Difference between revisions of "Team:Freiburg/testpage"

 
(37 intermediate revisions by the same user not shown)
Line 1: Line 1:
 
{{Freiburg/CSS}}
 
{{Freiburg/CSS}}
 
{{Freiburg/Menubar}}
 
{{Freiburg/Menubar}}
 +
 
{{Freiburg/wiki_content_start}}
 
{{Freiburg/wiki_content_start}}
−
<!-- wiki content goes in here -->
 
−
 
 
<html>
 
<html>
−
 
 
<style>
 
<style>
 
/*========= BEGIN: style for navigation bar ==========*/
 
/*========= BEGIN: style for navigation bar ==========*/
Line 21: Line 19:
 
/*========= END: style for navigation bar ==========*/
 
/*========= END: style for navigation bar ==========*/
  
−
.image_box.left {
+
.responsive_center_image{
−
     margin-right: 50px;
+
    text-align: center;
 +
  }
 +
.responsive_center_image img{
 +
     max-width: 100%;
 +
    height: auto;
 +
    width: auto\9; /* ie8 */
 
}
 
}
  
−
.image_box.right {
+
</style>
−
    margin-left: 50px;
+
−
}
+
  
 +
<div class="content_box">
 +
<h2> Modeling</h2>
  
−
/* ========== Style for Details-Boxes ================*/
 
  
−
.closeButton,
+
<div class="highlightBox">
−
.details_box_trigger{
+
<h4>Note</h4>
−
    display:inline-block;
+
−
    transition:all linear 0.15s;
+
−
    text-decoration: none !important;
+
−
    color: #0051A2;
+
−
    font-weight: 500;
+
−
    float: right;
+
−
    cursor: pointer;
+
−
    cursor: hand;
+
−
    font-size: 110%;
+
−
    font-weight: 300;
+
−
}
+
  
 +
</div>
 +
<!-- begin formula -->
 +
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/c/c8/Freiburg_MOD_01_PDE.png" width="600">
 +
</div>
 +
<!-- end formula -->
  
−
.details_box_trigger.active {
+
<!-- begin formula -->
−
}
+
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/1/12/Freiburg_MOD_02_Diffterm.png" width="500">
 +
</div>
 +
<!-- end formula -->
  
−
.details_boxes{
+
<!-- begin formula -->
−
    padding:15px;
+
<div class="responsive_center_image">
−
    display: none;
+
<img src="https://static.igem.org/mediawiki/2015/d/dd/Freiburg_MOD_03_Convterm.png" width="350">
−
    overflow:hidden;
+
</div>
−
    box-shadow:0px 1px 3px rgba(0,0,0,0.25);
+
<!-- end formula -->
−
    border-radius:20px;
+
−
    background:#EEE;
+
−
}
+
  
−
.hovertext{
+
<!-- begin formula -->
−
    visibility: hidden;
+
<div class="responsive_center_image">
−
    opacity: 0;
+
<img src="https://static.igem.org/mediawiki/2015/8/85/Freiburg_MOD_04_Velocity.png" width="500">
−
    position: absolute;
+
</div>
−
    font-size: 120%;
+
<!-- end formula -->
−
    font-weight: 500;
+
−
    color: #0051A2;
+
−
    transition: opacity 0.5s ease-in;
+
−
}
+
  
−
#binding{
+
<!-- begin formula -->
−
  left: 750px;
+
<div class="responsive_center_image">
−
  top: 230px;
+
<img src="https://static.igem.org/mediawiki/2015/c/c1/Freiburg_MOD_05_General_Production.png" width="500">
−
}
+
</div>
 +
<!-- end formula -->
  
−
#binding:hover + #binding_label {
+
<!-- begin formula -->
−
    transform: translateY(-40px);
+
<div class="responsive_center_image">
−
    opacity: 1;
+
<img src="https://static.igem.org/mediawiki/2015/5/53/Freiburg_MOD_06_Taylor.png" width="600">
−
    visibility: visible;
+
</div>
−
}
+
<!-- end formula -->
  
−
#cellfree{
+
<!-- begin formula -->
−
  left: 360px;
+
<div class="responsive_center_image">
−
  top: 150px; 
+
<img src="https://static.igem.org/mediawiki/2015/9/9e/Freiburg_MOD_07_Crank_Nicholson.png" width="600">
−
}
+
</div>
 +
<!-- end formula -->
  
−
#cellfree:hover + #cellfree_label {
+
<!-- begin formula -->
−
    transform: translateY(-40px);
+
<div class="responsive_center_image">
−
    opacity: 1;
+
<img src="https://static.igem.org/mediawiki/2015/3/37/Freiburg_MOD_08_DXDZ.png" width="150">
−
    visibility: visible;
+
</div>
−
}
+
<!-- end formula -->
  
−
#immobilization{
+
<!-- begin formula -->
−
  left: 90px;
+
<div class="responsive_center_image">
−
  top: 10px;
+
<img src="https://static.igem.org/mediawiki/2015/9/94/Freiburg_MOD_09_Disc.png" width="600">
−
}
+
</div>
 +
<!-- end formula -->
  
−
#immobilization:hover + #immobilization_label {
+
<!-- begin formula -->
−
    transform: translateY(-40px);
+
<div class="responsive_center_image">
−
    opacity: 1;
+
<img src="https://static.igem.org/mediawiki/2015/4/48/Freiburg_MOD_10_Diff_Expan.png" width="700">
−
    visibility: visible;
+
</div>
−
}
+
<!-- end formula -->
  
−
#irif{
+
<!-- begin formula -->
−
  left: 80px;
+
<div class="responsive_center_image">
−
  top: 290px;
+
<img src="https://static.igem.org/mediawiki/2015/4/48/Freiburg_MOD_11_Lambda_Mu.png" width="300">
−
}
+
</div>
 +
<!-- end formula -->
  
−
#irif:hover + #irif_label {
+
<!-- begin formula -->
−
    transform: translateY(-40px);
+
<div class="responsive_center_image">
−
    opacity: 1;
+
<img src="https://static.igem.org/mediawiki/2015/c/c8/Freiburg_MOD_12_CN_Scheme.png" width="700">
−
    visibility: visible;
+
</div>
−
}
+
<!-- end formula -->
  
−
#multbind{
+
<!-- begin formula -->
−
  left: 430px;
+
<div class="responsive_center_image">
−
  top: 230px;
+
<img src="https://static.igem.org/mediawiki/2015/9/90/Freiburg_MOD_13_Conc_Vec.png" width="700">
−
}
+
</div>
 +
<!-- end formula -->
  
−
#multbind:hover + #multbind_label {
+
<!-- begin formula -->
−
    transform: translateY(-40px);
+
<div class="responsive_center_image">
−
    opacity: 1;
+
<img src="https://static.igem.org/mediawiki/2015/7/75/Freiburg_MOD_14_Prot_F.png" width="600">
−
    visibility: visible;
+
</div>
−
}
+
<!-- end formula -->
  
