Difference between revisions of "IGEM:Imperial/2010/Strategy"

From OpenWetWare
Jump to: navigation, search
(Strategy)
Line 1: Line 1:
 +
{{Imperial2010/Header}}
 
=Strategy=  
 
=Strategy=  
  

Revision as of 08:14, 23 September 2010

<html>

<head>
 <meta http-equiv="Content-Type" content="text/html; charset=utf-8" />
 <script type="text/javascript" src="http://ajax.googleapis.com/ajax/libs/jquery/1.4.2/jquery.min.js"></script>
 <script type="text/javascript">
  $(document).ready(function(){

$(function(){

var path = location.pathname.substring(1);
if ( path )
$('#headover ul li a[href$="' + path + '"]').addClass("curlink").css("color","#ea8828");;
var vCurlink = $('#headover ul li a[href$="' + path + '"]').attr("id");
$('#'+vCurlink+'.listhead').addClass('curlink').css("color","#444444");

});

$('#menuback').mouseover(function() {

$('#headover').stop().animate({height:'150px',top:'0px'},1000);

});

$('#menu').mouseleave(function() {

$('.listhead').not('.curlink').css("color","#ffffff");
$('.listmain').not('.curlink').css("color","#dddddd");
$('#headover ul').fadeOut(200);
$('#headover').stop().animate({height:'50px',top:'100px'},1000);

});

$('.listhead').mouseover(function(){

$('.listhead').not('.curlink').css("color","#ffffff");
$(this).css("color","#444444");
$('#headover ul').css("display","none");
var vActive = $(this).attr("id");
$('.'+vActive).stop().fadeIn(200);

});

$('.listmain').mouseover(function(){

$('.listmain').not('.curlink').css("color","#dddddd");
$(this).css("color","#ea8828");

});

$('#headover').mouseleave(function(){

$('.listmain').not('.curlink').css("color","#dddddd");

});

  });
 </script>
 <style type="text/css">
  .firstHeading {
   display: none;}
  #content {
   width: 900px;
   font-family: helvetica, arial, sans-serif;
   color: #555555}
  #title {
   width:900px;
   height:50px;
   position: relative;
   top: 0px;
   left: 0px;}
  #implogo {
   width:190px;
   height:50px;
   position: absolute;
   top: 0px;
   left: 20px;
   background-image:url(http://openwetware.org/images/c/c9/Imperialigemimplogo.jpg);}
  #igemlogo {
   width:84px;
   height:50px;
   position:absolute;
   top:0px;
   left:260px;
   background-image:url(http://openwetware.org/images/9/9c/Imperialigemigemlogo.jpg);}
  #csynbilogo {
   width:205px;
   height:50px;
   position:absolute;
   top:0px;
   left:394px;
   background-image:url(http://openwetware.org/images/a/ac/Imperialigemcsynbilogo.jpg);}
  #menu {
   width:900px;
   height:150px;
   position: relative;
   top: 20px;
   left: 0px;}
  #menuback {
   width:100px;
   height:150px;
   position: absolute;
   top: 0px;
   left: 0px;
   background-color: #ea8828}
  #headpic {
   width:800px;
   height:150px;
   position: absolute;
   top: 0px;
   left: 100px;
   background-image: url('http://openwetware.org/images/5/54/Imperialigemheadone.jpg'); }
  #headover {
   width: 800px;
   height:50px;
   position: absolute;
   top: 100px;
   left: 0px;
   background: url(http://openwetware.org/images/d/d8/Imperialigemheadoverone.png) 0px 0px no-repeat; }
  a {
   outline:none;}
  #headtit{
   font-family: helvetica, arial, sans-serif;
   font-size: 1.2em;
   color: #ffffff;
   position: absolute;
   top: 0.5em;
   right: 1.4em;}
  .dark{
   color: #dddddd;}
  .highlight{
   color: #ea8828;}
  #menulist{
   position: absolute;
   top: 16px;
   left: 3px;
   list-style: none;}
  #menulist li{
   height: 30px;
   }
  #menulist li a{
   font-weight: 100;
   font-size: 1.2em;
   text-decoration: none;
   font-family: helvetica, arial, sans-serif;
   color: #ffffff;}
  #headover ul{
   list-style: none;
   display: none;
   position: absolute;
   top: 1.2em;
   left: 0.2em;
   }
  #headover ul ul{
   position: absolute;
   top:-0.2em;
   left: 15em;}
  #headover ul li{
   height: 2.4em;
   }
  #headover ul li a{
   font-weight: 100;
   font-size: 1.2em;
   text-decoration: none;
   font-family: helvetica, arial, sans-serif;
   color: #dddddd;}
 </style>
</head>
<body>
 <div id='title'>
  <div id='implogo'>
  </div>
  <div id='igemlogo'>
  </div>
  <div id='csynbilogo'>
  </div>
 </div>
 <div id='menu'>
  <div id='menuback'>
   <ul id='menulist'>
    <li><a href='#' class='listhead' id='project'>Project</a></li>
    <li><a href='#' class='listhead' id='plan'>Plan</a></li>
    <li><a href='#' class='listhead' id='results'>Results</a></li>
    <li><a href='#' class='listhead' id='extra'>Extra</a></li>
   </ul>
  </div>
  <div id='headpic'>
   <div id='headover'>
    <p id='headtit'>Parasight<span class='dark'> &nbsp;<span class='highlight'>|</span>&nbsp;&nbsp;Parasite detection with a rapid response</span></p>
    <ul class='project'>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010' class='listmain' id='project'>Overview</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Detection_module' class='listmain' id='project'>Detection Module</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Fast_Response_module' class='listmain' id='project'>Fast Response Module</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Output_module' class='listmain' id='project'>Output Module</a></li>
     <ul class='project'>
      <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Ethics' class='listmain' id='project'>Ethics</a></li>
      <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Parts' class='listmain' id='project'>Parts</a></li>
      <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Papers' class='listmain' id='project'>Papers</a></li>
     </ul>
    </ul>
    <ul class='plan'>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Strategy' class='listmain' id='plan'>Strategy</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Parts/Synthesis' class='listmain' id='plan'>Synthesis</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Lab_Work' class='listmain' id='plan'>Lab Work</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Protocol' class='listmain' id='plan'>Protocol</a></li>
     <ul class='plan'>
      <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Modelling' class='listmain' id='plan'>Modelling</a></li>
     </ul>
    </ul>
    <ul class='results'>
     <li><a href='#' class='listmain' id='results'>Under Construction</a></li>
    </ul> 
    <ul class='extra'>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Projects' class='listmain' id='extra'>Brainstorming</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Journal_Club' class='listmain' id='extra'>Journal Club</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Movie_Night' class='listmain' id='extra'>Movie Night</a></li>
     <li><a href='http://openwetware.org/wiki/IGEM:Imperial/2010/Judging_Criteria' class='listmain' id='extra'>Judging Criteria</a></li>
    </ul> 
   </div>
  </div>
 </div>
</body>

