Team:CSU Fort Collins/Notebook/Breakdown/Jul

From 2014.igem.org

(Difference between revisions)
(Created page with "{{CSS/Main}} <html> <title>Breakdown Notes - June</title> <head> <link href='http://fonts.googleapis.com/css?family=Bitter:400,700,400italic' rel='stylesheet' type='text/css...")
 
(12 intermediate revisions not shown)
Line 4: Line 4:
-
<title>Breakdown Notes - June</title>
+
<title>Biosensor Notes - June</title>
<head>
<head>
Line 590: Line 590:
.page a{
.page a{
     border-bottom: dotted 2px;
     border-bottom: dotted 2px;
 +
}
 +
#banner a:hover{
 +
opacity: 0.8;
}
}
Line 600: Line 603:
<body style='margin:0'>
<body style='margin:0'>
-
<div id='banner'><center><img src='http://oi57.tinypic.com/1498eg5.jpg' style='width:100%; margin-top:-200px'/>
+
<div id='banner'><center><img src='https://static.igem.org/mediawiki/2014/b/b2/Team-CSU_Notebook.jpg' style='width:100%; margin-top:-300px'/><a href='https://2014.igem.org/Main_Page'><img src='https://static.igem.org/mediawiki/2014/d/d7/Sysuchina_igemdeLogo.png' style="width:80px; position:absolute; top: 10px; right: 20px; opacity:0.95;"/></a>
</center></div>
</center></div>
Line 617: Line 620:
       <ul>
       <ul>
         <li><a href='/Team:CSU_Fort_Collins/Members/'><span>Members</span></a></li>
         <li><a href='/Team:CSU_Fort_Collins/Members/'><span>Members</span></a></li>
-
         <li class='last'><a href='/Team:CSU_Fort_Collins/Sponsors/'><span>Sponsors</span></a></li>
+
        <li><a href='/Team:CSU_Fort_Collins/Sponsors/'><span>Sponsors</span></a></li>
 +
         <li class='last'><a href='/Team:CSU_Fort_Collins/Acknowledgements/'><span>Acknowledgements</span></a></li>
       </ul>
       </ul>
   </li>
   </li>
Line 641: Line 645:
             </ul>
             </ul>
         </li>
         </li>
-
         <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/'><span>Breakdown</span></a>
+
         <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Jul'><span>Breakdown</span></a>
             <ul>
             <ul>
-
               <li><a href="#"><span>July</span></a></li>
+
               <li><a href="/Team:CSU_Fort_Collins/Notebook/Breakdown/Jul"><span>July</span></a></li>
-
               <li><a href='#'><span>August</span></a></li>
+
               <li><a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Aug'><span>August</span></a></li>
-
               <li class='last'><a href="#"><span>September</span></a></li>
+
               <li class='last'><a href="/Team:CSU_Fort_Collins/Notebook/Breakdown/Sep"><span>September</span></a></li>
             </ul>
             </ul>
         </li>
         </li>
-
         <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/HVP/'><span>High-Value Product</span></a>
+
         <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/HVP/Jun'><span>High-Value Product</span></a>
             <ul>
             <ul>
-
               <li><a href="#"><span>June</span></a></li>
+
               <li><a href="/Team:CSU_Fort_Collins/Notebook/HVP/Jun"><span>June</span></a></li>
-
              <li><a href="#"><span>July</span></a></li>
+
               <li class='last'><a href="/Team:CSU_Fort_Collins/Notebook/HVP/Jul"><span>July</span></a></li>
-
              <li><a href='#'><span>August</span></a></li>
+
-
               <li class='last'><a href="#"><span>September</span></a></li>
+
             </ul>
             </ul>
         </li>
         </li>
-
         <li li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/KillSwitch/'><span>Kill Switch</span></a>
+
         <li li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/KillSwitch/Jul'><span>Kill Switch</span></a>
             <ul>
             <ul>
-
               <li><a href="#"><span>July</span></a></li>
+
               <li><a href="/Team:CSU_Fort_Collins/Notebook/KillSwitch/Jul"><span>July</span></a></li>
-
              <li><a href='#'><span>August</span></a></li>
+
               <li class='last'><a href="/Team:CSU_Fort_Collins/Notebook/KillSwitch/Sep"><span>September</span></a></li>
-
               <li class='last'><a href="#"><span>September</span></a></li>
+
             </ul>
             </ul>
         </li>
         </li>
Line 667: Line 668:
   </ul>
   </ul>
   </li>
   </li>
-
   <li class='has-sub'><a href='/Team:CSU_Fort_Collins/HumPrac/'><span>Human Practices</span></a>
+
   <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Collab/'><span>Human Practices</span></a>
       <ul>
       <ul>
         <li><a href='/Team:CSU_Fort_Collins/Collab/'><span>Collaboration</span></a></li>
         <li><a href='/Team:CSU_Fort_Collins/Collab/'><span>Collaboration</span></a></li>
Line 673: Line 674:
       </ul>
       </ul>
   </li>
   </li>
-
   <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Achievements/'><span>Achievements</span></a>
+
   <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Parts/'><span>Achievements</span></a>
       <ul>
       <ul>
         <li><a href='/Team:CSU_Fort_Collins/Parts/'><span>Parts</span></a></li>
         <li><a href='/Team:CSU_Fort_Collins/Parts/'><span>Parts</span></a></li>
Line 679: Line 680:
       </ul>
       </ul>
   </li>
   </li>
-
   <li><a href='/Team:CSU_Fort_Collins/Safety/'><span>Safety</span></a></li>
+
   <li class='last'><a href='/Team:CSU_Fort_Collins/Safety/'><span>Safety</span></a></li>
</ul>
</ul>
</div>
</div>
-
 
Line 696: Line 696:
       <div class="month-group">
       <div class="month-group">
         <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Jul'>July</a>
         <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Jul'>July</a>
 +
</div>
         <p>Lac Promoter and FadD Assembly</p>
         <p>Lac Promoter and FadD Assembly</p>
-
      </div>
 
       <div class="month-group">
       <div class="month-group">
         <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Aug'>August</a>
         <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Aug'>August</a>
-
         <p>PLR, PFL, and PFL2 Assembly</p>
+
</div>
-
      </div>
+
         <p>More of the Same, But Better</p>
       <div class="month-group">
       <div class="month-group">
         <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Sep'>September</a>
         <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Sep'>September</a>
-
        <p>Scientists vs. the PCR Machine</p>
 
-
      </div>
 
-
  </div>
 
-
 
-
  <div class='page'>
 
-
    <p>
 
-
        <p>
 
-
    <h2>JUNE</h2>
 
-
    <h4>Monday, June 2 - Friday, June 6</h4>
 
-
    Had a group meeting to discuss project ideas and paths forward. Received and organized lab supplies. Began literature search for biosensor genes that perform similarly to our goal.
 
