Difference between revisions of "Team:TP-CC San Diego/Results"

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{{TP-CC_San_Diego}}
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{{:Team:TP-CC_San_Diego/Templates/NavBar}}
 
<html>
 
<html>
 +
<style>
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.description
 +
    {
 +
        margin-left: 10%;
 +
    }
  
 +
.fade-in{
 +
  animation: opac 2s
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}
  
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<div class="column full_size" >
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.pictures {
 +
    width: 250px;
 +
    height: 250px;
 +
    background-color: grey;
 +
}
  
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<h1>Results</h1>
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.cellcontainer
 +
{
 +
  width: 50%;
 +
  margin: 2% auto;
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}
  
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<p>Here you can describe the results of your project and your future plans. </p>
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.cellcontainer img
 +
{
 +
  width: 100%;
 +
}
  
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<h5>What should this page contain?</h5>
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.rowfirst
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<ul>
+
{
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<li> Clearly and objectively describe the results of your work.</li>
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  width: 85%;
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<li> Future plans for the project. </li>
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  margin: 0% auto;
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<li> Considerations for replicating the experiments. </li>
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}
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</ul>
+
  
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<h5>You should also describe what your results mean: </h5>
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.rowfirst .item1
 +
{
 +
  width: 33%;
 +
  float: left;
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}
  
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<ul>
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.rowfirst .item2
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<li> Interpretation of the results obtained during your project. Don't just show a plot/figure/graph/other, tell us what you think the data means. This is an important part of your project that the judges will look for. </li>
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{
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<li> Show data, but remember all measurement and characterization data must be on part pages in the Registry. </li>
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  width: 33%;
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<li> Consider including an analysis summary section to discuss what your results mean. Judges like to read what you think your data means, beyond all the data you have acquired during your project. </li>
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  float: left;
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</ul>
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}
 +
.rowfirst .item3
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{
 +
  margin-top: 1%;
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  width: 33%;
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  float: left;
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}
 +
.rowfirst .item1 span
 +
{
 +
    margin: 7px;
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    font-size: 15px;
 +
    /* Make the caption a block so it occupies its own line. */
 +
    display: block;
 +
    text-align: center;
 +
}
  
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</div>
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.rowfirst .item2 span
 +
{
 +
    margin: 7px;
 +
    font-size: 15px;
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    /* Make the caption a block so it occupies its own line. */
 +
    display: block;
 +
    text-align: center;
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}
  
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<div class="clear"></div>
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.rowfirst .item3 span
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{
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    margin: 7px;
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    font-size: 15px;
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    /* Make the caption a block so it occupies its own line. */
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    display: block;
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    text-align: center;
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}
  
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<div class="column half_size" >
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.rowfirst .item1 img
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{
 +
  width: 100%;
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}
  
 +
.rowfirst .item2 img
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{
 +
  width: 100%;
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}
  
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<h5> Project Achievements </h5>
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.rowfirst .item3 img
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{
 +
  width: 95%;
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}
  
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<p>You can also include a list of bullet points (and links) of the successes and failures you have had over your summer. It is a quick reference page for the judges to see what you achieved during your summer.</p>
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.containertop .item {
 +
    /* To correctly align image, regardless of content height: */
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    vertical-align: top;
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    display: inline-block;
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    /* To horizontally center images and caption */
 +
    text-align: center;
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    /* The width of the container also implies margin around the images. */
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    width: 25%;
 +
    float: left;
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}
  
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<ul>
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.containertop2 .item {
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<li>A list of linked bullet points of the successful results during your project</li>
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    /* To correctly align image, regardless of content height: */
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<li>A list of linked bullet points of the unsuccessful results during your project. This is about being scientifically honest. If you worked on an area for a long time with no success, tell us so we know where you put your effort.</li>
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    vertical-align: top;
−
</ul>
+
    display: inline-block;
 +
    /* To horizontally center images and caption */
 +
    text-align: center;
 +
    /* The width of the container also implies margin around the images. */
 +
    width: 50%;
 +
    float: left;
 +
}
  