−
#salmonella{
+
<!-- begin formula -->
−
  left: 750px;
+
<div class="responsive_center_image">
−
  top: 230px;
+
<img src="https://static.igem.org/mediawiki/2015/5/52/Freiburg_MOD_15_F_Vec.png" width="500">
−
}
+
</div>
 +
<!-- end formula -->
  
−
#salmonella:hover + #salmonella_label {
+
<!-- begin formula -->
−
    transform: translateY(-40px);
+
<div class="responsive_center_image">
−
    opacity: 1;
+
<img src="https://static.igem.org/mediawiki/2015/8/89/Freiburg_MOD_16_Spot_Split.png" width="250">
−
    visibility: visible;
+
</div>
−
}
+
<!-- end formula -->
−
/*
+
−
.circle:hover{
+
−
    transition: all linear 0.5s;
+
−
    transform: translate(-25px, -25px);
+
−
    width: 150px;
+
−
    height: 150px;
+
−
    border-radius: 100px;
+
−
}*/
+
  
−
/* ========== END: Style for Details-Boxes ================*/
+
<!-- begin formula -->
 +
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/d/de/Freiburg_MOD_17_CN_System.png" width="300">
 +
</div>
 +
<!-- end formula -->
  
−
/* includes details boxes into paragraphs */
+
<!-- begin formula -->
−
.result_box p{
+
<div class="responsive_center_image">
−
  overflow: hidden;
+
<img src="https://static.igem.org/mediawiki/2015/b/bc/Freiburg_MOD_18_Math_Sys.png" width="600">
−
}
+
</div>
 +
<!-- end formula -->
  
−
/* ========== Style for Circles in animated box ========== */
+
<!-- begin formula -->
 +
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/7/73/Freiburg_MOD_19_Boundary.png" width="400">
 +
</div>
 +
<!-- end formula -->
  
−
.circle{
+
<!-- begin formula -->
−
    width: 100px;
+
<div class="responsive_center_image">
−
    height: 100px;
+
<img src="https://static.igem.org/mediawiki/2015/8/82/Freiburg_MOD_20_Boundary_Eqs.png" width="800">
−
    border-radius: 50px;
+
</div>
−
    border: 3px solid white;
+
<!-- end formula -->
−
    position: absolute;
+
−
}
+
  
−
.link_image{
+
<!-- begin formula -->
−
    position: relative;
+
<div class="responsive_center_image">
−
}
+
<img src="https://static.igem.org/mediawiki/2015/8/82/Freiburg_MOD_20_Boundary_Eqs.png" width="800">
 +
</div>
 +
<!-- end formula -->
  
−
/* ========== END: Style for Circles in animated box ========== */
+
<!-- begin formula -->
 +
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/8/82/Freiburg_MOD_20_Boundary_Eqs.png" width="800">
 +
</div>
 +
<!-- end formula -->
  
 +
<!-- begin formula -->
 +
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/8/82/Freiburg_MOD_20_Boundary_Eqs.png" width="800">
 +
</div>
 +
<!-- end formula -->
  
−
/* ========== Remove Explore the DiaCHIP on small devices =================*/
+
<!-- begin formula -->
 +
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/8/82/Freiburg_MOD_20_Boundary_Eqs.png" width="800">
 +
</div>
 +
<!-- end formula -->
  
−
/*@media screen and (max-width: 1000px){
+
<!-- begin formula -->
−
    #explore_DiaCHIP{
+
<div class="responsive_center_image">
−
        display: none;
+
<img src="https://static.igem.org/mediawiki/2015/1/1d/Freiburg_MOD_21_MatrixA.png" width="800">
−
    }
+
</div>
−
}
+
<!-- end formula -->
−
*/
+
−
@media screen and (max-width: 700px){
+
  
−
    #anti_tetanus_results, #device_results, #agfp_results, #specific_surfaces,#own_mix{
+
<!-- begin formula -->
−
      margin-top:20px;
+
<div class="responsive_center_image">
−
    }
+
<img src="https://static.igem.org/mediawiki/2015/0/0c/Freiburg_MOD_22_MatrixB.png" width="800">
 +
</div>
 +
<!-- end formula -->
  
−
    .results_headline,
+
<!-- begin formula -->
−
    .headline_left{
+
<div class="responsive_center_image">
−
      font-size: 120%;
+
<img src="https://static.igem.org/mediawiki/2015/2/2b/Freiburg_MOD_23_Prod_Curve.png" width="400">
−
      text-align: left;
+
</div>
−
      margin-bottom: 10px;
+
<!-- end formula -->
−
      margin-top: 20px;
+
−
      line-height: 150%;
+
−
      width: 100%;
+
−
    }
+
  
−
    .page_content p{
 
−
      margin-bottom: 0;
 
−
    }
 
  
−
    .page_content{
+
<!-- begin formula -->
−
      padding-bottom: 20px;
+
<div class="responsive_center_image">
−
    }
+
<img src="https://static.igem.org/mediawiki/2015/0/0d/Freiburg_MOD_24_Corner_Boundaries.png" width="800">
 +
</div>
 +
<!-- end formula -->
  
−
    .result_box p{
 
−
      overflow: visible;
 
−
    }
 
  
−
}
+
<!-- begin formula -->
−
/* ========== END: Remove Explore the DiaCHIP on small devices =================*/
+
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/7/70/Freiburg_MOD_25_Diff_Simp.png" width="800">
 +
</div>
 +
<!-- end formula -->
  
−
/* avoids stacking of whole boxes */
 
−
.result_box{
 
−
  overflow: hidden;
 
−
}
 
  
−
</style>
+
<!-- begin formula -->
 +
<div class="responsive_center_image">
 +
<img src="https://static.igem.org/mediawiki/2015/3/39/Freiburg_MOD_26_F_Vec.png" width="700">
 +
</div>
 +
<!-- end formula -->
  
−
<script type="text/javascript">
 
  
−
// JQUERY for Details-Boxes
 
  
−
$(document).ready(function() {
+
<!-- begin formula -->
−
    function close_accordion_section() {
+
<div class="responsive_center_image">
−
        $('.details_box_trigger').removeClass('active');
+
<img src="https://static.igem.org/mediawiki/2015/0/0b/Freiburg_modeling_matrix.png" width="400">
−
        $('.details_boxes').slideUp(300).removeClass('open');
+
−
    }
+
−
 
+
−
    $('.details_box_trigger').click(function(e) {
+
−
        // Grab current anchor value
+
−
        var currentAttrValue = $(this).attr('href');
+
−
+
−
        if($(e.target).is('.active')) {
+
−
            close_accordion_section();
+
−
        }else {
+
−
            close_accordion_section();
+
−
+
−
            // Add active class to section title
+
−
            $(this).addClass('active');
+
−
            // Open up the hidden content panel
+
−
            $(currentAttrValue).slideDown(300).addClass('open');
+
−
        }
+
−
+
−
        e.preventDefault();
+
−
    });
+
−
 