-
 
-
    <h4>Monday, June 9 - Friday, June 13</h4>
 
-
    Drafted primers to be created by PMF in order to construct promotors based upon Zhang et al.  Diagrammed our plasmid. Researched the Beta-Oxidation pathway.
 
-
 
-
    <h4>Monday, June 16 - Friday, June 20</h4>
 
-
    Received primers from PMF and made working concentrations for our experiment. Ran "Promoter Assembly" for all four primers and ran a PCR for PLR.
 
-
 
-
    <h4>Monday, June 23 - Friday, June 27</h4>
 
-
    Ran a gel to test the success of the PCR for PLR, and it appeared successful. PAR and PFL were assembled and run through their PCR protocols. Created PCR backups due to uncertainty of ligation prep.  Worked on app development.
 
-
 
-
    </p>
 
-
 
-
    </p>
 
-
    <br><br>
 
-
 
-
    <center><a href='/Team:CSU_Fort_Collins/Notebook/Protocols=Purify' id='navi' style='margin-left:-20px; margin-right:40px'> Previous</a> <a href='/Team:CSU_Fort_Collins/Notebook/Biosensor/Jul' id='navi'>Next </a></center>
 
-
  </div>
 
-
 
-
  </center>
 
</div>
</div>
-
 
+
         <p>One Thousand and One Nights</p>
-
 
+
-
 
+
-
 
+
-
 
+
-
 
+
-
<script type="text/javascript" src="https://code.jquery.com/jquery-2.1.1.min.js"></script>
+
-
<script type='text/javascript'>
+
-
  $('#cssmenu').prepend('<div id="indicatorContainer"><div id="pIndicator"><div id="cIndicator"></div></div></div>');
+
-
      var activeElement = $('#cssmenu>ul>li:first');
+
-
 
+
-
      $('#cssmenu>ul>li').each(function() {
+
-
          if ($(this).hasClass('active')) {
+
-
              activeElement = $(this);
+
-
          }
+
-
      });
+
-
 
+
-
 
+
-
    var posLeft = activeElement.position().left;
+
-
    var elementWidth = activeElement.width();
+
-
    posLeft = posLeft + elementWidth/2 -6;
+
-
    if (activeElement.hasClass('has-sub')) {
+
-
      posLeft -= 6;
+
-
    }
+
-
 
+
-
    $('#cssmenu #pIndicator').css('left', posLeft);
+
-
    var element, leftPos, indicator = $('#cssmenu pIndicator');
+
-
   
+
-
    $("#cssmenu>ul>li").hover(function() {
+
-
          element = $(this);
+
-
          var w = element.width();
+
-
          if ($(this).hasClass('has-sub'))
+
-
          {
+
-
            leftPos = element.position().left + w/2 - 12;
+
-
          }
+
-
          else {
+
-
            leftPos = element.position().left + w/2 - 6;
+
-
          }
+
-
 
+
-
          $('#cssmenu #pIndicator').css('left', leftPos);
+
-
      }
+
-
      , function() {
+
-
         $('#cssmenu #pIndicator').css('left', posLeft);
+
-
      });
+
-
 
+
-
    $('#cssmenu>ul').prepend('<li id="menu-button"><a>Menu</a></li>');
+
-
    $( "#menu-button" ).click(function(){
+
-
          if ($(this).parent().hasClass('open')) {
+
-
            $(this).parent().removeClass('open');
+
-
          }
+
-
          else {
+
-
            $(this).parent().addClass('open');
+
-
          }
+
-
        });
+
-
</script>
+
-
<script type="text/javascript">
+
-
$(document).ready(function(){
+
-
    $(document).on('click', '.show', function(){
+
-
          $('.toc').show(100);
+
-
          $('.show').hide();
+
-
    });
+
-
    $(document).on('click', '.hide', function(){
+
-
          $('.toc').hide();
+
-
          $('.show').show(100);
+
-
    });
+
-
});
+
-
</script>
+
-
<script type='text/javascript'>
+
-
  $(document).ready(function() {
+
-
 
+
-
    //Calculate the height of <header>
+
-
    //Use outerHeight() instead of height() if have padding
+
-
    var aboveHeight = $('#banner').height();
+
-
 
+
-
//when scroll
+
-
    $(window).scroll(function(){
+
-
 
+
-
        //if scrolled down more than the header’s height
+
-
            if ( $(window).scrollTop() > aboveHeight ){
+
-
 
+
-
        // if yes, add “fixed” class to the <nav>
+
-
        // add padding top to the #content
+
-
            //(value is same as the height of the nav)
+
-
            $('#cssmenu').addClass('fixed').next().css('padding-top','44');
+
-
           
+
-
 
+
-
            } else {
+
-
 
+
-
        // when scroll up or less than aboveHeight,
+
-
            //remove the “fixed” class, and the padding-top
+
-
            $('#cssmenu').removeClass('fixed').next().css('padding-top','0');
+
-
         
+
-
            }
+
-
 
+
-
            if ( $(window).scrollTop() > aboveHeight-14 ){
+
-
              $('#top-section').addClass('disp');
+
-
            } else{
+
-
            $('#top-section').removeClass('disp');
+
-
            }
+
-
        });
+
-
    });
+
-
 
