Team:BostonU/Acknowledgements

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Acknowledgements

As synthetic biology continues to expand, researchers are producing a greater variety of novel and innovative genetic circuits. This research revolves around a standard design-build-test cycle that defines the timeline of a project from its conception. The design and assembly of constructs depends on a thorough understanding of their individual components, making thorough part characterization data essential. The fact that there is currently little standardization in DBT workflows and poorly documented standard parts libraries represents an increasingly significant stymying factor to the growth of the field, especially as more laboratories continue to share resources and data. We seek to strengthen the traditional design-build-test cycle fundamental to synthetic biology with a formalized workflow defined by bio-design automation software tools and built upon a thoroughly characterized library of parts.

Motivation and Background

We will complete a library of basic parts currently composed of existing ribosomal binding sites and terminators from the CIDAR Lab by adding a series of tandem promoters, fusion proteins, and vector backbones. These parts will will then be cloned using the MoClo assembly method in multiplexing reactions to create a library of transcriptional units. Data will be gathered for these TUs using flow cytometry in conjunction with the TASBE Tools developed at BBN Technologies to characterize all the parts in our library. The TASBE Tools allow for calibrated measurement of gene expression in absolute units of fluorescence, and will allow for effectively designing multi-TU genetic circuits. We hypothesize that guiding the design and construction of complex circuits with our characterization data and workflow will streamline the traditional design-build-test cycle and aid in a more efficient process for the assembly of novel devices.

As a measurement team, we will also use our flow cytometer and the TASBE Tools to enhance the documentation of existing Registry parts. We will contribute our entire basic parts and TU libraries to the Registry to enable other synthetic biology groups to rely on well-characterized parts and methods for their research.

Our Sponsors

@@ Line 9: / Line 9: @@
 <pageheader>Acknowledgements</pageheader>
+   <maincontent>
      <table width="100%" border="0" cellspacing="15" cellpadding="0">
-<maincontent>
-<tr>
-<th colspan="2" scope="col"><h2>CIDAR Lab</h2></th>
-</tr>
-  <tr>
-<th scope="col" colspan="2"><center><img src="https://static.igem.org/mediawiki/2013/7/7d/Cidar_logo.png" width="300px"></center></th></tr>
-<tr>
-    <th rowspan="2" scope="col"><img src="https://static.igem.org/mediawiki/2013/d/d1/DougHeadshot2.png" width="150"></th>
-    <th scope="col"><header3>Professor Douglas Densmore</header3><br>Primary Investigator, CIDAR Lab<br><br>We would like to thank Professor Densmore for his lab space and his support throughout the summer.</th>
-  </tr><tr><td></td></tr>
-<br>
        <tr>
-         <th rowspan="2" scope="col"><img src="https://static.igem.org/mediawiki/2013/b/b2/ErnstHeadshot.png" width="150"></th>
+         <th scope="col">As synthetic biology continues to expand, researchers are producing a greater variety of novel and innovative genetic circuits. This research revolves around a standard design-build-test cycle that defines the timeline of a project from its conception. The design and assembly of constructs depends on a thorough understanding of their individual components, making thorough part characterization data essential. The fact that there is currently little standardization in DBT workflows and poorly documented standard parts libraries represents an increasingly significant stymying factor to the growth of the field, especially as more laboratories continue to share resources and data. We seek to strengthen the traditional design-build-test cycle fundamental to synthetic biology with a formalized workflow defined by bio-design automation software tools and built upon a thoroughly characterized library of parts.</th>
-<th scope="col"><header3>Dr. Ernst Oberortner</header3><br>Postdoctoral Researcher, CIDAR Lab<br><br>We would also like to thank Dr. Ernst Oberortner for his help with <a href="http://eugenecad.org/" target="_blank">Eugene</a>.</th>
+<th scope="col"><img src="https://static.igem.org/mediawiki/2014/d/d9/Chimera_plasmid_BU14.png" height="300" width="300" alt="ChimeraPlasmid" style="float:right" style= "margin-left:10px"><br><br><capt></capt></th>
-      </tr><tr><td></td></tr><tr><td></td></tr>
-<br>
-<tr>
-<th colspan="2" scope="col"><br><h2>Corporate Collaborations</h2></th>
-</tr>
-<br>
-<tr>
-        <th rowspan="2" scope="col"><img src="https://static.igem.org/mediawiki/2013/1/1f/BU_JBeal.jpg" width="150"></th>
-<th scope="col"><header3>Jacob Beal</header3><br>BBN Technologies<br>We would like to thank Dr. Jacob Beal from BBN Technologies for teaching us how to use the BBN Synthetic Biology Tools.</th>
-      </tr><tr><td></tr></td>
-<br>
-<tr>
-<th colspan="2" scope="col"><br><h2>Contributions</h2></th>
-</tr>
-<br>
-<tr>
-        <th scope="col" colspan="2">The wetlab work was completed by Yash Agarwal (fusion proteins), Alan Pacheco (new vector backbones), and Katie Lewis (tandem promoters). Alan also designed our wiki page. Our advisor, Traci Haddock, and our mentor, Evan Appleton, trained us in the lab and provided us troubleshooting advice throughout the project. Ariela Esmuria did the wetlab work for the Interlab Study.</th>
        </tr>
-<tr>
+      <tr>
-<th colspan="2" scope="col"><br><h2>Sponsors</h2></th>
+        <th colspan="2" scope="col">
-</tr>
+<h2>Motivation and Background</h2>
 <br>
-<tr>
+We will complete a library of basic parts currently composed of existing ribosomal binding sites and terminators from the <a href="http://cidarlab.org/" target="_blank">CIDAR Lab</a> by adding a series of <a href="https://2014.igem.org/Team:BostonU/TandemPromoters">tandem promoters</a>, <a href="https://2014.igem.org/Team:BostonU/FusionProteins">fusion proteins</a>, and <a href="https://2014.igem.org/Team:BostonU/Backbones">vector backbones</a>. These parts will will then be cloned using the <a href="https://2014.igem.org/Team:BostonU/MoClo">MoClo</a> assembly method in multiplexing reactions to create a library of transcriptional units. Data will be gathered for these TUs using flow cytometry in conjunction with the <a href="https://synbiotools.bbn.com/" target="_blank">TASBE Tools</a> developed at <a href="http://www.bbn.com/" target="_blank">BBN Technologies</a> to characterize all the parts in our library. The TASBE Tools allow for calibrated measurement of gene expression in absolute units of fluorescence, and will allow for effectively designing multi-TU genetic circuits. We hypothesize that guiding the design and construction of complex circuits with our characterization data and workflow will streamline the traditional design-build-test cycle and aid in a more efficient process for the assembly of novel devices.
-        <th scope="col" colspan="2">We'd like to thank all of our sponsors for their generous support. Without the support from the following Boston University departments and corporate sponsors, we would not have been able to compete in iGEM.<br><br><center>Thank you very much!<center></th>
+<br><br>
-      </tr></tr>
+As a measurement team, we will also use our flow cytometer and the TASBE Tools to enhance the documentation of existing Registry parts. We will contribute our entire basic parts and TU libraries to the Registry to enable other synthetic biology groups to rely on well-characterized parts and methods for their research.
-  </maincontent>
+</th>
+ </tr>
 </table>
+  </maincontent>
 </div>