+
−
    $('.closeButton').click(function(){
+
−
          close_accordion_section();
+
−
    });
+
−
 
+
−
});
+
−
 
+
−
  window.onresize = function(event){
+
−
          var assemblyImage = document.getElementById("assembly_image");
+
−
          var assembly_width  = assemblyImage.clientWidth;
+
−
          var assembly_height  = assemblyImage.clientHeight;
+
−
         
+
−
 
+
−
 
+
−
          var assembly_left_circ = document.getElementById("immobilization");
+
−
          var assembly_mid_circ = document.getElementById("cellfree");
+
−
          var assembly_right_circ = document.getElementById("binding");
+
−
 
+
−
          assembly_left_circ.style.left = assembly_width*0.094 + "px";
+
−
          assembly_left_circ.style.top = assembly_height*0.076 + "px";
+
−
 
+
−
          assembly_mid_circ.style.left = assembly_width*0.415 + "px";
+
−
          assembly_mid_circ.style.top = assembly_height*0.381 + "px";
+
−
 
+
−
          assembly_right_circ.style.left = assembly_width*0.811 + "px";
+
−
          assembly_right_circ.style.top = assembly_height*0.712 + "px";
+
−
 
+
−
 
+
−
          var diag_left_circ = document.getElementById("irif");
+
−
          var diag_mid_circ = document.getElementById("multbind");
+
−
          var diag_right_circ = document.getElementById("salmonella");
+
−
 
+
−
          diag_left_circ.style.left = assembly_width*0.145 + "px";
+
−
          diag_left_circ.style.top = assembly_height*0.661 + "px";
+
−
 
+
−
          diag_mid_circ.style.left = assembly_width*0.544 + "px";
+
−
          diag_mid_circ.style.top = assembly_height*0.509 + "px";
+
−
 
+
−
          diag_right_circ.style.left = assembly_width*0.811 + "px";
+
−
          diag_right_circ.style.top = assembly_height*0.712 + "px";
+
−
          $(".circle").css("width", ""+assembly_width/9);
+
−
          $(".circle").css("height", ""+assembly_width/9);
+
−
          $(".circle").css("height", ""+assembly_width/9);
+
−
          $(".circle").css("border-radius", "100px");
+
−
 
+
−
      //  $(".circle:hover").css("width","50px");
+
−
      //   $(".circle:hover").css("height","50px");
+
−
    /*  $( "#.circle" ).mouseenter(function() {
+
−
          var topPos = $(this).position().top - assembly_width/18;
+
−
          var leftPos = $(this).position().left - assembly_width/18;
+
−
 
+
−
          $(this).animate(
+
−
          {
+
−
            left: leftPos,
+
−
            height: ($(this).height()*2),
+
−
            width: ($(this).width()*2)
+
−
          }, 1000);
+
−
        });
+
−
*//*
+
−
        $(".circle").mouseenter(function(){
+
−
            var topPos = $(this).position().top - assembly_width/18;
+
−
            var leftPos = $(this).position().left - assembly_width/18;
+
−
            var small_scale = assembly_width/5;
+
−
            var big_scale = assembly_width/10;
+
−
            console.log(small_scale);
+
−
            console.log(big_scale);
+
−
            $(this).animate({top: topPos, left: leftPos, width:20, height: 20, opacity: 1}, 1000);
+
−
        });
+
−
 
+
−
        $(".circle").mouseleave(function(){
+
−
            var topPos = $(this).position().top - assembly_width/18;
+
−
            var leftPos = $(this).position().left - assembly_width/18;
+
−
            var small_scale = assembly_width/5;
+
−
            var big_scale = assembly_width/10;
+
−
            console.log(small_scale);
+
−
            console.log(big_scale);
+
−
            $(this).animate({top: topPos, left: leftPos, width:40, height: 40, opacity: 1}, 1000);
+
−
        });
+
−
    */
+
−
        $(".circle").hover(function(){
+
−
            var topPos = $(this).position().top;
+
−
            var leftPos = $(this).position().left;
+
−
          //  var small_scale = assembly_width/5;
+
−
          //  var big_scale = assembly_width/10;
+
−
//console.log(small_scale);
+
−
        //  console.log(big_scale);
+
−
            $(this).animate({top: topPos-10, left: leftPos-10, width:20, height: 20, opacity: 1}, 1000);
+
−
        },
+
−
        function(){
+
−
            var topPos = $(this).position().top;
+
−
            var leftPos = $(this).position().left;
+
−
            $(this).animate({top: topPos+40, left: leftPos+40, width:80, height: 80, opacity: 1}, 1000);
+
−
        });
+
−
 
+
−
  }
+
−
 
+
−
</script>
+
−
 
+
−
<div class="kommentar">
+
−
mehr Formulierungen wie: we demonstrated..., we (successfully) tested, we achieved...
+
 
</div>
 
</div>
 +
<!-- end formula -->
  
−
<div class="content_box results_page">
 
  
−
  <div class="result_box">
 
−
    <h1>Essential Results</h1>
 
−
    <p>
 
−
      Our aim was to develop a novel diagnostic tool enabling fast, simultaneous and label-free detection of antibodies in human blood sera. We successfully generated our self-established <a href="#own_mix">cell-free expression system</a> based on an <i>E. coli</i> lysate, which yielded an expression efficiency comparable to a commercial kit. To immobilize the expressed proteins, we established a <a href="#specific_surfaces">surface</a> specifically binding our target proteins.
 
−
      This system was used to produce a protein array that can be flushed with a serum sample. The binding of antibodies is detected label-free by an interferometric method called iRIf (imaging reflectometric interference) in real-time. Moreover, we <a href="#device_results_anchor">rebuilt the detection device</a> in a simplified and cost-efficient manner and thus, made it available for future iGEM Teams.
 
−
      Using the DiaCHIP, we did not only show the presence of antibodies in distinct solutions but also verified them in complex samples as human blood serum.
 
−
    </p>
 
−
  </div>
 
−
 
−
<span id="anti_tetanus_results_anchor" class="anchor"></span>
 
−
  <div class="result_box" id="anti-tetanus_results">
 
−
    <h1 class="left">Detection of Anti-Tetanus Antibodies in Human Blood Serum</h1>
 
−
    <div class="image_box right">
 
−
        <div class="thumb2 trien" style="width:250px">
 
−
          <div class="thumbinner">
 
−
            <img src="https://static.igem.org/mediawiki/2015/7/74/Freiburg_labjournal-roi_selection_20150817_429.png"></img>
 
−
            <div class="thumbcaption">
 
−
            Video 1: Detection of anti-tetanus antibodies in human serum.
 