 +
.containertop3 .item {
 +
    /* To correctly align image, regardless of content height: */
 +
    vertical-align: top;
 +
    display: inline-block;
 +
    /* To horizontally center images and caption */
 +
    text-align: center;
 +
    /* The width of the container also implies margin around the images. */
 +
    width: 33%;
 +
    float: left;
 +
}
 +
 +
.caption {
 +
    margin: 7px;
 +
    font-size: 15px;
 +
    /* Make the caption a block so it occupies its own line. */
 +
    display: block;
 +
}
 +
 +
.containertop
 +
{
 +
  width: 90%;
 +
  margin: 1% auto;
 +
  height: 300px;
 +
}
 +
 +
.text-title
 +
{
 +
  width: 40%;
 +
  margin:30px auto auto auto;
 +
  font-size: 18px;
 +
  font-family: 'Poppins', sans-serif;
 +
  color: black;
 +
  text-align: center;
 +
  border-width: 3px;
 +
  border-color: black;
 +
  border-style: solid;
 +
  padding: 1%;
 +
}
 +
</style>
 +
<body>
 +
 +
 +
<h2 class = "main-title fade-in"> Results </h2>
 +
<div class = "text-wrapper">
 +
 +
<h3 class ="day"> Effects of ecDNA </h3>
 +
<p style="padding: 2% 11%;font-size:16px;">There is a significantly depressed rate of cell growth due to the treatment. New cell growth, measured in the increased of density, was significantly retarded in the induced group. Based on the single factor analysis of variance test, our data after testing declares a p-value deemed low enough to reject the null hypothesis.</p>
 +
<div class="cellcontainer">
 +
<img src="https://static.igem.org/mediawiki/2017/b/ba/T--TP-CC_San_Diego--celldenovertime.png">
 +
<img src="https://static.igem.org/mediawiki/2017/6/6f/T--TP-CC_San_Diego--analysisofvariance.png">
 +
</div>
 +
<h3 class ="day">Parts</h3>
 +
<div class="rowfirst">
 +
<div class="item1">
 +
        <img src="https://static.igem.org/mediawiki/2017/archive/d/d5/20171102014221%21T--TP-CC_San_Diego--k2369000.png">
 +
        <span class="caption">BBa_K2369000</span>
 +
</div>
 +
<div class="item2">
 +
<img src="https://static.igem.org/mediawiki/2017/archive/7/7b/20171102014242%21T--TP-CC_San_Diego--k2369001.png">
 +
<span class="caption">BBa_K2369001</span>
 +
</div>
 +
<div class="item3">
 +
<img src="https://static.igem.org/mediawiki/2017/archive/f/f7/20171102014255%21T--TP-CC_San_Diego--k2369002.png">
 +
<span class="caption">BBa_K2369002</span>
 +
</div>
 
</div>
 
</div>
  
 +
<h3 class ="day">Images</h3>
 +
<h3 class = "text-title"> EGFR Testing </h3>
 +
<center>
 +
<div class="containertop2">
 +
    <div class="item">
 +
        <img src="https://static.igem.org/mediawiki/2017/a/a1/T--TP-CC_San_Diego--EGFR.png" width="400">
 +
        <span class="caption"> EGFR vs. Normalized Vector Expansion</span>
 +
    </div>
 +
    <div class="item">
 +
        <img src="https://static.igem.org/mediawiki/2017/e/e2/T--TP-CC_San_Diego--GBM39.png" width="500">
 +
        <span class="caption"> E1G4</span>
 +
    </div>
 +
</div>
 +
</center>
  
−
<div class="column half_size" >
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<h3 class = "text-title"> References </h3>
 +
<center>
 +
<div class="containertop2">
 +
    <div class="item">
 +
        <img src="https://static.igem.org/mediawiki/2017/f/f5/T--TP-CC_San_Diego--finalplasmid.png" height="300">
 +
        <span class="caption"> Guide RNA plasmid design  </span>
 +
    </div>
 +
    <div class="item">
 +
        <img src="https://static.igem.org/mediawiki/2017/6/6c/T--TP-CC_San_Diego--100bpLadder.png" height="300">
 +
        <span class="caption"> 100 Basepair ladder</span>
 +
    </div>
 +
</div>
 +
</center>
  
