeline-badge info"></div>
−
        <div class="container">
+
    <div class="timeline-panel">
−
            <div class="row">
+
      <div class="timeline-heading">
−
                <div class="col-md-12 text-center">
+
        <h4 class="timeline-title">Get back to work!</h4>
−
                    <h2>Still under construction</h2>
+
        <h4 class="timeline-title">July 1st 2015</h4>
−
                </div>
+
      </div>
−
            </div>
+
      <div class="timeline-body">
−
         </div>
+
         <p>First of many meetings this summer! The day after our exams finished, we all got together to set some goals for the next few weeks. Let the fun begin!</p>
 +
      </div>
 
     </div>
 
     </div>
−
     <!-- Footer -->
+
     </li>
−
    <footer class="footer-distributed">
+
    <li class="timeline-inverted">
−
 
+
    <div class="timeline-badge info"></div>
−
            <div class="footer-left">
+
    <div class="timeline-panel">
−
 
+
      <div class="timeline-heading">
−
                <img class="resize50" src="https://static.igem.org/mediawiki/2015/5/59/Logo_iGEM_w.png" alt="">
+
        <h4 class="timeline-title">Break time</h4>
−
 
+
        <h4 class="timeline-title">June 1st - July 1st 2015</h4>
−
            </div>
+
      </div>
−
 
+
      <div class="timeline-body">
−
            <div class="footer-center">
+
        <p>Our project was put on hold during our exams. :(</p>
−
 
+
      </div>
−
                <div>
+
    </div>
−
                    <i class="fa fa-map-marker"></i>
+
    </li>
−
                    <p><span>Route Cantonale</span> Lausanne, Suisse</p>
+
    <li>
−
                </div>
+
    <div class="timeline-badge warning"></div>
−
 
+
    <div class="timeline-panel">
−
                <div>
+
      <div class="timeline-heading">
−
                    <i class="fa fa-envelope"></i>
+
        <h4 class="timeline-title">Working in the lab</h4>
−
                    <p><a href="mailto:iGEM2015dreamteam@groupes.epfl.ch">Contact us</a></p>
+
        <h4 class="timeline-title">April 21st - May 31st 2015</h4>
−
                </div>
+
      </div>
−
 
+
      <div class="timeline-body">
−
            </div>
+
        <p>Lab work is slow because we have to follow all our courses at the same time. We are able to make our first construct pdCas9-w after mastering the art of PCR and Gibson assembly!</p>
−
 
+
      </div>
−
            <div class="footer-right">
+
    </div>
−
 
+
    </li>
−
                <p class="footer-company-about">
+
    <li class="timeline-inverted">
−
                    <span>About us</span>
+
    <div class="timeline-badge warning"></div>
−
                    Team of a dozen biotechnology students that will attempt to change the world
+
    <div class="timeline-panel">
−
                </p>
+
      <div class="timeline-heading">
−
 
+
        <h4 class="timeline-title">Presents!</h4>
−
                <div class="footer-icons">
+
        <h4 class="timeline-title">April 14th 2015</h4>
−
 
+
      </div>
−
                    <a href="https://www.facebook.com/pages/IGEM-EPFL-2015/1598472927106907" target="_blank"><i class="fa fa-facebook"></i></a>
+
      <div class="timeline-body">
−
                    <a href="https://instagram.com/igem2015epfl/" target="_blank"><i class="fa fa-instagram"></i></a>
+
        <p>The E. Coli part of our project is strongly based on the paper of Bikard et al. "Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system". Bikard sent us his strains JEN202, JEN202+PWJ89 and DH5A+PWJ66. What a generous guy!</p>
−
                    <a href="https://twitter.com/EPFL_iGEM/" target="_blank"><i class="fa fa-twitter"></i></a>
+
      </div>
−
                </div>
+
    </div>
−
 