+
-
</script>
+
-
 
+
-
 
+
-
</body>
+
-
 
+
-
</html>
+
-
{{CSS/Main}}
+
-
 
+
-
<html>
+
-
 
+
-
 
+
-
<title>Breakdown Notes - June</title>
+
-
 
+
-
<head>
+
-
 
+
-
<link href='http://fonts.googleapis.com/css?family=Bitter:400,700,400italic' rel='stylesheet' type='text/css'>
+
-
<link href='http://fonts.googleapis.com/css?family=Muli:300,400' rel='stylesheet' type='text/css'>
+
-
 
+
-
 
+
-
<style type="text/css">
+
-
/* http://meyerweb.com/eric/tools/css/reset/
+
-
  v2.0 | 20110126
+
-
  License: none (public domain)
+
-
*/
+
-
 
+
-
html, body, div, span, applet, object, iframe, p, blockquote, pre,
+
-
a, abbr, acronym, address, big, cite, code,
+
-
del, dfn, em, img, ins, kbd, q, s, samp,
+
-
small, strike, strong, sub, sup, tt, var,
+
-
b, u, i, center,
+
-
dl, dt, dd, ol, ul, li,
+
-
fieldset, form, label, legend,
+
-
table, caption, tbody, tfoot, thead, tr, th, td,
+
-
article, aside, canvas, details, embed,
+
-
figure, figcaption, footer, header, hgroup,
+
-
menu, nav, output, ruby, section, summary,
+
-
time, mark, audio, video {
+
-
  margin: 0;
+
-
  padding: 0;
+
-
  border: 0;
+
-
  font-size: 90%;
+
-
  font: inherit;
+
-
  vertical-align: baseline;
+
-
}
+
-
/* HTML5 display-role reset for older browsers */
+
-
article, aside, details, figcaption, figure,
+
-
footer, header, hgroup, menu, nav, section {
+
-
  display: block;
+
-
}
+
-
body {
+
-
  line-height: 1;
+
-
}
+
-
blockquote, q {
+
-
  quotes: none;
+
-
}
+
-
blockquote:before, blockquote:after,
+
-
q:before, q:after {
+
-
  content: '';
+
-
  content: none;
+
-
}
+
-
table {
+
-
  border-collapse: collapse;
+
-
  border-spacing: 0;
+
-
}
+
-
 
+
-
#menubar > ul{
+
-
  vertical-align:center;
+
-
  font-size:14px;
+
-
  font-family:'Times New Roman',serif;
+
-
}
+
-
 
