Difference between revisions of "Team:William and Mary"

 
(46 intermediate revisions by 4 users not shown)
Line 49: Line 49:
 
margin-left: 0px;  
 
margin-left: 0px;  
 
}
 
}
 +
.centerImage
 +
{
 +
text-align:center;
 +
display:block;
 +
}
 +
.wraptocenter {
 +
  display: table-cell;
 +
  text-align: center;
 +
  vertical-align: middle;
 +
  width: 200px;
 +
  height: 200px;
 +
  background-color: #999;
 +
}
 +
.wraptocenter * {
 +
  vertical-align: middle;
 +
}
 
</style>
 
</style>
  
Line 86: Line 102:
 
                         <li>
 
                         <li>
 
                             <a href="https://2015.igem.org/Team:William_and_Mary/Measurement">  
 
                             <a href="https://2015.igem.org/Team:William_and_Mary/Measurement">  
−
                             Measurement
+
                             Results
 
                             </a>
 
                             </a>
 
                         </li>
 
                         </li>
Line 112: Line 128:
 
                             <a href="https://2015.igem.org/Team:William_and_Mary/Practices">  
 
                             <a href="https://2015.igem.org/Team:William_and_Mary/Practices">  
 
                             Human Practices
 
                             Human Practices
−
                            </a>
 
−
                        </li>
 
−
                        <li>
 
−
                            <a href="http://issuu.com/wmigem/docs/wmigemsynbiodraft150806">
 
−
                            Curriculum on ISSUU.com
 
 
                             </a>
 
                             </a>
 
                         </li>
 
                         </li>
 
                         <li>
 
                         <li>
 
                             <a href="https://2015.igem.org/Team:William_and_Mary#ref">  
 
                             <a href="https://2015.igem.org/Team:William_and_Mary#ref">  
−
                             Notebook, Safety, & Attributions
+
                             References
 
                             </a>
 
                             </a>
 
                         </li>
 
                         </li>
Line 127: Line 138:
 
                             <a href="https://2015.igem.org/Team:William_and_Mary/Medal_Criteria">  
 
                             <a href="https://2015.igem.org/Team:William_and_Mary/Medal_Criteria">  
 
                             Medal Criteria
 
                             Medal Criteria
 +
                            </a>
 +
                        </li>
 +
                        <li>
 +
                            <a href="https://2015.igem.org/Team:William_and_Mary/Team">
 +
                            Team
 
                             </a>
 
                             </a>
 
                         </li>
 
                         </li>
Line 179: Line 195:
 
                                         <div class="col-md-7 col-md-offset-1">
 
                                         <div class="col-md-7 col-md-offset-1">
 
                                             <div class="description">
 
                                             <div class="description">
−
                                                 <p>As synthetic biologists begin to construct increasingly complex gene regulatory networks, the need for accurate quantitative characterization of regulatory components becomes more pressing. Despite the extensive characterization of the average strength of the promoters available on the BioBrick registry, very few have information pertaining to the variability in their expression. Our project aims to characterize this variability, commonly referred to as stochasticity, or noise, in gene expression, for the most commonly used promoters in synthetic biology and provide additional tools for the regulation of these promoters.  
+
                                                 <p>As synthetic biologists continue to construct increasingly complex gene regulatory networks, the need for accurate quantitative characterization of their regulatory components becomes more pressing. Despite the BioBrick registry's thorough characterization of the average strength of promoters, there is insufficient description of the variability in their expression. Our project aims to characterize this variability, or noise, for the most commonly used promoters in synthetic biology and provide additional tools for the regulation of these promoters.  
 
                                                 <p><a href="https://2015.igem.org/Team:William_and_Mary/Description">Read more on our Project Description page.</a>
 
                                                 <p><a href="https://2015.igem.org/Team:William_and_Mary/Description">Read more on our Project Description page.</a>
 
                                                 </p>
 
                                                 </p>
Line 200: Line 216:
 
                                     <p class = "h2WM">Parts</p2>
 
                                     <p class = "h2WM">Parts</p2>
 
<div class = "description">                                    <p>In deciding which parts to submit to the iGEM Registry we focused on three main aspects.</p>
 
