Difference between revisions of "Template:Team:Utrecht/MainBody"

Line 1,107: Line 1,107:
 
<div class="page-heading">MESA construct replication</div>
 
<div class="page-heading">MESA construct replication</div>
  
−
The architecture we use for OUTCASST is inspired by the Modular Extracellular Sensor Architecture (MESA) (Daringer, N. M., Dudek, R. M., Schwarz, K. A., & Leonard, J. N., 2014: Modular extracellular sensor architecture for engineering mammalian cell-based devices. ACS synthetic biology, 3(12), 892-902, http://pubs.acs.org/doi/abs/10.1021/sb400128g) (Schwarz, K. A., Daringer, N. M., Dolberg, T. B., & Leonard, J. N. 2017: Rewiring human cellular input-output using modular extracellular sensors. Nature chemical biology, 13(2), 202-209, http://www.nature.com/nchembio/journal/v13/n2/abs/nchembio.2253.html?foxtrotcallback=true). Because of this, MESA first needed to be replicated to verify whether the final product could work as intended.  
+
The architecture we use for OUTCASST is inspired by the Modular Extracellular Sensor Architecture (MESA) <i class="ref" data-ref="1">1</i> <i class="ref" data-ref="2">2</i>. Because of this, MESA first needed to be replicated to verify whether the final product could work as intended.  
 
A successful replication is required for OUTCASST to work, and to provide data that we can use to compare and correct models of the system.
 
A successful replication is required for OUTCASST to work, and to provide data that we can use to compare and correct models of the system.
 
<br>
 
<br>
Line 1,218: Line 1,218:
 
<br><br>
 
<br><br>
 
<h2 class="subhead" id="subhead-7">References</h2>
 
<h2 class="subhead" id="subhead-7">References</h2>
 +
 +
<ol class="references">
 +
<li data-title="Modular extracellular sensor architecture for engineering mammalian cell-based devices." data-author="Daringer, N. M., Dudek, R. M., Schwarz, K. A., & Leonard, J. N." data-link="http://pubs.acs.org/doi/abs/10.1021/sb400128g" />Daringer, N. M., Dudek, R. M., Schwarz, K. A., & Leonard, J. N., 2014: Modular extracellular sensor architecture for engineering mammalian cell-based devices. ACS synthetic biology, 3(12), 892-902. <a target=_BLANK href="http://pubs.acs.org/doi/abs/10.1021/sb400128g" class="external"></a>
 +
<li data-title="Rewiring human cellular input-output using modular extracellular sensors." data-author="Schwarz, K. A., Daringer, N. M., Dolberg, T. B., & Leonard, J. N." data-link="http://www.nature.com/nchembio/journal/v13/n2/abs/nchembio.2253.html?foxtrotcallback=true" />Schwarz, K. A., Daringer, N. M., Dolberg, T. B., & Leonard, J. N. 2017: Rewiring human cellular input-output using modular extracellular sensors. Nature chemical biology, 13(2), 202-209. <a target=_BLANK href="http://www.nature.com/nchembio/journal/v13/n2/abs/nchembio.2253.html?foxtrotcallback=true" class="external"></a>
 +
</ol>
 +
 +
<span id="tooltip-1"></span>
 +
<span id="tooltip-2"></span>
  
 
<br><br>
 
<br><br>
−
<h2 class="subhead" id="subhead-7">Supplementary</h2>
+
<h2 class="subhead" id="subhead-8">Supplementary</h2>
  
 
</script>
 
</script>
Line 1,690: Line 1,698:
  
 
#modal-content>h2 { border-bottom: 1px solid #dedede; padding-bottom: 10px; }
 
#modal-content>h2 { border-bottom: 1px solid #dedede; padding-bottom: 10px; }
 +
 +
.ref {
 +
display: inline-block;
 +
    background: #0069b3;
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 +
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 +
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 +
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 +
cursor: pointer;
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}
 +
 +
.ref-close
 +
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 +
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 +
    cursor: pointer;
 +
    width: 120px;
 +
    height: 20px;
 +
    margin: 5px auto;
 +
    text-align: center;
 +
    background: #ececec;
 +
    color: #0069b3;
 +
    border-radius: 5px;
 +
}
 +
 +
.ref-close:hover
 +
{
 +
background: #0069b3;
 +
color: white;
 +
}
  
 
.pdf { display: inline-block; font-size: 12px; margin: 10px 0 10px 0; padding-left: 30px; height: 24px; background: url(https://static.igem.org/mediawiki/2017/6/6a/Uupdf.png) top left no-repeat; vertical-align: bottom; }
 
