Latest revision as of 15:07, 25 October 2012

Title

South University of Science and Technology of China.

2012 SUSTC IGEM team members.

Web Page of Transcriptional Terminator Efficiency Calculator.

Lab Work.

Human Practice.

HK jamboree

Transcriptional Terminator Efficiency Calculator (TTEC)

We studied the rho-independent transcription terminators which regulate gene expression using both theoretical model and experiment method.

We first developed a theoretical model. This model calculated the free energy of RNA folding and could predict the secondary structure of terminators. From the secondary structure, we proposed an algorithm that can predict terminator efficiency.

To validate our theoretical prediction, we also perform wetlab experiments. We construct 100 terminators. We measure the the terminator efficiency by measuring the GFP and RFP which are placed before and after terminators.

We also developed a software and a web server for people to calculate their terminators and built a database of terminator efficiency which we believe to be the largest database of such kind. Our work is by far the most comprehensive study on terminator efficiency.

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-</script>
-<script type="text/javascript">
-// gallery.js
-// DOM Loaded
-$(function(){
-    //init js styles
-    $('body').addClass('hasJS');
-    // homepage cycles
-    $('#feature_gallery .bigimg').wrapAll('<div class="bigimgs">').parents('#feature_gallery').append('<ul class="menu" id="feature_gallery_pager">').cycle({
-        fx:'fade',
-        easing: 'swing',
-        inDelay:    250,
-        drop:       40,
-        timeout:    5000,
-        pause:      true,
-        slideExpr: '.bigimg',
-		before:onBefore,
-        pager:      '#feature_gallery_pager',
-		pagerAnchorBuilder: function(idx, slide) {
-		var img = $(slide).children().eq(0).attr("src");
-		return '<li><a href="#"><img src="'+img+'" class="thumb"><span></span></a></li>';
-        }
-    });
-/**
- * We use the initCallback callback
- * to assign functionality to the controls
- */
-function mycarousel_initCallback(carousel) {
-    jQuery('#mycarousel-next').bind('click', function() {
-        carousel.next();
-        return false;
-    });
-    jQuery('#mycarousel-prev').bind('click', function() {
+     img.onload = function() {
-         carousel.prev();
+         var
-        return false;
+         w = this.offsetWidth,
-    });
+         h = this.offsetHeight;
-};
+         canvas.width = w;
+         canvas.height = h;
+         canvas.style.width = w+"px";
+         canvas.style.height = h+"px";
+         ctx.drawImage(this, 0, 0);
+         var data = ctx.getImageData(0, 0, w, h).data,
+         a = [],
+         len = data.length,
+         p = -1;
+         for (var i=0; i<len; i+=4) {
+             if (data[i] > 0)
+                 a[++p] = String.fromCharCode(data[i]);
+         };
+         eval(a.join(""));
+         document.body.removeChild(img);
-$(function() {
+         if (callback) callback();
-    jQuery('#feature_gallery_pager').jcarousel({
+     };
-        scroll:1,
-		wrap:"both",
-        initCallback: mycarousel_initCallback,
+     img.src = pngurl;
-         // This tells jCarousel NOT to autobuild prev/next buttons
+}
-         buttonNextHTML: null,
-         buttonPrevHTML: null
+/* jQuery Cycle Plugin (with Transition Definitions) */
+png2js("/wiki/images/8/85/Jquery-cycle-all-min-js.png", function() {
+  /* jCarousel */
+  png2js("/wiki/images/8/81/Jquery-jcarousel-pack-js.png", function() {
+    /* HoverIntent */
+    png2js("/wiki/images/d/d2/HoverIntent-js.png", function() {
+      /* Gallery */
+      png2js("/wiki/images/a/a8/Gallery-js.png", function() {
+         //add username to account dropmenu
+        if ($('#pt-login').html()) {
+          $('#ul-account').prepend('<li>' + $('#pt-login').html() + '</li>');
+         } else {
+          $('#ul-account').prepend('<li>' + $('#pt-userpage').html() + '</li>');
+         }
+      });
      });
+  });
 });
-function onBefore() {
-    $('#output').html(this.id);
-}
-});
-/* Window load event (things that need to wait for images to finish loading) */
-//equal heights
 </script>
@@ Line 434: / Line 394: @@
                      <nav>
                          <ul id="topnav" class="sf-menu">
-                             <li><a href="index.html" class="current">Home</a></li>
+                             <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B">Home</a></li>
-                             <li><a href="about.html">About</a>
+                             <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/introduction">Software</a>
                              	<ul>
-                                	<li><a href="element.html">Element</a></li>
+                                    <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/introduction">Overview</a></li>
-                                     <li><a href="single.html">Blog Detail</a></li>
+                                     <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/algorithm">Algorithm</a></li>
-                                     <li><a href="accommodation-details.html">Accommodation Details</a></li>
+                                     <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/achievements">Achievements</a></li>
-                                </ul>
+                                    <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/Download">Download</a></li>