<div class = "description">                                    <p>In deciding which parts to submit to the iGEM Registry we focused on three main aspects.</p>
−
<p>First: ensuring our project is as reproducible and extensible as possible. To that end we have submitted all of new composite fluorescent protein parts that we constructed during the project. Second: Making genome integration as straightforward as possible for iGEM teams. In order to accomplish this goal we designed, tested, and validated a new integrator cassette that allows for simple genome integration using either 3A or Gibson Assembly. Third: Increasing the number of tools available for promoter-mediated regulation in synthetic biology. We created and validated an E. coli codon optimized dCas9 variant and a suite of gRNAs to target the most commonly used promoters in iGEM.  </p>
+
<p><i>First:</i> ensuring our project is as reproducible and extensible as possible. To that end we have submitted all of new composite fluorescent protein parts that we constructed during the project.<br> <i>Second:</i> Making genome integration as straightforward as possible for iGEM teams. In order to accomplish this goal we designed, tested, and validated a new integrator cassette that allows simple genome integration using 3A or Gibson Assembly. <br> <i>Third:</i> Increasing the number of tools available for promoter-mediated regulation in synthetic biology. We created and validated an E. coli codon optimized dCas9 variant and a suite of gRNAs to target the most commonly used promoters in iGEM.  </p>
 
</p></div>
 
</p></div>
 
                                 </div>
 
                                 </div>
Line 293: Line 309:
 
                                         <p class = "h2WM">Human practices</p>
 
                                         <p class = "h2WM">Human practices</p>
 
                                     </div>
 
                                     </div>
−
<p>Our <a href="https://2015.igem.org/Team:William_and_Mary/Practices">Human Practices effort</a> was a multi-faceted outreach approach to science literacy, focusing specifically on spreading a basic understanding of synthetic biology to the general public. We collaborated with numerous organizations (logos below) to host nine educational Synthetic Biology workshops for the public (from first graders to adults!) and to implement our original, 24-activity Synthetic Biology curriculum into schools worldwide, to further sustain our efforts for years to come. </p>
+
<p>Our <a href="https://2015.igem.org/Team:William_and_Mary/Practices">Human Practices effort</a> was a multi-faceted outreach approach to science literacy, focusing specifically on spreading a basic understanding of synthetic biology to the general public. We collaborated with numerous organizations to host nine educational Synthetic Biology workshops for the public (from first graders to adults!) and to implement our <a href="https://2015.igem.org/Team:William_and_Mary/Practices#curriculum">educational 24-activity Synthetic Biology booklet</a> into schools worldwide, to further sustain our efforts for years to come.</p>
 
                                     <div class="col-md-10 col-md-offset-1">
 
                                     <div class="col-md-10 col-md-offset-1">
 
                                         <div class="row">
 
                                         <div class="row">
Line 389: Line 405:
 
                                         <div class="col-md-7 col-md-offset-1">
 
                                         <div class="col-md-7 col-md-offset-1">
 
                                             <div class="content">
 
                                             <div class="content">
−
                                                 <p>We're very proud of all of our accomplishments from over the summer! You can learn more about what we did to reach our goals <a href="https://2015.igem.org/Team:William_and_Mary/Medal_Criteria"> here, on our Medal Criteria page.</a></p>
+
                                                 <p><a href="https://2015.igem.org/Team:William_and_Mary/Medal_Criteria">We're very proud of all of our accomplishments from over the summer! Click here to learn more about what we did to reach our goals.</a></p>
 
                                             </div>
 
                                             </div>
 
                                         </div>
 
                                         </div>
Line 406: Line 422:
 
                                         <div class="col-md-7 col-md-offset-1">
 
                                         <div class="col-md-7 col-md-offset-1">
 
                                             <div class="content">
 
                                             <div class="content">
−
                                                 <p>Check out <a href="https://2015.igem.org/Team:William_and_Mary/Software">the software</a> we made to help us make sense of sequencing results of complex parts! </p>
+
                                                 <p><a href="https://2015.igem.org/Team:William_and_Mary/Software">Click here to check out the software we made to help us make sense of sequencing results of complex parts!</a> </p>
 
                                             </div>
 
                                             </div>
 
                                         </div>
 
                                         </div>
Line 433: Line 449:
 