−
            </div>
 
−
          </div>
 
−
        </div>
 
−
    </div>
 
−
    <p>
 
−
      To test the DiaCHIP under real-life conditions, we analyzed the blood serum of a vaccinated person for the presence of anti-tetanus antibodies. We compared blood samples from before and after vaccination and could directly detect its effect. To capture the antibodies, the <a href="http://parts.igem.org/Part:BBa_K1621003">corresponding antigen</a> was expressed in <i>E. coli</i>, purified by His-tag affinity purification and spotted on a specific Ni-NTA surface. By comparing the spotted pattern with the localization of signal as detected by iRIf, the system's specificity even for complex samples was shown.
 
−
      <a class="details_box_trigger" href="#details_box-1">▼ Detailed Description.</a>
 
−
    </p>
 
−
  </div>
 
−
 
−
  <div id="details_box-1" class="details_boxes">
 
−
 
−
    <div class="image_box left">
 
−
        <div class="thumb2 trien" style="width:250px"><div class="thumbinner">
 
−
            <img src="https://static.igem.org/mediawiki/2015/5/5b/Freiburg_tetanus_westernblot_protpur.png" style="width:230px"></img>
 
−
            <div class="thumbcaption">
 
−
            <strong>Figure 1: Western Blot analysis of purified tetanus antigen.</strong>
 
−
            </div>
 
−
        </div>
 
−
        </div>
 
−
    </div>
 
−
 
−
    <div class="image_box right">
 
−
        <div class="thumb2 trien" style="width:250px"><div class="thumbinner">
 
−
            <img src="https://static.igem.org/mediawiki/2015/b/b9/Freiburg_tetanus%28-%29_quotion_picture.png" style="width:230px"></img>
 
−
            <div class="thumbcaption">
 
−
            <strong>Figure 2: Quotient picture of iRIf measurement of human serum sample taken before vaccination.</strong>
 
−
            </div>
 
−
        </div>
 
−
        </div>
 
−
    </div>
 
−
 
−
    <p>
 
−
      The <a href=”http://parts.igem.org/Part:BBa_K1621003”>antigen</a> used for detection of anti-tetanus antibodies is derived from the tetanus neurotoxin and commonly used for <i>in vitro</i> testing. For preparation of the DiaCHIP, this antigen had to be overexpressed in <i>Escherichia coli</i> and purified from the whole cell lysate. To verify successful purification of the antigen, Western Blot analysis was performed (figure 1). The usage of an antibody targeting the N-terminal His-tag revealed a protein with a molecular weight of about 50 kDa. This correlates with the expected molecular weight of the antigen <sup><a class="fn_top" href="#fn__1" id="fnt__1" name="fnt__1">1)</a></sup>. </br>
 
−
    </p>
 
−
 
−
    <p>
 
−
      Before we performed an iRIf measurement with the blood of the freshly vaccinated person we checked if we could detect an interaction of antibodies present in the blood with our purified tetanus antigen by an ELISA.
 
−
      Therefore, we spotted tetanus antigen and bBSA of the same concentration (12.5&nbsp;µg/mL) and twice PBS as negative controls. The tetanus antigen and one PBS well were incubated with 5&nbsp;mg/mL BSA, blood serum and HRP-labeled anti-human for 1&nbsp;h respectively. The bBSA and the other PBS well were incubated with HRP-labeled Streptavidine (0.5&nbsp;µg/mL) for 1 &nbsp;h (positive control). After each step the wells were washed with PBS. To visualize the binding, Tetramethylbenzidine was added and the absorption at 650&nbsp;nm over time was measured in a plate reader. The graph in figure 3 shows that the signal for tetanus is even higher than the positive control, which illustrates the successful binding of antibodies from the blood to tetanus antigens.
 
−
    </p>
 
−
 
−
 
−
        <div class="image_box left">
 
−
            <div class="thumb2 trien" style="width:250px">
 
−
              <div class="thumbinner">
 
−
                  <img src="https://static.igem.org/mediawiki/2015/f/f0/Freiburg_labjournal-surchem-20150902_elisa.png" style="width:230px"></img>
 
−
                  <div class="thumbcaption">
 
−
                  <strong>Figure 3: ELISA for the tetanus antigen with freshly vaccinated blood. The graph shows the absorption over time for TMB. The red line shows the binding of anti-tetanus antibodies out of the blood serum to purified tetanus antigen and the blue line shows the binding of HRP-Streptavidine to bBSA. The grey lines show the corresponding negative controls.</strong>
 
−
                  </div>
 
−
              </div>
 
−
            </div>
 
−
        </div>
 
−
 
−
    <p>
 
−
        The purified antigen was immobilized on a Ni-NTA surface that specifically binds His-tagged proteins. Look<a href=”https://2015.igem.org/Team:Freiburg/Results/Binding”> here</a> to read more about the establishment of this surface. As a positive control, self-purified His-tagged GFP was immobilized at another spot. The reliable detection of anti-GFP was shown before (link). No binding event should be detected at the negative control spot that was covered with <strong>bBSA/mCherry (??)</strong>.
 
−
    </p>
 
−
 
−
        <div class="image_box center">
 
−
            <div class="thumb2 trien" style="width:250px"><div class="thumbinner">
 
−
                <img src="https://static.igem.org/mediawiki/2015/2/26/Freiburg_tetanus%28%2B%29_quotion_picture.png" style="width:230px"></img>
 
−
                <div class="thumbcaption">
 
−
                <strong>Figure 4: Quotient picture of iRIf measurement of human serum sample taken <b>three????</b> weeks after vaccination.</strong>
 
−
                </div>
 
−
            </div>
 
−
            </div>
 
−
        </div>
 
−
 
−
        <div class="image_box left">
 
−
            <div class="thumb2 trien" style="width:250px">
 
−
              <div class="thumbinner">
 
−
                <img src="https://static.igem.org/mediawiki/2015/1/16/Freiburg_tetanus_binding_curve.png" style="width:230px">
 
−
              </img>
 
−
                <div class="thumbcaption">
 
−
                <strong>PLATZHALTER! Figure 5: Binding curve of the tetanus measurements.</strong>
 
−
                </div>
 
−
            </div>
 
−
            </div>
 
−
        </div>
 
−
    <p>
 
−
        The human serum samples we obtained have been taken before and <strong>three?</strong> weeks after a patient received a vaccination boost against tetanus. Analysis of the samples was performed using the same array set-up. Figures 2 and 4 show quotient pictures representing changes in the thickness of the layer covering the slide while it was flushed with the respective samples. The negative control spots do not indicate any binding events, while the binding of anti-GFP to the positive control spot verifies that both experiments are reliable. The comparison of the antigen spots shows that we specifically detected anti-tetanus antibodies in human serum in response to vaccination. No binding event was detected by flushing the array with the sample assumed to be negative (figure 2), whereas a distinct spot is visible after flushing it with the positive sample (figure 4). Both measurements in real-time are shown in parallel in video 1.</br>
 
−
        The increase in relative light intensity at distinct spots over the course of the experiment is visualized in figure 5 and can be correlated with the amount of antibodies binding to the respective antigen spot. This indicates that the DiaCHIP enables quantification of antibody titers in addition to detecting their presence.
 