+
-
.firstHeading{
+
-
display:none;
+
-
}
+
-
 
+
-
#textbox span{
+
-
  color:#E6B800;
+
-
}
+
-
.photo{
+
-
  width:70%;
+
-
}
+
-
table{
+
-
  font-family:'Muli',sans-serif;
+
-
}
+
-
body{
+
-
  background-color:#EFEFEF;
+
-
  line-height:1.3;
+
-
  font-size:90%;
+
-
}
+
-
#cssmenu {
+
-
  width:100%;
+
-
  height: 44px;
+
-
  background: #222222;
+
-
  position:relative;
+
-
  text-align:center;
+
-
  margin:auto;
+
-
}
+
-
#cssmenu ul {
+
-
  list-style: none;
+
-
  padding: 0;
+
-
  margin: 0;
+
-
  line-height: 1;
+
-
}
+
-
#cssmenu > ul {
+
-
  position: relative;
+
-
  display: block;
+
-
  background: #222222;
+
-
  width: 100%;
+
-
  z-index: 500;
+
-
}
+
-
#cssmenu:after,
+
-
#cssmenu > ul:after {
+
-
  content: '.';
+
-
  display: block;
+
-
  clear: both;
+
-
  visibility: hidden;
+
-
  line-height: 0;
+
-
  height: 0;
+
-
}
+
-
#cssmenu.align-right > ul > li {
+
-
  float: right;
+
-
}
+
-
#cssmenu.align-center ul {
+
-
  text-align: center;
+
-
}
+
-
#cssmenu.align-center ul ul {
+
-
  text-align: left;
+
-
}
+
-
#cssmenu > ul > li {
+
-
  display: inline-block;
+
-
  position: relative;
+
-
  margin: 0;
+
-
  padding: 0;
+
-
}
+
-
#cssmenu > ul > #menu-button {
+
-
  display: none;
+
-
}
+
-
#cssmenu ul li a {
+
-
  display: block;
+
-
  font-family: Helvetica, sans-serif;
+
-
  text-decoration: none;
+
-
}
+
-
#cssmenu > ul > li > a {
+
-
  font-size: 14px;
+
-
  font-weight: bold;
+
-
  padding: 15px 20px;
+
-
  color: #efefef;
+
-
  text-transform: uppercase;
+
-
  -webkit-transition: color 0.25s ease-out;
+
-
  -moz-transition: color 0.25s ease-out;
+
-
  -ms-transition: color 0.25s ease-out;
+
-
  -o-transition: color 0.25s ease-out;
+
-
  transition: color 0.25s ease-out;
+
-
}
+
-
#cssmenu > ul > li.has-sub > a {
+
-
  padding-right: 32px;
+
-
}
+
-
#cssmenu > ul > li:hover > a {
+
-
  color: #E6B800;
+
-
}
+
-
#cssmenu li.has-sub::after {
+
-
  display: block;
+
-
  content: '';
+
-
  position: absolute;
+
-
  width: 0;
+
-
  height: 0;
+
-
}
+
-
#cssmenu > ul > li.has-sub::after {
+
-
  right: 10px;
+
-
  top: 20px;
+
-
  border: 5px solid transparent;
+
-
  border-top-color: #efefef;
+
-
}
+
-
#cssmenu > ul > li:hover::after {
+
-
  border-top-color: #E6B800;
+
-
}
+
-
#indicatorContainer {
+
-
  position: absolute;
+
-
  height: 12px;
+
-
  width: 100%;
+
-
  bottom: 0px;
+
-
  overflow: hidden;
+
-
  z-index: -1;
+
-
}
+
-
#pIndicator {
+
-
  position: absolute;
+
-
  height: 0;
+
-
  width: 100%;
+
-
  border: 12px solid transparent;
+
-
  border-top-color: #2b2f3a;
+
-
  z-index: -2;
+
-
  -webkit-transition: left .25s ease;
+
-
  -moz-transition: left .25s ease;
+
-
  -ms-transition: left .25s ease;
+
-
  -o-transition: left .25s ease;
+
-
  transition: left .25s ease;
+
-
}
+
-
#cIndicator {
+
-
  position: absolute;
+
-
  height: 0;
+
-
  width: 100%;
+
-
  border: 12px solid transparent;
+
-
  border-top-color: #2b2f3a;
+
-
  top: -12px;
+
-
  right: 100%;
+
-
  z-index: -2;
+
-
}
+
-
#cssmenu ul ul {
+
-
  position: absolute;
+
-
  left: -9999px;
+
-
  top: 70px;
+
-
  opacity: 0;
+
-
  -webkit-transition: opacity .3s ease, top .25s ease;
+
-
  -moz-transition: opacity .3s ease, top .25s ease;
+
-
  -ms-transition: opacity .3s ease, top .25s ease;
+
-
  -o-transition: opacity .3s ease, top .25s ease;
+
-
  transition: opacity .3s ease, top .25s ease;
+
-
  z-index: 1000;
+
-
}
+
-
#cssmenu ul ul ul {
+
-
  top: 37px;
+
-
  padding-left: 5px;
+
-
}
+
-
#cssmenu ul ul li {
+
-
  position: relative;
+
-
}
+
-
#cssmenu > ul > li:hover > ul {
+
-
  left: auto;
+
-
  top: 44px;
+
-
  opacity: 1;
+
-
}
+
-
#cssmenu.align-right > ul > li:hover > ul {
+
-
  left: auto;
+
-
  right: 0;
+
-
  opacity: 1;
+
-
}
+
-
#cssmenu ul ul li:hover > ul {
+
-
  left: 170px;
+
-
  top: 0;
+
-
  opacity: 1;
+
-
}
+
-
#cssmenu.align-right ul ul li:hover > ul {
+
-
  left: auto;
+
-
  right: 170px;
+
-
  top: 0;
+
-
  opacity: 1;
+
-
  padding-right: 5px;
+
-
}
+
-
#cssmenu ul ul li a {
+
-
  width: 130px;
+
-
  border-bottom: 1px solid #eeeeee;
+
-
  padding: 10px 20px;
+
-
  font-size: 12px;
+
-
  color: #222222;
+
-
  background: white;
+
-
  -webkit-transition: all .35s ease;
+
-
  -moz-transition: all .35s ease;
+
-
  -ms-transition: all .35s ease;
+
-
  -o-transition: all .35s ease;
+
-
  transition: all .35s ease;
+
-
}
+
-
#cssmenu.align-right ul ul li a {
+
-
  text-align: right;
+
-
}
+
-
#cssmenu ul ul li:hover > a {
+
-
  background: white;
+
-
  color: #E6B800;
+
-
}
+
-
#cssmenu ul ul li:last-child > a,
+
-
#cssmenu ul ul li.last > a {
+
-
  border-bottom: 0;
+
-
}
+
-
#cssmenu > ul > li > ul::after {
+
-
  content: '';
+
-
  border: 6px solid transparent;
+
-
  width: 0;
+
-
  height: 0;
+
-
  border-bottom-color: #efefef;
+
-
  position: absolute;
+
-
  top: -12px;
+
-
  left: 30px;
+
-
}
+
-
#cssmenu.align-right > ul > li > ul::after {
+
-
  left: auto;
+
-
  right: 30px;
+
-
}
+
-
#cssmenu ul ul li.has-sub::after {
+
-
  border: 4px solid transparent;
+
-
  border-left-color: #222222;
+
-
  right: 10px;
+
-
  top: 12px;
+
-
  -moz-transition: all .2s ease;
+
-
  -ms-transition: all .2s ease;
+
-
  -o-transition: all .2s ease;
+
-
  transition: all .2s ease;
+
-
  -webkit-transition: -webkit-transform 0.2s ease, right 0.2s ease;
+
-
}
+
-
#cssmenu.align-right ul ul li.has-sub::after {
+
-
  border-left-color: transparent;
+
-
  border-right-color: #222222;
+
-
  right: auto;
+
-
  left: 10px;
+
-
}
+
-
#cssmenu ul ul li.has-sub:hover::after {
+
-
  border-left-color: #efefef;
+
-
  right: -5px;
+
-
  -webkit-transform: rotateY(180deg);
+
-
  -ms-transform: rotateY(180deg);
+
-
  -moz-transform: rotateY(180deg);
+
-
  -o-transform: rotateY(180deg);
+
-
  transform: rotateY(180deg);
+
-
}
+
-
#cssmenu.align-right ul ul li.has-sub:hover::after {
+
-
  border-right-color: #efefef;
+
-
  border-left-color: transparent;
+
-
  left: -5px;
+
-
  -webkit-transform: rotateY(180deg);
+
-
  -ms-transform: rotateY(180deg);
+
-
  -moz-transform: rotateY(180deg);
+
-
  -o-transform: rotateY(180deg);
+
-
  transform: rotateY(180deg);
+
-
}
+
-
@media all and (max-width: 800px), only screen and (-webkit-min-device-pixel-ratio: 2) and (max-width: 1024px), only screen and (min--moz-device-pixel-ratio: 2) and (max-width: 1024px), only screen and (-o-min-device-pixel-ratio: 2/1) and (max-width: 1024px), only screen and (min-device-pixel-ratio: 2) and (max-width: 1024px), only screen and (min-resolution: 192dpi) and (max-width: 1024px), only screen and (min-resolution: 2dppx) and (max-width: 1024px) {
+
-
  #cssmenu {
+
-
    width: 100%;
+
-
  }
+
-
  #cssmenu.align-center ul {
+
-
    text-align: left;
+
-
  }
+
-
  #cssmenu.align-right > ul > li {
+
-
    float: none;
+
-
  }
+
-
  #cssmenu ul {
+
-
    width: auto;
+
-
  }
+
-
  #cssmenu .submenuArrow,
+
-
  #cssmenu #indicatorContainer {
+
-
    display: none;
+
-
  }
+
-
  #cssmenu > ul {
+
-
    height: auto;
+
-
    display: block;
+
-
    color:#EFEFEF;
+
-
  }
+
-
  #cssmenu > ul > li {
+
-
    float: none;
+
-
  }
+
-
  #cssmenu li,
+
-
  #cssmenu > ul > li {
+
-
    display: none;
+
-
    color:white;
+
-
  }
+
-
  #cssmenu ul ul,
+
-
  #cssmenu ul ul ul,
+
-
  #cssmenu ul > li:hover > ul,
+
-
  #cssmenu ul ul > li:hover > ul,
+
-
  #cssmenu.align-right ul ul,
+
-
  #cssmenu.align-right ul ul ul,
+
-
  #cssmenu.align-right ul > li:hover > ul,
+
-
  #cssmenu.align-right ul ul > li:hover > ul {
+
-
    position: relative;
+
-
    left: auto;
+
-
    top: auto;
+
-
    opacity: 1;
+
-
    padding-left: 0;
+
-
    padding-right: 0;
+
-
    right: auto;
+
-
  }
+
-
  #cssmenu ul .has-sub::after {
+
-
    display: none;
+
-
  }
+
-
  #cssmenu ul li a {
+
-
    padding: 12px 20px;
+
-
  }
+
-
  #cssmenu ul ul li a {
+
-
    border: 0;
+
-
    background: none;
+
-
    width: auto;
+
-
    padding: 8px 35px;
+
-
    color:white;
+
-
  }
+
-
  #cssmenu.align-right ul ul li a {
+
-
    text-align: left;
+
-
  }
+
-
  #cssmenu ul ul li:hover > a {
+
-
    background:none;
+
-
    color: #ec9359;
+
-
  }
+
-
  #cssmenu ul ul ul a {
+
-
    padding: 8px 50px;
+
-
  }
+
-
  #cssmenu ul ul ul ul a {
+
-
    padding: 8px 65px;
+
-
  }
+
-
  #cssmenu ul ul ul ul ul a {
+
-
    padding: 8px 80px;
+
-
  }
+
-
  #cssmenu ul ul ul ul ul ul a {
+
-
    padding: 8px 95px;
+
-
  }
+
-
  #cssmenu > ul > #menu-button {
+
-
    display: block;
+
-
    cursor: pointer;
+
-
  }
+
-
  #cssmenu #menu-button > a {
+
-
    padding: 14px 20px;
+
-
  }
+
-
  #cssmenu ul.open li,
+
-
  #cssmenu > ul.open > li {
+
-
    display: block;
+
-
  }
+
-
  #cssmenu > ul.open > li#menu-button > a {
+
-
    color: #fff;
+
-
    border-bottom: 1px solid rgba(150, 150, 150, 0.1);
+
-
  }
+
-
  #cssmenu ul ul::after {
+
-
    display: none;
+
-
  }
+
-
  #cssmenu #menu-button::after {
+
-
    display: block;
+
-
    content: '';
+
-
    position: absolute;
+
-
    height: 3px;
+
-
    width: 22px;
+
-
    border-top: 2px solid #efefef;
+
-
    border-bottom: 2px solid #efefef;
+
-
    right: 20px;
+
-
    top: 15px;
+
-
  }
+
-
  #cssmenu #menu-button::before {
+
-
    display: block;
+
-
    content: '';
+
-
    position: absolute;
+
-
    height: 3px;
+
-
    width: 22px;
+
-
    border-top: 2px solid #efefef;
+
-
    right: 20px;
+
-
    top: 25px;
+
-
  }
+
-
  #cssmenu ul.open #menu-button::after,
+
-
  #cssmenu ul.open #menu-button::before {
+
-
    border-color: #fff;
+
-
  }
+
-
}
+
-
.icon{
+
-
  width:30px;
+
-
}
+
-
.wrapper2{
+
-
  width:20%;
+
-
  padding:20px 0px 20px 20px;
+
-
  display:inline-block;
+
-
  margin:auto;
+
-
  vertical-align:top;
+
-
}
+
-
.wrapper{
+
-
  width:90%;
+
-
  padding:20px 0px 20px 20px;
+
-
  padding-left:0;
+
-
  margin:auto;
+
-
  vertical-align: top;
+
-
}
+
-
.page, .container{
+
-
  width:50%;
+
-
  min-width:600px;
+
-
  max-width:800px;
+
-
  padding:30px;
+
-
  margin:auto;
+
-
  text-align:left;
+
-
  font-family:'Muli',sans-serif;
+
-
  display:inline-block;
+
-
}
+
-
.page a, .container a{
+
-
  color:#222222;
+
-
}
+
-
.page a:hover, .container a:hover{
+
-
  color:#E6B800;
+
-
  text-decoration:none;
+
-
}
+
-
 