                                             <div class="separator line-separator">✻</div>
 
                                             <div class="separator line-separator">✻</div>
 
                                         </div>-->
 
                                         </div>-->
−
                                         <p>Measuring noise, one promoter at a time.</p>
+
<div class="content">
−
<p>  
+
                                         <a href="https://2015.igem.org/Team:William_and_Mary/Team"><p>Click here to learn more about our team.</p></a>
−
 
+
</div>
−
 
+
−
 
+
−
 
+
−
 
+
−
</p>
+
 
                                     </div>
 
                                     </div>
 
                                 </div>
 
                                 </div>
Line 450: Line 461:
 
                         <!-- End Section "Team" example 1: Description & Full Image -->
 
                         <!-- End Section "Team" example 1: Description & Full Image -->
 
                      
 
                      
 +
 +
 +
<!--Software starts here! -->
 +
<div class="section section-we-are-2">
 +
                            <div class="text-area">
 +
                                <div class="container">
 +
                                    <div class="row">
 +
<div class="title">
 +
<p class="h2WM">2015 Jamboree Results</p>
 +
</div>
 +
                                        <div class="col-md-7 col-md-offset-1">
 +
                                            <div class="content">
 +
                                                <p><img src="https://static.igem.org/mediawiki/2015/b/b7/WM_Wins.jpg" width=600px> </p>
 +
                                            </div>
 +
                                        </div>
 +
<div class="col-md-4">
 +
                                            <div class="content" style="vertical-align:middle;">
 +
                                                <p>Undergraduate Grand Prize Winner<br><br>Best in Track: Measurement<br><br>Best Education & Public Engagement<br><br>Best Presentation<br><br>Nominee: Best Mathematical Model</p>
 +
                                            </div>
 +
                                        </div>
 +
                                    </div>
 +
                                </div>
 +
                            </div>
 +
                        </div>
 +
<!--End software -->
 +
 
                         <!-- Section "ref" example 2: Text & Icons -->
 
                         <!-- Section "ref" example 2: Text & Icons -->
 
                         <div class="section section-numbers-1" id="ref">
 
                         <div class="section section-numbers-1" id="ref">
Line 467: Line 504:
 
                                         <div class="card">
 
                                         <div class="card">
 
                                             <div class="icon">
 
                                             <div class="icon">
−
                                                 <img alt="..." src="https://static.igem.org/mediawiki/2015/a/a6/WMNotebookIconColor.png" height= "100" width= "90"/>
+
                                                 <a href="https://2015.igem.org/Team:William_and_Mary/Notebook"><img alt="..." src="https://static.igem.org/mediawiki/2015/a/a6/WMNotebookIconColor.png" height= "100" width= "90"/></a>
 
                                             </div>
 
                                             </div>
 
                                             <h3>
 
                                             <h3>
Line 481: Line 518:
 
                                         <div class="card">
 
                                         <div class="card">
 
                                             <div class="icon">
 
                                             <div class="icon">
−
                                                 <img alt="..." src="https://static.igem.org/mediawiki/2015/7/79/WMGogglesIconColor.png" height= "100" width= "100"/>
+
                                                 <a href="https://2015.igem.org/Team:William_and_Mary/Safety"><img alt="..." src="https://static.igem.org/mediawiki/2015/7/79/WMGogglesIconColor.png" height= "100" width= "100"/></a>
 
                                             </div>
 
                                             </div>
 
                                             <h3>
 
                                             <h3>
Line 495: Line 532:
 
                                         <div class="card">
 
                                         <div class="card">
 
                                             <div class="icon">
 
                                             <div class="icon">
−
                                                 <img alt="..." src="https://static.igem.org/mediawiki/2015/a/aa/WMTUIconColor.png" height= "100" width= "100"/>
+
                                                 <a href="https://2015.igem.org/Team:William_and_Mary/Attributions"> <img alt="..." src="https://static.igem.org/mediawiki/2015/a/aa/WMTUIconColor.png" height= "100" width= "100"/></a>
 
                                             </div>
 
                                             </div>
 
                                             <h3>
 
                                             <h3>
Line 525: Line 562:
 
                                             <a href="mailto:igem@wm.edu">
 
                                             <a href="mailto:igem@wm.edu">
 
                                                 Contact
 
                                                 Contact
−
                                            </a>
 
−
                                        </li>
 
−
                                        <li>
 
−
                                            <a href="http://wmigem.weebly.com/about.html">
 