−
 
−
        <br>
 
−
        Besides tetanus, other antigens of immunological relevance were taken into account. See all the results we obtained in terms of <a href="https://2015.igem.org/Team:Freiburg/Results/Diagnostics">diagnostics</a>.
 
−
    </p>
 
−
 
−
    <div class="footnotes">
 
−
      <div class="fn"><sup><a class="fn_bot" href="#fnt__1" id="fn__1" name="fn__1">1)</a></sup>
 
−
        <a class="urlextern" href="http://ac.els-cdn.com/S0171298510001567/1-s2.0-S0171298510001567-main.pdf?_tid=05754f9e-4f34-11e5-95a1-00000aacb360&amp;acdnat=1440952235_9b35c0a0389b3dbe95d48a4e8a583234" rel="nofollow" target="_Blank" title="http://ac.els-cdn.com/S0171298510001567/1-s2.0-S0171298510001567-main.pdf?_tid=05754f9e-4f34-11e5-95a1-00000aacb360&amp;acdnat=1440952235_9b35c0a0389b3dbe95d48a4e8a583234">Rui et al., 2011. Enhanced expression of soluble recombinant tetanus neurotoxin Hc in Escherichia coli as a tetanus vaccine candidate. Immunobiology.</a>
 
−
      </div>
 
−
    </div>
 
−
 
−
    <a class="closeButton" href="#anti_tetanus_results">▲ Close Box</a>
 
−
  </div>
 
−
 
−
 
−
<span id="agfp_results_anchor" class="anchor"></span>
 
−
  <div class="result_box" id="agfp_results">
 
−
    <div class="kommentar">
 
−
      hier noch rein bringen, dass ihr euren eigenen cell-free mix hergestellt habt und mit diesem auch GFP expremieren könnt und es im array erfolgreich nachweisen könnt
 
−
      <br>
 
−
      Auch, dass euer Mix low-cost ist, und trotzdem auf dem Niveau (oder besser) eines kommerziellen kits liegt - Community gedanke etc.  (ps12092015)
 
−
    </div>
 
  
−
    <h1>
+
<!-- begin video -->
−
        Detection of Anti-GFP Antibodies Using Cell-Free Expressed GFP on Ni-NTA
+
−
    </h1>
+
  
−
    <div class="image_box left">
+
<div class="image_box right">
−
       <div class="thumbinner"style="width:250px;">
+
       <div class="thumbinner"style="width:700px;">
 
         <meta http-equiv="X-UA-Compatible" content="IE=Edge"/>
 
         <meta http-equiv="X-UA-Compatible" content="IE=Edge"/>
−
         <video width="250" height="250" poster="https://static.igem.org/mediawiki/2015/9/93/Freiburg_20150819_NiNTA_cellfree_antigfp_preview.png" controls>
+
         <video poster="https://static.igem.org/mediawiki/2015/c/c4/Freiburg_Diffusion_1_preview.jpg" width="700" height="350" controls>
−
           <source src="https://static.igem.org/mediawiki/2015/4/4a/Freiburg_20150819_NiNTA_cellfree_antigfp_WEB.mp4" type="video/mp4">
+
           <source src="https://static.igem.org/mediawiki/2015/5/5a/Freiburg_Diffusion_1_720p.mp4" type="video/mp4">
 
           Your browser does not support the HTML5 video tag.
 
           Your browser does not support the HTML5 video tag.
 
         </video>
 
         </video>
−
         <div class="thumbcaption">Video 2: Binding of anti-GFP antibodies to GFP-His on a Ni-NTA surface. Anti-GFP antibodies bind both to purified GFP-His and cell-free expressed GFP-His. Control spots consisting of cell-free expression mix without DNA template show no binding.
+
         <div class="thumbcaption">Video 1: Demonstration of the diffusion model.  
 
         </div>  
 
         </div>  
 
       </div>
 
       </div>
 
     </div>
 
     </div>
  
−
    <p>
+
<!-- end video -->
−
      Our self-made cell-free expression, the DiaMIX, in combination with specific glass surfaces allows the expression and purification of target proteins in a simple manner. The mix, after expressing His-tagged GFP, was spotted on a Ni-NTA coated glass slide. Even after several washing steps it could be shown that the proteins maintain their antibody binding properties. A GFP antibody solution was flushed over the slide and a specific binding could be detected in iRIf.
+
−
      <a class="details_box_trigger" href="#details_box-2">▼ Detailed Description.</a>
+
−
    </p>
+
−
  </div>
+
  
−
  <div id="details_box-2" class="details_boxes">
 
−
    <p>
 
−
      We could successfully show that the cell-free expression of GFP-His results in functional GFP proteins that are bound by anti-GFP antibodies during an iRIf measurent.
 
−
      The DNA coding for GFP fused to a 10x His-tag was added to the <a class="wikilink1" href="https://2015.igem.org/Team:Freiburg/Project/Cellfree_Expression#diamix" title="DiaMIX">DiaMIX</a> and expression was performed for 2 h. The DiaMIX containing cell-free expressed GFP-His was then spotted on an iRIf slide with a Ni-NTA surface by hand (figure 1).
 
−
      The spots were incubated on the slide over night.
 
−
    </p>
 
  
−
    <div class="image_box left">
+
<div class="image_box right">
−
      <div class="thumb2 trien" style="width:250px">
+
         <div class="thumb2 trien" style="width:376px">
−
        <div class="thumbinner">
+
−
          <a href="https://static.igem.org/mediawiki/2015/5/5f/Freiburg_files-20150903_ni-nta_surface.png" class="lightbox_trigger">
+
−
            <img src="https://static.igem.org/mediawiki/2015/5/5f/Freiburg_files-20150903_ni-nta_surface.png" style="width:300px">
+
−
          </a>
+
−
          </img>
+
−
          <div class="thumbcaption">
+
−
            <strong>Figure 1: Specific Ni-NTA surface on iRIf glass slide.</strong>
+
−
          </div>
+
−
        </div>
+
−
      </div>
+
−
    </div>
+
−
 
+
−
    <p>
+
−
      This specific surface allows binding of the expressed GFP-His via the His-tag while all the other proteins present in the DiaMIX are not bound to the surface.
+
−
      This step was followed by the <a href="https://2015.igem.org/Team:Freiburg/Protocols/iRIf_Measurement">blocking and washing protocol</a> to prevent further unspecific binding.
+
−
      The iRIf slide was then flushed with a anti-GFP antibody solution, to analyze the binding to the cell-free expressed GFP-His. As a positive control we spotted a purified GFP-His onto the surface as well as DiaMIX that did not contain any DNA as negative control (figure 2).
+
−
    </p>
+
−
 