+
-
h1{
+
-
  color:#222222;
+
-
  font-family:'Bitter',serif;
+
-
  border-bottom:none;
+
-
}
+
-
h2,h3,.toc,.show,.hide,.content{
+
-
  color:#222222;
+
-
  font-family:'Bitter',serif;
+
-
  text-decoration:none;
+
-
  border-bottom:none;
+
-
}
+
-
h4,h5,h6, .page{
+
-
  color:#222222;
+
-
  font-family:'Muli',sans-serif;
+
-
}
+
-
.toc{
+
-
  text-decoration:none;
+
-
  display:none;
+
-
  width:100%;
+
-
  margin:auto;
+
-
  border:none;
+
-
  background-color:#efefef;
+
-
}
+
-
.toc .month-group { margin: 20px 0; }
+
-
.toc .month-group p { padding: 0; margin: 0; }
+
-
#ftoc{
+
-
  color:#666666;
+
-
}
+
-
ul{
+
-
  list-style-type:none;
+
-
}
+
-
.month-group, a{
+
-
  text-decoration:none;
+
-
}
+
-
.month-group{
+
-
  margin-left:20px;
+
-
}
+
-
.month-group:hover{
+
-
  color:#E6B800;
+
-
}
+
-
.toc a, .toc2 a, #navi a{
+
-
  text-decoration:none;
+
-
  color:#222222;
+
-
  font-weight: bold;
+
-
}
+
-
.toc a:hover, #ftoc>a:hover, #navi a:hover, .show:hover, .hide:hover, .container>a:hover{
+
-
  color:#E6B800 !important;
+
-
  cursor:pointer;
+
-
}
+
-
.toc a, #ftoc, .container a, #navi{
+
-
  border-bottom:2px dotted;
+
-
}
+
-
#navi{
+
-
  text-decoration:none;
+
-
  font-family:'Bitter',serif;
+
-
}
+
-
#logo{
+
-
  width:120px;
+
-
  margin:auto;
+
-
  padding:40px;
+
-
  border-radius:100%;
+
-
}
+
-
#banner{
+
-
  width:auto;
+
-
  height:250px;
+
-
  vertical-align:top;
+
-
  background-color:#E6B800;
+
-
  overflow: hidden
+
-
}
+
-
.fixed {
+
-
  position:fixed !important;
+
-
  top:0;
+
-
}
+
-
.disp{
+
-
  display:none;
+
-
}
+
-
.col {
+
-
    width: 20%;
+
-
    float: left;
+
-
    clear: right;
+
-
    margin: 20px 1.66666666666666666666666666%;
+
-
    font-family:'Muli',sans-serif;
+
-
    font-weight:300;
+
-
    font-size:14px;
+
-
    color:#222222;
+
-
    text-align:left;
+
-
}
+
-
.clear{
+
-
  width:100%;
+
-
  clear:both;
+
-
}
+
-
.container{
+
-
  line-height:1.9;
+
-
}
+
-
.index{
+
-
  margin-right:20px;
+
-
}
+
-
.toc2{
+
-
  display:block;
+
-
}
+
-
.footer{
+
-
    background-color:#222222;
+
-
    width:100%;
+
-
    margin:auto;
+
-
    padding:15px;
+
-
    color:#efefef;
+
-
    font-size:14px;
+
-
}
+
-
.footer table{
+
-
    background-color:#222222;
+
-
    color:#efefef;
+
-
    margin:auto;
+
-
}
+
-
.footer a{
+
-
    color:#efefef;
+
-
}
+
-
.page a{
+
-
    border-bottom: dotted 2px;
+
-
}
+
-
 