</html> <html>

<head>
 <style type="text/css">
  #blank {
   height:40px;
   width: 900px;
 </style>
</head>
<body>
 <div id="blank">
 </div>
</body>

</html>

Strategy

Please refer to the assembly strategy for details.

Three Lab-teams are currently working in parallel to assemble parts which will be needed for down-stream steps, as soon as the synthesized sequences arrive.

Key updates:

  • XylE characterization: Transformation of XylE into the terminator vector has been successful. Assays can be started with.
  • GFP-XylE characterization: The GFP-XylE construct has produced some difficulties: after a new GFP primer had to be ordered to create a corrected TEV overhang, the first annealing reactions may have been successful - however confusion in the lab caused loss of the reactions. Currently, Kirstin is working on the annealing reaction and will also PCR-blunt the product into a vector which allows efficient digestion by XbaI and SpeI. Piotr and Nick have been working on the promoter-RBS part necessary for expression of GFP-XylE and are now about to transform. We hope to be able to purify expressed GFP-XylE from e.coli by the end of next week.
  • The PryD-vector assembly is about to be finished.
  • The AmyE-vector assembly has been slowed down by excessive background in the transformation of the Oligo (Dif-PmE). A new attempt is currently being carried out and looks promising so far. In case of success,the final step in the AmyE assembly can be carried out.
  • The surface protein assembly has not proceeded to a satisfying state. Severe problems with digestions and transformations of LytC and the pveg-promoter have been delaying progress. However the previously assembled terminator vector has already been successfully used in several other assembly lines.
  • We are still waiting for the arrival of synthesised LacI-TEV, ComE, ComD and two Linker constructs. As the sequences are not required just yet, they are currently not slowing down our progress.



Assembly strategy

Assembly strategy version 1.1

Wolfs checklist

Additional primers - work in progress
  • 14 other primers will be required. Design is in progress (pic of word tabl)- have been ordered (OK)
  • Experimental design for XylE e.coli testing! (OK)
  • Functional testing strategies have been developed and have been indicated in the overall assembly strategy diagram. Need to be written up properly!
  • Strategies for testing of expression etc have to be developed and structured. (OK)
  • List of parts for submission has to be assembled.
  • ComE promoter system - recap on mode of function.

File:Primers1.1.docx