+
−
    <div class="image_box right">
+
−
      <div class="thumb2 trien" style="width:250px">
+
−
        <div class="thumbinner">
+
−
          <img src="" style="width:230px"></img>
+
−
          <div class="thumbcaption">
+
−
            <strong>Figure 2: The two spots on the right are the cell-free expressed GFP-His proteins spotted onto the Ni-NTA surface. The spot on the left shows the positive control, GFP-His expressed in <i>E. coli</i>, purified and spotted onto the Ni-NTA surface.</strong>
+
−
          </div>
+
−
        </div>
+
−
      </div>
+
−
    </div>
+
−
 
+
−
    <p>
+
−
      The measurement shows a high signal for the cell-free expressed GFP-His and the positive control as can also be seen in the respective binding curve shown in figure 3.
+
−
    </p>
+
−
 
+
−
    <div class="image_box left">
+
−
      <div class="thumb2 trien" style="width:410px">
+
−
        <div class="thumbinner">
+
−
          <a class="lightbox_trigger" href="https://static.igem.org/mediawiki/2015/6/6d/Freiburg_2015_freiburg_cellfex_gfp_on_ni-nta_binding_curve.png">  <img alt="" class="mediabox2" src="https://static.igem.org/mediawiki/2015/6/6d/Freiburg_2015_freiburg_cellfex_gfp_on_ni-nta_binding_curve.png" width="400"/>
+
−
          </a>
+
−
          <div class="thumbcaption">
+
−
            <div class="magnify">
+
−
              <a class="internal" href="/igem2015/lib/exe/detail.php?id=results_overview&amp;media=2015_freiburg_cellfex_gfp_on_ni-nta_binding_curve.png" title="vergrößern">
+
−
                <img alt="" height="11" src="/igem2015/lib/plugins/imagebox/magnify-clip.png" width="15"/>
+
−
              </a>
+
−
            </div>
+
−
            <strong>Figure 3: Binding curve of anti-GFP binding to cell-free expressed GFP-His on a Ni-NTA surface.</strong> Cell-free expressed GFP-His was spotted onto a specific Ni-NTA surface and flushed with anti-GFP. The binding curve indicated a binding event at the respective spot.
+
−
          </div>
+
−
        </div>
+
−
      </div>
+
−
    </div>
+
−
 
+
−
    <p>   
+
−
      Find out more about the <a href="https://2015.igem.org/Team:Freiburg/Results#assembly_pic">preparation</a> of the DiaCHIP by producing a protein microarray from a DNA template using cell-free expression.
+
−
      <a class="closeButton" href="#agfp_results">▲ Close Box</a>
+
−
    </p>
+
−
  </div>
+
−
 
+
−
<span id="device_results_anchor" class="anchor"></span>
+
−
  <div class="result_box" id="device_results">
+
−
     
+
−
    <h1 class="left">
+
−
        Building Our Low-Cost DiaCHIP Measuring Device
+
−
    </h1>
+
−
 
+
−
    <div class="image_box right">
+
−
        <div class="thumb2 trien" style="width:250px">
+
−
          <div class="thumbinner">
+
−
              <a href="https://static.igem.org/mediawiki/2015/b/b7/Freiburg_Own_Device_Foto.jpg">
+
−
              <img src="https://static.igem.org/mediawiki/2015/2/2e/Freiburg_Own_Device_Foto_preview.jpg"></img>
+
−
              </a>
+
−
              <div class="thumbcaption">
+
−
                  Figure 2: Functional and low-cost variant of the measuring device.
+
−
              </div>
+
−
          </div>
+
−
        </div>
+
−
    </div>
+
−
 
+
−
    <p>
+
−
      Commercial systems using the iRIf technology (imaging reflectomretric interference) are mostly bulky and expensive machines even though the components they are based on are rather simple. So we decided on building our own device consisting of not much more than two lenses, an LED and a camera. With this system we were able to reliably detect the binding of anti-GFP to GFP, thus confirming a detection sensitivity in the range of protein-protein interactions. To enable future iGEM Teams to profit from this device as we did, we provide all plans and parts necessary to rebuild it on this website for everyonbe to download and use.
+
−
      <a class="details_box_trigger" href="#details_box-3">▼ Detailed Description.</a>
+
−
    </p>
+
−
 
+
−
  </div>
+
−
 
+
−
  <div id="details_box-3" class="details_boxes">
+
−
    <div class="image_box left">
+
−
      <div class="thumbinner"style="width:324px;">
+
−
        <meta http-equiv="X-UA-Compatible" content="IE=Edge"/>
+
−
        <video width="324" height="300" poster="https://static.igem.org/mediawiki/2015/8/80/Freiburg_iRIf_measurement_device_preview.jpg" controls>
+
−
        <source src="https://static.igem.org/mediawiki/2015/7/77/Freiburg_20150911_DEVICE_GFP_RABBIT.mp4" type="video/mp4">
+
−
        Your browser does not support the video tag.
+
−
        </video>
+
−
        <div class="thumbcaption">Video 1: Demonstration of the capability of our iRIf device at measuring antibody-antigen interaction. GFP was spotted on the left side, rabbit proteins (anti-HCV antibodies from rabbit) on the right.
+
−
        </div>
+
−
      </div>
+
−
    </div>
+
−
 
+
−
    <p>
+
−
      To test our device we aimed at reproducing measurements that we were previously able to perform in our commercial device. For this reason we focused on using two antibodies: anti-GFP and polyclonal anti-rabbit. GFP and rabbit derived anti-HCV (Hepatitis C Virus) antibodies were used as antigens in this experiment. Note that the anti-HCV antibodies only served as binding partners for the anti-rabbit antibodies, since no HCV proteins were used in this experiment.
+
−
      The antigens were spotted onto an iRIf slide whose binding layer consisted of an APTES/PDITC surface. The spots on the slide were produced by pipetting 3.5 µl [1 mg/ml] rabbit-anti-HCV protein and 3.5 µl [1 mg/ml] GFP onto the slide and incubated overnight. After incubation the slide was blocked for 30 min in BSA solution.
+
−
 
+
−
      A Canon 50D camera was used to record the measurement and was set to take one picture every 5 seconds. The exposure time was set in order for the pixels in the image to be approx. 80% of maximum light saturation before the solution was flushed onto the chip.
+
−
 
+
−
      The antibody solutions were pipetted into the flow-chamber without the use of any microfluidic device. Instead, a syringe was loaded with 660 µl [5 µg/ml] anti-GFP antibody solution (diluted in PBS) and connected to the input pipe of our device. The content of the syringe was then slowly released via this pipe into the chamber of the device by gently dispensing the solution from the syringe. When the whole volume ran over the chip, the process was repeated with 660 µl [5 µg/ml] anti-rabbit antibody solution in the same way. The injection of both solutions was performed during approximately 45 minutes.
+
−
    </p>
+
−
 