+
-
</style>
+
-
 
+
-
</head>
+
-
 
+
-
 
+
-
 
+
-
<body style='margin:0'>
+
-
 
+
-
<div id='banner'><center><img src='http://oi57.tinypic.com/1498eg5.jpg' style='width:100%; margin-top:-200px'/>
+
-
</center></div>
+
-
 
+
-
<div id='cssmenu'>
+
-
<ul>
+
-
  <li><a href='/Team:CSU_Fort_Collins'><span>Home</span></a></li>
+
-
  <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Project/'><span>Project</span></a>
+
-
      <ul>
+
-
        <li><a href='/Team:CSU_Fort_Collins/Biosensor/'><span>Biosensor</span></a></li>
+
-
        <li><a href='/Team:CSU_Fort_Collins/Breakdown/'><span>Breakdown</span></a></li>
+
-
        <li><a href='/Team:CSU_Fort_Collins/HVP/'><span>High-Value Product</span></a></li>
+
-
        <li><a href='/Team:CSU_Fort_Collins/KillSwitch/'><span>Kill Switch</span></a></li>
+
-
      </ul>
+
-
  </li>
+
-
  <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Members/'><span>Team</span></a>
+
-
      <ul>
+
-
        <li><a href='/Team:CSU_Fort_Collins/Members/'><span>Members</span></a></li>
+
-
        <li class='last'><a href='/Team:CSU_Fort_Collins/Sponsors/'><span>Sponsors</span></a></li>
+
-
      </ul>
+
-
  </li>
+
-
  <li class='has-sub' class='active'><a href='/Team:CSU_Fort_Collins/Notebook/'><span>Notebook</span></a>
+
-
    <ul style="display:block">
+
-
      <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/Protocols'><span>Protocols</span></a>
+
-
        <ul>
+
-
          <li><a href="/Team:CSU_Fort_Collins/Notebook/Protocols=Gibson"><span>Gibson Assembly</span></a></li>
+
-
          <li><a href="/Team:CSU_Fort_Collins/Notebook/Protocols=Cloning"><span>Cloning Genes</span></a></li>
+
-
          <li><a href="/Team:CSU_Fort_Collins/Notebook/Protocols=Miniprep"><span>Plasmid Miniprep</span></a></li>
+
-
          <li><a href="/Team:CSU_Fort_Collins/Notebook/Protocols=Isolation"><span>Yeast DNA Isolation</span></a></li>
+
-
          <li><a href="/Team:CSU_Fort_Collins/Notebook/Protocols=Gel"><span>Gel Electrophoresis</span></a></li>
+
-
          <li class='last'><a href="/Team:CSU_Fort_Collins/Notebook/Protocols=Purify"><span>PCR Product Purification</span></a></li>
+
-
        </ul>
+
-
      </li>
+
-
      <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/DailyNotes'><span>Daily Notes</span></a>
+
-
        <ul>
+
-
        <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/Biosensor/Jun'><span>Biosensor</span></a>
+
-
            <ul>
+
-
              <li><a href="/Team:CSU_Fort_Collins/Notebook/Biosensor/Jun"><span>June</span></a></li>
+
-
              <li><a href="/Team:CSU_Fort_Collins/Notebook/Biosensor/Jul"><span>July</span></a></li>
+
-
              <li class='last'><a href='/Team:CSU_Fort_Collins/Notebook/Biosensor/Aug'><span>August</span></a></li>
+
-
            </ul>
+
-
        </li>
+
-
        <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/'><span>Breakdown</span></a>
+
-
            <ul>
+
-
              <li><a href="#"><span>July</span></a></li>
+
-
              <li><a href='#'><span>August</span></a></li>
+
-
              <li class='last'><a href="#"><span>September</span></a></li>
+
-
            </ul>
+
-
        </li>
+
-
        <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/HVP/'><span>High-Value Product</span></a>
+
-
            <ul>
+
-
              <li><a href="#"><span>June</span></a></li>
+
-
              <li><a href="#"><span>July</span></a></li>
+
-
              <li><a href='#'><span>August</span></a></li>
+
-
              <li class='last'><a href="#"><span>September</span></a></li>
+
-
            </ul>
+
-
        </li>
+
-
        <li li class='has-sub'><a href='/Team:CSU_Fort_Collins/Notebook/KillSwitch/'><span>Kill Switch</span></a>
+
-
            <ul>
+
-
              <li><a href="#"><span>July</span></a></li>
+
-
              <li><a href='#'><span>August</span></a></li>
+
-
              <li class='last'><a href="#"><span>September</span></a></li>
+
-
            </ul>
+
-
        </li>
+
-
      </ul>
+
-
  </li>
+
-
  </ul>
+
-
  </li>
+
-
  <li class='has-sub'><a href='/Team:CSU_Fort_Collins/HumPrac/'><span>Human Practices</span></a>
+
-
      <ul>
+
-
        <li><a href='/Team:CSU_Fort_Collins/Collab/'><span>Collaboration</span></a></li>
+
-
        <li class='last'><a href='/Team:CSU_Fort_Collins/Outreach/'><span>Outreach</span></a></li>
+
-
      </ul>
+
-
  </li>
+
-
  <li class='has-sub'><a href='/Team:CSU_Fort_Collins/Achievements/'><span>Achievements</span></a>
+
-
      <ul>
+
-
        <li><a href='/Team:CSU_Fort_Collins/Parts/'><span>Parts</span></a></li>
+
-
        <li class='last'><a href='/Team:CSU_Fort_Collins/Judging/'><span>Judging</span></a></li>
+
-
      </ul>
+
-
  </li>
+
-
  <li><a href='/Team:CSU_Fort_Collins/Safety/'><span>Safety</span></a></li>
+
-
</ul>
+
-
</div>
+
-
 