+
    </li>
−
            </div>
+
    <li>
−
 
+
    <div class="timeline-badge danger"></div>
−
        </footer>
+
    <div class="timeline-panel">
 +
      <div class="timeline-heading">
 +
        <h4 class="timeline-title">Blast</h4>
 +
        <h4 class="timeline-title">April 2nd 2015</h4>
 +
      </div>
 +
      <div class="timeline-body">
 +
        <p>In our project dCas9-w targets DNA sequences using gRNAs and acts as an activator or an inhibitor depending on its position. Axel and Cyril created a C++ program to blast random generated  gRNA sequences on the E. Coli or Yeast genome.</p>
 +
      </div>
 +
    </div>
 +
    </li>
 +
    <li class="timeline-inverted">
 +
    <div class="timeline-badge success"></div>
 +
    <div class="timeline-panel">
 +
      <div class="timeline-heading">
 +
        <h4 class="timeline-title">And our project is...</h4>
 +
        <h4 class="timeline-title">March 26th 2015</h4>
 +
      </div>
 +
      <div class="timeline-body">
 +
        <p>...the new framework for biologic circuits using dCas9-w as a synthetic transcription factor. Go to our <a href="https://2015.igem.org/Team:EPF_Lausanne/Project/Description">project description</a>page to find out more!</p>
 +
        <img src="https://static.igem.org/mediawiki/2015/9/96/Ari_dCas9.jpg" width="100%">
 +
      </div>
 +
    </div>
 +
    </li>
 +
    <li>
 +
    <div class="timeline-badge warning"></div>
 +
    <div class="timeline-panel">
 +
      <div class="timeline-heading">
 +
        <h4 class="timeline-title">The lab starts!</h4>
 +
        <h4 class="timeline-title">March 24th -31st 2015</h4>
 +
      </div>
 +
      <div class="timeline-body">
 +
        <p>Advisors start to train us in the lab: LB medium and LB agar plates preparation, bacterial cultures, minipreps, PCR, etc.</p>
 +
      </div>
 +
    </div>
 +
    </li>
 +
    <li class="timeline-inverted">
 +
    <div class="timeline-badge info"></div>
 +
    <div class="timeline-panel">
 +
      <div class="timeline-heading">
 +
        <h4 class="timeline-title">Brainstorming finalists</h4>
 +
        <h4 class="timeline-title">March 19th 2015</h4>
 +
      </div>
 +
      <div class="timeline-body">
 +
        <p>Three cool ideas came out of the brainstorming:  
 +
          <ul>
 +
            <li><p>A new framework for biologic circuits</p></li>
 +
            <li><p>Lung cancer therapy using dCas9</p></li>
 +
            <li><p>Cell-cell communication through exosomes</p></li>
 +
          </ul>
 +
        </p>
 +
      </div>
 +
    </div>
 +
    </li>
 +
    <li>
 +
    <div class="timeline-badge info"></div>
 +
    <div class="timeline-panel">
 +
      <div class="timeline-heading">
 +
        <h4 class="timeline-title">Brainstorming</h4>
 +
        <h4 class="timeline-title">February 26th - March 12th 2015</h4>
 +
      </div>
 +
      <div class="timeline-body">
 +
        <p>The team is split into small groups to brainstorm for an interesting project.</p>
 +
      </div>
 +
    </div>
 +
    </li>
 +
    <li class="timeline-inverted">
 +
    <div class="timeline-badge info"></div>
 +
    <div class="timeline-panel">
 +
      <div class="timeline-heading">
 +
        <h4 class="timeline-title">First meeting: iGEM officially starts!</h4>
 +
        <h4 class="timeline-title">February 19th 2015</h4>
 +
      </div>
 +
      <div class="timeline-body">
 +
        <p>First meeting with everyone: 12 teammates, 7 advisors and 3 instructors.</p>
 +
        <img src="https://static.igem.org/mediawiki/2015/2/2e/Team_All.jpg" width="100%">
 +
      </div>
 +
    </div>
 +
    </li>
 +
  </ul>
 +
</div>
  
−
    <script src="https://2015.igem.org/Team:EPF_Lausanne/Test/js/jquery?action=raw&amp;ctype=text/js"></script>
 
−
    <script src="https://2015.igem.org/Team:EPF_Lausanne/Test/js/bootstrap?action=raw&amp;ctype=text/js"></script>
 
−
    <script src="https://2015.igem.org/Team:EPF_Lausanne/Test/js/plugins?action=raw&amp;ctype=text/js"></script>
 
−
    <script src="https://2015.igem.org/Team:EPF_Lausanne/Test/js/main?action=raw&amp;ctype=text/js"></script>   
 
 
</body>
 
</body>
 
</html>
 
</html>
 +
{{:Team:EPF_Lausanne/Test/footer}}

Latest revision as of 10:10, 31 August 2015

EPFL 2015 iGEM bioLogic Logic Orthogonal gRNA Implemented Circuits EPFL 2015 iGEM bioLogic Logic Orthogonal gRNA Implemented Circuits

Timeline

  • Our project has a name!

    July 8th 2015

    After a few looongs discussions and many ideas we choose our name:
    Bio LOGIC - Logic Orthogonal gRNA-Implemented Circuits

  • Get back to work!

    July 1st 2015

    First of many meetings this summer! The day after our exams finished, we all got together to set some goals for the next few weeks. Let the fun begin!

  • Break time

    June 1st - July 1st 2015

    Our project was put on hold during our exams. :(

  • Working in the lab

    April 21st - May 31st 2015

    Lab work is slow because we have to follow all our courses at the same time. We are able to make our first construct pdCas9-w after mastering the art of PCR and Gibson assembly!

  • Presents!

    April 14th 2015

    The E. Coli part of our project is strongly based on the paper of Bikard et al. "Programmable repression and activation of bacterial gene expression using an engineered CRISPR-Cas system". Bikard sent us his strains JEN202, JEN202+PWJ89 and DH5A+PWJ66. What a generous guy!

  • Blast

    April 2nd 2015

    In our project dCas9-w targets DNA sequences using gRNAs and acts as an activator or an inhibitor depending on its position. Axel and Cyril created a C++ program to blast random generated gRNA sequences on the E. Coli or Yeast genome.

  • And our project is...

    March 26th 2015

    ...the new framework for biologic circuits using dCas9-w as a synthetic transcription factor. Go to our project descriptionpage to find out more!

  • The lab starts!

    March 24th -31st 2015

    Advisors start to train us in the lab: LB medium and LB agar plates preparation, bacterial cultures, minipreps, PCR, etc.

  • Brainstorming finalists

    March 19th 2015

    Three cool ideas came out of the brainstorming:

    • A new framework for biologic circuits

    • Lung cancer therapy using dCas9

    • Cell-cell communication through exosomes

  • Brainstorming

    February 26th - March 12th 2015

    The team is split into small groups to brainstorm for an interesting project.

  • First meeting: iGEM officially starts!

    February 19th 2015

    First meeting with everyone: 12 teammates, 7 advisors and 3 instructors.

EPFL 2015 iGEM bioLogic Logic Orthogonal gRNA Implemented Circuits

NOT PROOFREAD