+
−
    <div class="image_box left">
+
−
         <div class="thumb2 trien" style="width:250px">
+
 
             <div class="thumbinner">
 
             <div class="thumbinner">
−
                 <a href="https://static.igem.org/mediawiki/2015/2/24/Freiburg_20150908_Device_03_GFP_Rabbit_LUT_0985_1003.png">
+
                 <a href="https://static.igem.org/mediawiki/2015/b/bc/Freiburg_MOD_IM_01_Simplification.png" class="lightbox_trigger">
−
                    <img src="https://static.igem.org/mediawiki/2015/7/71/Freiburg_20150908_Device_03_GFP_Rabbit_LUT_0985_1003_preview.png"></img>
+
                     <img src="https://static.igem.org/mediawiki/2015/6/63/Freiburg_MOD_IM_01_Simplification_preview.png" width="376">
−
                </a>
+
−
            </div>
+
−
        <strong>Figure 3: Quotient picture of the same measurement with favourable light conditions.</strong>
+
−
        </div>
+
−
    </div>
+
−
 
+
−
    <p>
+
−
      Video 1 shows the results of the measurement. Both, binding of anti-GFP and anti-rabbit to the corresponding antigen spots, could be observed. Due to the fact that the experiment was performed on our demonstration device which was built with a transparent casing, fluctuations in surrounding light had a strong, detrimental influence on the measurement quality. To minimize the influence of the unstable surrounding light, the resulting pictures had to be averaged over 10 pictures each. This in turn lead to a more stable light situation, however the signal strengh dropped as a consequence. Figure 3 shows a quotient picture of the measurement where the light situation was temporarily appropriate. The problem of surrounding light scattering into the device can of course be overcome using a non-transparent casing. An evaluation of how well our device performs in comparison with the professional device, was not performed, mainly due to time constraints. However our results hint that we get comparable results for strong binding such as GFP/anti-GFP, as can be seen in figure 4.
+
−
+
−
    </p>
+
−
 
+
−
<div class="image_box left">
+
−
        <div class="thumb2 trien" style="width:250px">
+
−
            <div class="thumbinner">
+
−
                <a href="https://static.igem.org/mediawiki/2015/3/38/Freiburg_comparison_professional_ourDevice.png">
+
−
                     <img src="https://static.igem.org/mediawiki/2015/3/38/Freiburg_comparison_professional_ourDevice.png"></img>
+
−
                </a>
+
−
            </div>
+
−
        <strong>Figure 4: Comparison of our DiaCHIP with the professional setup. Left: two GFP spots measured with the professional device; Right: the GFP spots measured with our device.</strong>
+
−
        </div>
+
−
    </div>
+
−
 
+
−
    <a class="closeButton" href="#device_results">▲ Close Box</a>
+
−
  </div>
+
−
 
+
−
  <div class="result_box" id="specific_surfaces">
+
−
 
+
−
    <h1>
+
−
        Establishing a Highly Specific Ni-NTA Surface
+
−
    </h1>
+
−
 
+
−
 
+
−
    <div class="image_box left">
+
−
        <div class="thumb2 trien" style="width:310px">
+
−
            <div class="thumbinner">
+
−
                <a href="https://static.igem.org/mediawiki/2015/0/0b/Freiburg_GFP_CF_NiNTA.png" class="lightbox_trigger">
+
−
                <img src="https://static.igem.org/mediawiki/2015/6/65/Freiburg_GFP_CF_NiNTA_preview.png" width="300px">
+
 
                 </a>
 
                 </a>
 
                 <div class="thumbcaption">
 
                 <div class="thumbcaption">
−
                     <p>Figure 1: Cell-free expressed GFP-His spotted on a Ni-NTA slide. Cell-free expression was performed for 2 hours at 37°C. The positive control was purified GFP-His, the negative control was a sample of cell-free expression mix not containing DNA. </p>
+
                     <p>
 +
                        <strong>Figure:  
 +
                    </p>
 
                 </div>
 
                 </div>
 
             </div>
 
             </div>
 
         </div>
 
         </div>
 
     </div>
 
     </div>
−
             
 
−
    <p>
 
−
      Since there is a variety of proteins present in the cell-free mix a specific surface on the future protein array is essential. That is why we established our Ni-NTA surface for the immobilization of the antigens on the chip. All expression constructs contain a His-tag fused to the coding sequence, resulting in antigens that can bind specifically to our Ni-NTA surface. Compared to an unspecific surface (PDITC) we could show that this Ni-NTA surface allows efficient binding of the target protein and prevents unspecific binding of other proteins that are present in the cell-free mix.
 
−
      <a class="details_box_trigger" href="#details_box-4">▼ Detailed description.</a>
 
−
    </p>
 
−
  </div>
 
  
−
  <div id="details_box-4" class="details_boxes">
 
  
−
    <div class="image_box right">
 
−
        <div class="thumb2 trien" style="width:310px">
 
−
        <div class="thumbinner">
 
−
            <a href="https://static.igem.org/mediawiki/2015/1/1b/Freiburg_GFP_CF_PDITC.png" class="lightbox_trigger">
 
−
            <img src="https://static.igem.org/mediawiki/2015/1/1b/Freiburg_GFP_CF_PDITC.png" width="300px"> 
 
−
            <div class="thumbcaption">
 
−
            </a>
 
−
                <p>Figure 2: Cell-free expressed GFP-His spotted on a PDITC slide. Cell-free expression was performed for 2 hours at 37°C. The positive control was purified GFP-His, the negative control was a sample of cell-free expression mix not containing DNA. </p>
 
−
            </div>
 
−
        </div>
 
−
        </div>
 
−
    </div>
 
−
 
−
    <p>
 
−
      For cell-free protein expression lots of different proteins, like RNA-polymerases, ribosomes and other <i>E. coli</i> proteins, are essential. So during the process of cell-free expression all these proteins are, besides the target protein, also present in the microfluidic chamber. To have a sufficient amount of target protein immobilized on the chip we established a specific surface chemistry on the glass slide. After testing several <a href="https://2015.igem.org/Team:Freiburg/Results/Surface">tag systems</a> we established a Ni-NTA surface because it worked best for us. Using a Ni-NTA covered glass slide (figure 1) we could increase the amount of bound cell-free expressed GFP-His compared to an unspecific surface (figure 2). In both experiments ____2.5 µg?!?____ of self purified GFP-His was used as positive control. The cell-free expression mix without DNA is supposed to result in no target protein and served as negative control. The cell-free reactions were performed for 2 hours at 37°C. The samples were pipetted by hand onto the surfaces and incubated on the slide overnight. In the iRIf device, the optical detection method we used, the slides were blocked with BSA and then flushed with anti-GFP antibodies. An increase in light intensity on the slide where the spotted protein was located represents a binding event. Due to less unspecific binding of proteins to the surface, the interaction of anti-GFP antibodies with cell-free expressed GFP-His is higher on the Ni-NTA surface.
 