+
-
 
+
-
 
+
-
<div class="clear"></div>
+
-
 
+
-
<div class='wrapper'>
+
-
  <center><h1>Breakdown Daily Notes</h1>
+
-
 
+
-
<div class='show'>Show Table of Contents</div>
+
-
    <div class='toc'>
+
-
    <div class='hide'>Hide Table of Contents</div><br><br>
+
-
      <a href='/Team:CSU_Fort_Collins/Notebook/' id='ftoc'>&#8592; Full Table of Contents</a><br>
+
-
      <div class="month-group">
+
-
        <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Jul'>July</a>
+
-
        <p>Lac Promoter and FadD Assembly</p>
+
-
      </div>
+
-
      <div class="month-group">
+
-
        <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Aug'>August</a>
+
-
        <p>PLR, PFL, and PFL2 Assembly</p>
+
-
      </div>
+
-
      <div class="month-group">
+
-
        <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Sep'>September</a>
+
-
        <p>Scientists vs. the PCR Machine</p>
+
-
      </div>
+
   </div>
   </div>
   <div class='page'>
   <div class='page'>
-
  <p>
+
  <p>   <h2>JULY</h2>
-
    <h2>JULY</h2>
+
     <h4>Tuesday, July 1 - Wednesday, July 16</h4>
     <h4>Tuesday, July 1 - Wednesday, July 16</h4>
     Researched which promoters, primers, sequences, and assembly techniques to use and developed a plan of action.
     Researched which promoters, primers, sequences, and assembly techniques to use and developed a plan of action.
     <h4>Thursday, July 17</h4>
     <h4>Thursday, July 17</h4>
-
     Designed primers to connect biobrick lab promoter and the FadD gene from E. coli.
+
     Designed primers to connect biobrick lab promoter and the FadD gene from <u>E. coli</u>.
     <h4>Friday, July 18</h4>
     <h4>Friday, July 18</h4>
-
     With competent cells, used the transformation protocol to add our two different lac promoters to E. coli and grew overnight at 37 DGEC. Used lac promoters from the biobrick distribution kit (2013 iGEM Distribution Kit, Plate 5, Well 1D (ampicillin resistance) and 2014 iGEM Distribution Kit, Plate 3, Well 4G (chloramphenicol resistance)).
+
     With competent cells, used the transformation protocol to add our two different lac promoters to <u>E. coli</u> and grew overnight at 37 &#176;C. Used lac promoters from the biobrick distribution kit (2013 iGEM Distribution Kit, Plate 5, Well 1D (ampicillin resistance) and 2014 iGEM Distribution Kit, Plate 3, Well 4G (chloramphenicol resistance)).
     <h4>Sunday, July 19</h4>
     <h4>Sunday, July 19</h4>
-
     Removed plates from the incubator and stored at 4 DEGC.
+
     Removed plates from the incubator and stored at 4 &#176;C.
     <h4>Monday, July 21</h4>
     <h4>Monday, July 21</h4>
-
     The plate using the promoter from 1D had no growth. The plate with the promoter from 4G had two small colonies. We replated the colonies using the rest of our transformed competent cells. Incubated again overnight at 37 DEGC.
+
     The plate using the promoter from 1D had no growth. The plate with the promoter from 4G had two small colonies. We replated the colonies using the rest of our transformed competent cells. Incubated again overnight at 37 &#176;C.
     <h4>Tuesday, July 22</h4>
     <h4>Tuesday, July 22</h4>
-
     The plate using the promoter from 1D still had no growth. The plate with the promoter from 4G had a lawn. Streaked the 4G plate to create individual colonies. Incubated overnight at 37 DEGC.
+
     The plate using the promoter from 1D still had no growth. The plate with the promoter from 4G had a lawn. Streaked the 4G plate to create individual colonies. Incubated overnight at 37 &#176;C.
     <h4>Wednesday, July 23</h4>
     <h4>Wednesday, July 23</h4>
-
     The 4G plate had good growth with many individual colonies. We created two 2 mL overnight cultures using 1 mL LB/1 MICROL CM and a colony from our streaked plate. Incubated overnight at 37 DEG and 225 rpm.
+
     The 4G plate had good growth with many individual colonies. We created two 2 mL overnight cultures using 1 mL LB/1 &#956;L CM and a colony from our streaked plate. Incubated overnight at 37 &#176;C and 225 rpm.
     <h4>Thursday, July 24</h4>
     <h4>Thursday, July 24</h4>
-
     Removed the tubes from the incubator and stored at 4 DEGC.
+
     Removed the tubes from the incubator and stored at 4 &#176;C.
     <h4>Friday, July 25</h4>
     <h4>Friday, July 25</h4>
-
     The primers for FadD gene came in. Created a 100 MICROM stock solution. Diluted by 10X to make a working solution. Following the PCR protocol outlined in the Cloning a Gene into a Plasmid protocol, PCRed 4 replicates. Used a 68 DEGC annealing temperature and a 1 minute 30 seconds extension. Stored the PCR product tubes at 4 DEGC.
+
     The primers for FadD gene came in. Created a 100 &#956;M stock solution. Diluted by 10X to make a working solution. Following the PCR protocol outlined in the Cloning a Gene into a Plasmid protocol, PCRed 4 replicates. Used a 68 &#176;C annealing temperature and a 1 minute 30 seconds extension. Stored the PCR product tubes at 4 &#176;C.
-
     Miniprepped 1 mL of overnight cultures to extract the DNA containing the desired lac promoter as directed in the Miniprep Protocol. The products of the miniprep were stored at -20 DEGC.
+
     Miniprepped 1 mL of overnight cultures to extract the DNA containing the desired lac promoter as directed in the <a href='/Team:CSU_Fort_Collins/Notebook/Protocols=Miniprep'>Miniprep Protocol</a>. The products of the miniprep were stored at -20 &#176;C.
     Created 2 more overnight cultures using the same protocol as before, this time seeding them using what was left of the previous overnight cultures.
     Created 2 more overnight cultures using the same protocol as before, this time seeding them using what was left of the previous overnight cultures.
     <h4>Tuesday, July 29</h4>
     <h4>Tuesday, July 29</h4>
-
Used two <a href='Team:CSU_Fort_Collins/Notebook/Protocols=Gel'>gel electrophoresis</a> protocols to determine if the PCR worked. Both gels failed.
+
Used two <a href='/Team:CSU_Fort_Collins/Notebook/Protocols=Gel'>gel electrophoresis</a> protocols to determine if the PCR worked. Both gels failed.
<h4>Wednesday, July 30</h4>
<h4>Wednesday, July 30</h4>
Line 1,598: Line 754:
     <br><br>
     <br><br>
-
     <center><a href='/Team:CSU_Fort_Collins/Notebook/Protocols=Purify' id='navi' style='margin-left:-20px; margin-right:40px'> Previous</a> <a href='/Team:CSU_Fort_Collins/Notebook/Biosensor/Jul' id='navi'>Next </a></center>
+
     <center><a href='/Team:CSU_Fort_Collins/Notebook/Biosensor/Aug' id='navi' style='margin-left:-20px; margin-right:40px'> Previous</a> <a href='/Team:CSU_Fort_Collins/Notebook/Breakdown/Aug' id='navi'>Next </a></center>
   </div>
   </div>