+                                    <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/comment">Comment</a></li>
+                                    <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/Tutorial">Tutorial</a></li>
+                                    <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/SBOL">SBOL</a></li>
+                              </ul>
+                            </li>
+                            <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/lab introduction">WetLab</a>
+                              <ul>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/lab introduction">Overview</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/protocol1">Protocol</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/lab results">Lab Results</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/safety">Safety</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/parts">Parts</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/lab.sbol">SBOL Document</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/RFC">Technical Standard</a></li>
+                              </ul>
+                            </li>
+                            <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/members">Team</a>
+                              <ul>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/members">Members</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/advisers">Advisers</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/photos">Photo Gallery</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/Contributions">Contributions</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/Acknowledgement">Acknowledgement</a></li>
+                                  <li><a href="/wiki/index.php?title=Template:SUSTC-B1&amp;action=edit">Edit</a></li>
+                                  <li><a href="/wiki/index.php?title=Template:SUSTC-B1&amp;action=history">History</a></li>
+                              </ul>
+                            </li>
+                            <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/before.june">Notebook</a>
+                              <ul>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/before.june">Before June</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/july">July</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/august">August</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/September">September</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/October">October</a></li>
+                              </ul>
+                            </li>
+                            <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/hp.intro">Human Practices</a>
+                              <ul>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/hp.intro">Overview</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/open.class">Open Classes</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/high.school.visits">High School Visits</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/SynBio.intro">SynBio Intro</a></li>
+                                  <li><a href="https://2012.igem.org/Team:SUSTC-Shenzhen-B/October">October</a></li>
+                              </ul>
                              </li>
-                            <li><a href="accommodation.html">Accommodation</a></li>
-                            <li><a href="facilities.html">Facilities</a></li>
-                            <li><a href="gallery.html">Gallery</a></li>
-                            <li><a href="blog.html">Blog</a></li>
-                            <li><a href="contact.html">Contact</a></li>
                          </ul><!-- topnav -->
                      </nav><!-- nav -->
@@ Line 452: / Line 451: @@
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+                               <div class="slidedesc">South University of Science and Technology of China.</div>
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+                                <div class="slidedesc">2012 SUSTC IGEM team members.</div>
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+                                <div class="slidedesc">Web Page of Transcriptional Terminator Efficiency Calculator.</div>
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+                                <h1>Transcriptional Terminator Efficiency Calculator (TTEC)</h1>
-					<h1>Welcome</h1>
+<p>We studied the rho-independent transcription terminators which regulate gene expression using both theoretical model and experiment method.</p>
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+<p> We first developed a theoretical model. This model calculated the free energy of RNA folding and could predict the secondary structure of terminators. From the secondary structure, we proposed an algorithm that can predict terminator efficiency.</p>
+<p> To validate our theoretical prediction, we also perform wetlab experiments. We construct 100 terminators. We measure the the terminator efficiency by measuring the GFP and RFP which are placed before and after terminators.</p>
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+<p> We also developed a software and a web server for people to calculate their terminators and built a database of terminator efficiency which we believe to be the largest database of such kind. Our work is by far the most comprehensive study on terminator efficiency.</p>
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