−
                                              Blog
 
 
                                             </a>
 
                                             </a>
 
                                         </li>
 
                                         </li>
Line 535: Line 567:
 
                                 </nav>
 
                                 </nav>
 
                                 <div class="social-area pull-right">                 
 
                                 <div class="social-area pull-right">                 
−
                                     <a class="https://www.facebook.com/wmigem2015">
+
                                     <a href="https://www.facebook.com/wmigem2015">
 
                                         <i class="fa fa-facebook-square"></i>
 
                                         <i class="fa fa-facebook-square"></i>
 
                                     </a>
 
                                     </a>
−
                                     <a class="https://twitter.com/wmigem">
+
                                     <a href="https://twitter.com/wmigem">
 
                                         <i class="fa fa-twitter"></i>
 
                                         <i class="fa fa-twitter"></i>
 
                                     </a>
 
                                     </a>
Line 574: Line 606:
 
action=raw&ctype=text/javascript"></script>
 
action=raw&ctype=text/javascript"></script>
  
−
     <script type="text/javascript" src="https://2015.igem.org/Team:William_and_Mary/modernizerJS?action=raw&ctype=text/javascript?"></script>
+
     <script type="text/javascript" src="http://presentation.paperplane.io/assets/js/modernizr.js"></script>
  
 
     <script type="text/javascript" src="https://2015.igem.org/Template:William_and_Mary/rubick2JS?
 
     <script type="text/javascript" src="https://2015.igem.org/Template:William_and_Mary/rubick2JS?
 
action=raw&ctype=text/javascript"></script>
 
action=raw&ctype=text/javascript"></script>
 
</html>
 
</html>

Latest revision as of 03:18, 23 November 2015

NOISE - W&M iGEM

NOISE

Characterization of promoter-driven transcriptional noise in E. coli

Parts

In deciding which parts to submit to the iGEM Registry we focused on three main aspects.

First: ensuring our project is as reproducible and extensible as possible. To that end we have submitted all of new composite fluorescent protein parts that we constructed during the project.
Second: Making genome integration as straightforward as possible for iGEM teams. In order to accomplish this goal we designed, tested, and validated a new integrator cassette that allows simple genome integration using 3A or Gibson Assembly.
Third: Increasing the number of tools available for promoter-mediated regulation in synthetic biology. We created and validated an E. coli codon optimized dCas9 variant and a suite of gRNAs to target the most commonly used promoters in iGEM.

Measurement & Modeling

We measured noise in fluorescence data for dual-integrated sets of CFP and YFP under three promoters: BBa_R0010, BBa_R0011, and BBa_R0051. We also developed an analytic model of the impact of plasmid copy number fluctuations on transcriptional noise, which revealed that intrinsic noise cannot be accurately measured from reporters on the pSB1X3 plasmid series.

Click to go to Measurement

Data & Analysis

Click to go to the Model.

Plasmid Fluctuation Model

Human practices

Our Human Practices effort was a multi-faceted outreach approach to science literacy, focusing specifically on spreading a basic understanding of synthetic biology to the general public. We collaborated with numerous organizations to host nine educational Synthetic Biology workshops for the public (from first graders to adults!) and to implement our educational 24-activity Synthetic Biology booklet into schools worldwide, to further sustain our efforts for years to come.

...

Adult Communication

...

Youth Education

...

Long-Term Sustainability

Collaboration

W&M iGEM met and exceeded iGEM's collaboration requirements by collaborating with other researchers in four main ways: creating a pen pal program to connect teams with similar projects, participating in the interlab measurement study, interviewing the general public to provide data to future teams about how to communicate synthetic biology, and collaborating on individual research projects with iGEM teams from University of Georgia, University of Maryland, and Cambridge.

Medal Criteria

We're very proud of all of our accomplishments from over the summer! Click here to learn more about what we did to reach our goals.

Click here to check out the software we made to help us make sense of sequencing results of complex parts!

Software

2015 Jamboree Results

Undergraduate Grand Prize Winner

Best in Track: Measurement

Best Education & Public Engagement

Best Presentation

Nominee: Best Mathematical Model