Latest revision as of 20:15, 17 October 2014

Biosensor Notes - June

Breakdown Daily Notes

Show Table of Contents
Hide Table of Contents


← Full Table of Contents
July

Lac Promoter and FadD Assembly

August

More of the Same, But Better

September

One Thousand and One Nights

JULY

Tuesday, July 1 - Wednesday, July 16

Researched which promoters, primers, sequences, and assembly techniques to use and developed a plan of action.

Thursday, July 17

Designed primers to connect biobrick lab promoter and the FadD gene from E. coli.

Friday, July 18

With competent cells, used the transformation protocol to add our two different lac promoters to E. coli and grew overnight at 37 °C. Used lac promoters from the biobrick distribution kit (2013 iGEM Distribution Kit, Plate 5, Well 1D (ampicillin resistance) and 2014 iGEM Distribution Kit, Plate 3, Well 4G (chloramphenicol resistance)).

Sunday, July 19

Removed plates from the incubator and stored at 4 °C.

Monday, July 21

The plate using the promoter from 1D had no growth. The plate with the promoter from 4G had two small colonies. We replated the colonies using the rest of our transformed competent cells. Incubated again overnight at 37 °C.

Tuesday, July 22

The plate using the promoter from 1D still had no growth. The plate with the promoter from 4G had a lawn. Streaked the 4G plate to create individual colonies. Incubated overnight at 37 °C.

Wednesday, July 23

The 4G plate had good growth with many individual colonies. We created two 2 mL overnight cultures using 1 mL LB/1 μL CM and a colony from our streaked plate. Incubated overnight at 37 °C and 225 rpm.

Thursday, July 24

Removed the tubes from the incubator and stored at 4 °C.

Friday, July 25

The primers for FadD gene came in. Created a 100 μM stock solution. Diluted by 10X to make a working solution. Following the PCR protocol outlined in the Cloning a Gene into a Plasmid protocol, PCRed 4 replicates. Used a 68 °C annealing temperature and a 1 minute 30 seconds extension. Stored the PCR product tubes at 4 °C. Miniprepped 1 mL of overnight cultures to extract the DNA containing the desired lac promoter as directed in the Miniprep Protocol. The products of the miniprep were stored at -20 °C. Created 2 more overnight cultures using the same protocol as before, this time seeding them using what was left of the previous overnight cultures.

Tuesday, July 29

Used two gel electrophoresis protocols to determine if the PCR worked. Both gels failed.

Wednesday, July 30

Reran PCR using a different temperature for the extension step. Ran another gel to determine success of PCR. This gel also failed.

Thursday, July 31

Reran PCR using previously isolated E. coli genome and various extension temperatures in a gradient. Ran another gel, this gel also failed.



Previous Next

Retrieved from "http://2014.igem.org/Team:CSU_Fort_Collins/Notebook/Breakdown/Jul"