.pdf { display: inline-block; font-size: 12px; margin: 10px 0 10px 0; padding-left: 30px; height: 24px; background: url(https://static.igem.org/mediawiki/2017/6/6a/Uupdf.png) top left no-repeat; vertical-align: bottom; }
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5: "Results",
 
5: "Results",
 
6: "Discussion",
 
6: "Discussion",
−
7: "Supplementary",
+
7: "References",
 +
8: "Supplementary",
 
},
 
},
 
"outcasst" : {
 
"outcasst" : {
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$$(".top-menu")[0].removeClassName("active");
 
$$(".top-menu")[0].removeClassName("active");
 
$$(".menu-container")[0].removeClassName("active");
 
$$(".menu-container")[0].removeClassName("active");
 +
 +
// references
 +
if($$(".page-container i.ref").length > 0)
 +
{
 +
$$(".page-container i.ref").each(function(v, k)
 +
{
 +
var ref_key = parseInt(v.innerHTML);
 +
var reference;
 +
 +
var i = 1;
 +
$$(".references>li").each(function(ref_v, ref_k)
 +
{
 +
if(i == ref_key)
 +
{
 +
reference = ref_v;
 +
 +
jQuery("#tooltip-" + i).dxTooltip({
 +
target: v,
 +
showEvent: 'click',
 +
hideEvent: "",
 +
closeOnOutsideClick: true,
 +
width: 0,
 +
height: 0,
 +
visible: true,
 +
animation: { show: { type: 'fade', from: 0, to: 1, duration: 0 }, hide: { type: 'fade', to: 0, duration: 0 } },
 +
contentTemplate: ""
 +
}).dxTooltip("hide");
 +
 +
jQuery("#tooltip-" + i).dxTooltip({
 +
width: "auto",
 +
height: "auto",
 +
animation: { show: { type: 'fade', from: 0, to: 1 }, hide: { type: 'fade', to: 0 } },
 +
contentTemplate: function () {
 +
return "<div style='text-align: left;'><b>" + ref_v.getAttribute("data-title") + "</b><br>" + ref_v.getAttribute("data-author") + "<br>Link: <a target=_BLANK href='" + ref_v.getAttribute("data-link") + "'>click here</a><br><br><div class='ref-close'>View full reference</div></div>";
 +
},
 +
});
 +
 +
throw $break;
 +
}
 +
 +
i++;
 +
});
 +
 +
console.log(v, reference);
 +
});
 +
}
 
 
 
if(!first_load)
 
if(!first_load)
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jQuery("html, body").animate({ scrollTop: pos.y - 200 }, 500);
 
jQuery("html, body").animate({ scrollTop: pos.y - 200 }, 500);
 +
});
 +
 +
// reference click
 +
document.body.on("click", ".ref-close", function(event, element)
 +
{
 +
$$(".menu-container .item").each(function(v, k)
 +
{
 +
if(v.innerHTML.indexOf("Reference") > 0)
 +
{
 +
var pos = getPos($("subhead-" + v.getAttribute("data-key")));
 +
 +
jQuery("html, body").animate({ scrollTop: pos.y - 200 }, 500);
 +
 +
throw $break;
 +
}
 +
});
 
});
 
});
 
 

Revision as of 17:31, 31 October 2017

<!DOCTYPE html>

  • Home
  • Experimental
  • Human practices
  • Team & Sponsors
Cas9 & Cpf1 secretion
and activity
Comparison of endonuclease activity for Cas9 and Cpf1 that has been produced in, and excreted by, HEK293 cells.
MESA two-component system replication
Details on the MESA two-component system, explanation of its relation to our design and the results of its reproduction.
OUTCASST system production
Detailed explanation of the OUTCASST mechanism, experimental progress and technical prospects.
Modeling and
mathematics
Ordinary differential equations, cellular automaton and an object based model for optimal linker-length estimation.
InterLab study participation
Results and details of our measurements for the iGEM 2017 InterLab Study.
Stakeholders & opinions
Interviews and dialogues with stakeholders, potential users, third parties and experts relating to pathogen detection or DNA-based diagnostics.
Risks & safety-issues
Implications and design considerations relating to safety in the usage and implementation of OUTCASST as a diagnostics tool.
Design & integration
OUTCASST toolkit and product design with factors such as bio-safety and user-friendliness taken into account.
Outreach
Videos we made for the dutch public, together with 'de Kennis van Nu'.
Meet our team
About us, our interests and roles in the team and our supervisors.
Sponsors
A listing of our sponsors, how they assisted us and our gratitude for their assistance.
Collaborations
Read about our exchanges with other iGEM teams and government agencies.
Achievements
A short description of all that we have achieved during our participation in the iGEM.
Attributions
A thank-you for everyone that assited us, both in and outside the lab.
Intro
The problem
The system