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<h5>Inspiration</h5>
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<h3 class = "text-title">guide RNAs </h3>
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<p>See how other teams presented their results.</p>
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<center>
−
<ul>
+
<div class="containertop">
−
<li><a href="https://2014.igem.org/Team:TU_Darmstadt/Results/Pathway">2014 TU Darmstadt </a></li>
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    <div class="item">
−
<li><a href="https://2014.igem.org/Team:Imperial/Results">2014 Imperial </a></li>
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        <img class = "pictures" src="https://static.igem.org/mediawiki/2017/f/f2/T--TP-CC_San_Diego--e1g2.jpg" width="500">
−
<li><a href="https://2014.igem.org/Team:Paris_Bettencourt/Results">2014 Paris Bettencourt </a></li>
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        <span class="caption"> E1G2</span>
−
</ul>
+
    </div>
 +
    <div class="item">
 +
        <img class = "pictures" src="https://static.igem.org/mediawiki/2017/8/8c/T--TP-CC_San_Diego--e1g4.jpg" width="500">
 +
        <span class="caption"> E1G4</span>
 +
    </div>
 +
    <div class="item">
 +
    <img class = "pictures" src="https://static.igem.org/mediawiki/2017/2/2b/T--TP-CC_San_Diego--e8g2.jpg" width="500">
 +
        <span class="caption"> E8G2</span>
 +
    </div>
 +
    <div class="item">
 +
    <img class = "pictures" src="https://static.igem.org/mediawiki/2017/9/94/T--TP-CC_San_Diego--e8g4.jpg" width="500">
 +
        <span class="caption"> E8G3 </span>
 +
    </div>
 +
</div>
 +
</center>
  
 +
<h3 class = "text-title"> Gels </h3>
 +
<center>
 +
<div class="containertop3">
 +
    <div class="item">
 +
        <img src="https://static.igem.org/mediawiki/2017/f/f5/T--TP-CC_San_Diego--TLCV2.png" width="400">
 +
        <span class="caption"> Digested TLCV2 Vector </span>
 +
    </div>
 +
    <div class="item">
 +
        <img src="https://static.igem.org/mediawiki/2017/8/83/T--TP-CC_San_Diego--pcr.png" width="280">
 +
        <span class="caption"> PCR </span>
 +
    </div>
 +
    <div class="item">
 +
        <img src="https://static.igem.org/mediawiki/2017/0/0f/T--TP-CC_San_Diego--Gel%281%29.jpg" width="350">
 +
        <span class="caption"> GBM39 Genomic DNA </span>
 +
    </div>
 
</div>
 
</div>
 +
</center>
  
  
 +
<h3 class ="day">Summary</h3>
 +
<p style="padding: 0 11% 4% 11%;font-size: 16px;">
 +
We were able to confirm that the GBM39 cell line had a substantial copy number of the EGFR gene. From there, we designed 4 guide RNAs. Two from exon 1 and two from exon 8. We were unable to design any gRNA using exons 2-7 because in the GBM-39 cell line, that portion of the EGFR gene is mutated. Using the TLCV2 backbone, we removed the stuffer sequence and inserted the guideRNAs in its place.  We were successful with constructing 3 gRNAs but the 4th failed to clone twice. After Sequencing our plasmids, we transfected the guideRNAs into GBM39 cells. Currently, we are monitoring the growth of the cells, and confluency and growth of the cancerous cells has been, over the past 2 months, negatively affected in a statistically significant manner - with over a reduction in total confluency growth of over 50% when compared to the control, suggesting that our treatment has an inhibitory effect upon cancer cell growth.
 +
</p>
  
 +
</div>
 +
</body>
 
</html>
 
</html>

Latest revision as of 03:40, 2 November 2017

Results

Effects of ecDNA

There is a significantly depressed rate of cell growth due to the treatment. New cell growth, measured in the increased of density, was significantly retarded in the induced group. Based on the single factor analysis of variance test, our data after testing declares a p-value deemed low enough to reject the null hypothesis.

Parts

BBa_K2369000
BBa_K2369001
BBa_K2369002

Images

EGFR Testing

EGFR vs. Normalized Vector Expansion
E1G4

References

Guide RNA plasmid design
100 Basepair ladder

guide RNAs

E1G2
E1G4
E8G2
E8G3

Gels

Digested TLCV2 Vector
PCR
GBM39 Genomic DNA

Summary

We were able to confirm that the GBM39 cell line had a substantial copy number of the EGFR gene. From there, we designed 4 guide RNAs. Two from exon 1 and two from exon 8. We were unable to design any gRNA using exons 2-7 because in the GBM-39 cell line, that portion of the EGFR gene is mutated. Using the TLCV2 backbone, we removed the stuffer sequence and inserted the guideRNAs in its place. We were successful with constructing 3 gRNAs but the 4th failed to clone twice. After Sequencing our plasmids, we transfected the guideRNAs into GBM39 cells. Currently, we are monitoring the growth of the cells, and confluency and growth of the cancerous cells has been, over the past 2 months, negatively affected in a statistically significant manner - with over a reduction in total confluency growth of over 50% when compared to the control, suggesting that our treatment has an inhibitory effect upon cancer cell growth.