−
    </p>
 
−
    <a class="closeButton" href="#specific_surfaces">▲ Close Box</a>
 
−
  </div>
 
−
 
−
  <div class="result_box" id="own_mix">
 
−
 
−
    <h1 class="left">
 
−
        Producing Our Cell-free Expression Mix
 
−
    </h1>   
 
−
    <p>
 
−
        The mechanism we are using to copy a DNA array template into a protein array on demand is based on cell-free expression. During our project we successfully established our cell-free expression system, the DiaMIX, from scratch, starting with an <i>E. coli</i> lysate. With this mix we succeeded in expressing correctly folded GFP and luciferase. Comparison of the DiaMIX with a commercial cell-free expression kit revealed the great potential of our system!
 
−
        <a class="details_box_trigger" href="#details_box-5">▼ Detailed Description.</a>
 
−
    </p>
 
−
  </div>
 
−
 
−
  <div id="details_box-5" class="details_boxes">
 
−
      <p>
 
−
        Our DiaMIX was prepared based on a protocol of <div class="todo_box">??? (Ref.)</div>.
 
−
        It is a very complex system containing many different enzymes and chemicals for special purposes. An overview of cell-free expression systems and its components can be found on the<a class=”wikilink1” href=https://2015.igem.org/Team:Freiburg/Project/Cellfree_Expression>methodology page</a>. <br/>
 
−
        To investigate the efficiency of our self-prepared expression system we performed an experiment comparing it to a commercially available kit. In order to obtain reliable results we used the exact same vector, containing a sequence encoding GFP. Like this we were able to trace the amount of expressed GFP using a plate reader over a period of two hours. As a negative control, both mixes were treated equally in a second sample but did not contain any DNA. <br/>
 
−
        The evaluation is shown in figure 1 and is based on triplicates. <b>The data was normalized to the mean value of the measurement of air. The uncertainty was calculated using the standard deviation. ÜBERARBEITEN JE NACH GRAPH</b> <br/>
 
−
 
−
        picture; Figure 1: <b>Cell-free expression of GFP using the DiaMIX and a commercial kit.</b> The reaction was performed in a volume of 50 µl each and monitored every minute at 37°C over a period of two hours. Excitation at 480 nm, emission at 520 nm. <br/>
 
−
 
−
        Both expression systems were shown to successfully express the applied vector. There is a clear enhancement of light emission observable at 520nm for both mixes in comparison to the respective negative control. The expression of GFP using the DiaMIX seems to be slightly better than by using the commercial kit. Still, one has to mention the actual purpose of the commercial kit to express linear templates. However, as the basis protocol for our mix was optimized for circular templates, we used a circular vector for the experiment. <br/>
 
−
        Furthermore, as already shown above, we successfully verified the expression of GFP with our cell-free mix in an <a class="wikilink1" href="https://2015.igem.org/Team:Freiburg/Results#agfp_results" title="agfp_results">iRIf measurement</a>. <br/>
 
−
        To obtain these final results, a lot of optimization and testing had to be done. If you want to know more about how we established the DiaMIX for the DiaCHIP, you can find detailed information about the most important experiments on the <a class=”wikilink1” href="https://2015.igem.org/Team:Freiburg/Results/Cellfree">cell-free expression results page</a>. <br/>
 
−
      </p>
 
−
      <a class="closeButton" href="#own_mix">▲ Close Box</a>
 
−
    </div>
 
−
  </div>   
 
−
 
−
<span id="explore_DiaCHIP_anchor" class="anchor"></span>
 
−
<div class="content_box results_page" id="explore_DiaCHIP">
 
−
  <h1>Explore the DiaCHIP</h1>
 
−
    <p>
 
−
      For establishing our device, we optimized all steps from the immobilization of DNA on the silicone of the flow-chamber to the specific binding of the target proteins on the glass slide. This way, we generated protein arrays we could use to detect different antibodies in human and rabbit serum with the iRIf detection method. <br> Click on the images below to explore our experiments from expression to detection!
 
−
    </p>
 
−
 
−
  <h2 id="assembly_pic">Assembling the DiaCHIP</h2>
 
−
 
−
  <div class="flexbox">
 
−
      <div id="Assembling" class="link_image">
 
−
          <a href="https://2015.igem.org/Team:Freiburg/Results/Immobilization" id="immobilization" class="circle"></a>
 
−
          <div class="hovertext" id="immobilization_label">DNA Immobilization</div>
 
−
          <a href="https://2015.igem.org/Team:Freiburg/Results/Cellfree" id="cellfree" class="circle"></a>
 
−
          <div class="hovertext" id="cellfree_label">Cell-free Expression</div>
 
−
          <a href="https://2015.igem.org/Team:Freiburg/Results/Surface" id="binding" class="circle"></a>
 
−
          <div class="hovertext" id="binding_label">Binding on Surface</div>
 
−
          <img id="assembly_image" src="https://static.igem.org/mediawiki/2015/f/f9/Freiburg_150912_Resultsoverviewgrafik_quer_DNAonPDMS_CF_Surface_RJ.png" width="100%">
 
−
      </div>
 
−
  </div>
 
−
 
−
  <h2>Diagnosis of Antigens</h2>
 
−
 
−
</script>
 
−
  <div class="flexbox">
 
−
      <div id="Diagnosis" class="link_image">
 
−
          <a href="https://2015.igem.org/Team:Freiburg/Results/Diagnostics#agfp" id="multbind" class="circle"></a>
 
−
          <div class="hovertext" id="multbind_label">Specific Detection of anti-GFP in rabbit serum</div>
 
−
          <a href="https://2015.igem.org/Team:Freiburg/Results/Diagnostics#salmonella" id="salmonella" class="circle"></a>
 
−
          <div class="hovertext" id="salmonella_label">Detection of Salmonella Single Chain Antibodies</div>
 
−
          <a href="https://2015.igem.org/Team:Freiburg/Results/Diagnostics" id="irif" class="circle"></a>
 
−
          <div class="hovertext" id="irif_label">Imaging Reflectometric Interference</div>
 
−
          <img id="diagnosis_image" src="https://static.igem.org/mediawiki/2015/5/55/Freiburg_150912_Resultsoverviewgrafik_Tet_Sal_GFP_RJ.png" width="100%">
 
−
      </div>
 
−
  </div>
 
−
 
−
  <p> Click on one of the images to get a further insight on how we build our DiaCHIP </p>
 
−
</div>
 
  
  
 
</html>
 
</html>
−
 
−
<!-- wiki content ends here -->
 
 
{{Freiburg/wiki_content_end}}
 
{{Freiburg/wiki_content_end}}

Latest revision as of 01:37, 19 September 2015

""

Modeling

Note

Video 1: Demonstration of the diffusion model.

Figure: