Difference between revisions of "Team:TEC-Costa Rica/Project/Safety"

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<img id="prostal-logo" alt="Prostal Brand" class="featurette-image img-responsive center-block" src="https://static.igem.org/mediawiki/2016/0/0e/T--TEC-Costa_Rica--prostal_logo.png"></a>
 
<img id="prostal-logo" alt="Prostal Brand" class="featurette-image img-responsive center-block" src="https://static.igem.org/mediawiki/2016/0/0e/T--TEC-Costa_Rica--prostal_logo.png"></a>
 
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<body>
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<div class="jumbotron text-center parallax">    
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<h1 style="font-size: 50px;">Safety</h1>
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<h1 style="font-size: 50px;">Project</h1>
 
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<div class="concept">
 
<div class="concept">
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<p style="text-align: center;">Our project is related to the detection of a human disease via a biomarker molecule found in the urine of patients with prostate cancer. Since local regulation does not allow us to work with human samples, we designed our project in a way that it can work as a proof-of-concept of a detection system and pose no risk to human health.</p>
+
<p style="text-align: center;">Prostal is a non-invasive, innovative system which aims to detect RNA and to produce a signal which is easy to read. To achieve this, we have separated our project in two main modules: I) detection of RNA and II) Signal. For the RNA detection, we chose the dCas9 (D10A, H840A) protein of <em>Streptococcus pyogenes</em>. This protein binds to the RNA and is engineered to produce a measurable signal.</p>
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</div>
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</div>
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<h2>Lab work</h2>
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<h2>Background</h2>
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<p>During our work in the lab, we followed a series of rules to ascertain that no risks were undertaken.</p>
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<p>Prostate cancer (pCa) is the second most common type of cancer among men in Costa Rica, with a man dying every 27 hours in average. Yearly data since 2012 shows that an average of 373 men die every year of this disease, and 44 of every 100 000 men suffer from this illness. Globally, an estimated 300 000 men die every year of pCa, and more than a million men are diagnosed, so this is a global concern. This data is aggravated by the fact that most of deaths occur because men refuse to undergo clinical examination, which consists mainly in Digital Rectal Examination (DRE). Therefore, if a method which can detect pCa is developed in which DRE or a biopsy are not needed, the rate of deaths could be dramatically reduced, since pCa is not aggressive if properly treated. There are alternative tests, such as Prostate Specific Antigen (PSA) or RNA-PCR amplification, but the first is not really specific for cancer, and the second one is expensive and requires costly equipment. Therefore, we propose a bacterial-based system which can detect RNA and produce an easy-to-read signal.</p>
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<div id="safety-elements" class="container-fluid text-center">
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<h2>Overview</h2>
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  <div class="row">
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    <img src="https://static.igem.org/mediawiki/2016/1/19/T--TEC-Costa_Rica--prostal_project_safety_gloves.png">
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      <p>Use of nitrile gloves</p>
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<!-- Container (About Section) -->
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  <div class="row">
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    <img src="https://static.igem.org/mediawiki/2016/4/47/T--TEC-Costa_Rica--prostal_project_safety_goggles.png">
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    <div class="col-sm-4">
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      <p>Use of safety goggles</p>
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    <div class="section-image">
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    </div>
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    <div class="image-align">
−
    <div class="col-sm-3">
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    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/System"><img id="system" src="https://static.igem.org/mediawiki/2016/6/6b/T--TEC-Costa_Rica--prostal_project_system.png" class="img-responsive" alt="Project System"></a>
−
    <img src="https://static.igem.org/mediawiki/2016/6/66/T--TEC-Costa_Rica--prostal_project_safety_bacteria.png">
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    </div>
−
      <p>Management of bacteria in biosafety cabinet</p>
+
    </div>
−
    </div>
+
 
    </div>
 
    </div>
−
    <div class="row slideanim" style="border-bottom: 1px solid #d3d3d3;">
+
    <div class="col-sm-8">
−
        <div class="col-sm-3">
+
  <h2>System</h2>
−
          <img src="https://static.igem.org/mediawiki/2016/1/18/T--TEC-Costa_Rica--prostal_project_safety_volatil.png">
+
      <p>Our system was designed aiming to detect PCA3, a long non-coding RNA that works as a biomarker for prostate cancer detection, but it can be used to detect any DNA or RNA molecule. This system uses a modified dCas9 to detect an specific nucleic acid molecule and the conformational change this protein suffers when it binds to the target molecule is used to trigger the signaling mechanism.</p>
−
          <p>Usage of volatile chemicals in fume hood</p>
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      <br><a class="btn btn-default btn-lg" href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/System">Get in Touch</a>
−
        </div>
+
    </div>
−
        <div class="col-sm-3">
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  </div>
−
        <img src="https://static.igem.org/mediawiki/2016/f/fe/T--TEC-Costa_Rica--prostal_project_safety_cleaning.png">
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          <p>Cleaning and Sterilization of the Lab</p>
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        </div>
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        <div class="col-sm-3">
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        <img src="https://static.igem.org/mediawiki/2016/f/f6/T--TEC-Costa_Rica--prostal_project_safety_biohazard.png">
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          <p>Correct disposal of bio-hazardous residues</p>
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        </div>
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        <div class="col-sm-3">
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          <img src="https://static.igem.org/mediawiki/2016/8/8e/T--TEC-Costa_Rica--prostal_project_safety_areas.png">
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          <p>Separate areas for work with bacteria, DNA and electrophoresis</p>
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        </div>
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    </div>
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</div>
 
</div>
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<div id="project-safety" class="container-fluid slideanim">
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<div class="container-fluid slideanim">
 +
  <div class="row">
 +
    <div class="col-sm-4 col-sm-push-8">
 +
    <div class="section-image">
 +
    <div class="image-align">
 +
    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Modelling_Simulations"><img id="modelling_simulations" src="https://static.igem.org/mediawiki/2016/1/1c/T--TEC-Costa_Rica--prostal_project_simulations.png" class="img-responsive" alt="Project Modelling & Simulations"></a> 
 +
    </div>
 +
    </div>
 +
    </div>
 +
    <div class="col-sm-8 col-sm-pull-4">
 +
  <h2>Modelling & Simulations</h2>
 +
<p>The modelling for the Project can be classified into two categories:</p>
 +
<ul>
 +
<li><p>Mathematical modelling</p></li>
 +
<li><p>Structural modelling</p></li>
 +
</ul>
 +
      <br><a class="btn btn-default btn-lg" href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Modelling_Simulations">Get in Touch</a>
 +
    </div>
 +
  </div>
 +
</div>
 +
 
 +
<div class="container-fluid slideanim">
 
  <div class="row">
 
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    <div class="col-sm-4">
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      <img class="img-responsive" src="https://static.igem.org/mediawiki/2016/7/78/T--TEC-Costa_Rica--prostal_project_project-safety.png" alt="Project Safety">
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    <div class="section-image">
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    <div class="image-align">
 +
    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Parts"><img id="parts" src="https://static.igem.org/mediawiki/2016/1/1c/T--TEC-Costa_Rica--prostal_project_simulations.png" class="img-responsive" alt="Project Parts"></a> 
 +
    </div>
 +
    </div>    
 
    </div>
 
    </div>
 
    <div class="col-sm-8">
 
    <div class="col-sm-8">
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        <h2>Project safety</h2>
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  <h2>Parts</h2>
−
    <p>In order to have a functional system without having to use human samples, we decided to synthesize a DNA fragment of the gene we are going to detect, so we can express it in the bacteria. Then, we are working with dCas9, inteins, TEV protease, and GFP proteins, which are not from pathogenic organisms and were obtained from the Distribution or as gBlocks. All the experiments and cloning is made in Escherichia coli strains DH5alpha, TOP10 and BL21. No pathogenic organisms are used in the lab.</p>
+
  <p>Lorem ipsum dolor sit amet, consectetur adipisicing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat.</p>
 +
      <br><a class="btn btn-default btn-lg" href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Modelling_Simulations">Get in Touch</a>
 
    </div>
 
    </div>
 
  </div>
 
  </div>
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    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/System"><img id="system" src="https://static.igem.org/mediawiki/2016/6/6b/T--TEC-Costa_Rica--prostal_project_system.png" class="img-responsive" alt="Project System"></a>
 
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    </div>
 
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    </div>
 
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      <h2>System</h2>
 
−
      <p style="text-align: center;">Take a look to our system!</p>
 
−
    </div>
 
−
    <div class="col-lg-4">
 
−
    <div class="section-image">
 
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    <div class="image-align">
 
−
    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Modelling_Simulations"><img id="modelling_simulations" src="https://static.igem.org/mediawiki/2016/1/1c/T--TEC-Costa_Rica--prostal_project_simulations.png" class="img-responsive" alt="Project Modelling & Simulations"></a> 
 
−
    </div>
 
−
    </div>
 
−
      <h2>Modelling & Simulations</h2>
 
−
      <p style="text-align: center;">Take a look to our Modellations & Simulation!</p>
 
−
    </div>
 
−
    <div class="col-lg-4">
 
−
    <div class="section-image">
 
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    <div class="image-align">
 
−
    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Collaborations"><img id="collaborations" src="https://static.igem.org/mediawiki/2016/7/76/T--TEC-Costa_Rica--prostal_project_collaborations.png" alt="Project Collaborations"></a>
 
−
    </div>
 
−
    </div>      
 
−
    <h2>Collaborations</h2>
 
−
      <p style="text-align: center;">Check out our collaborations!</p>
 
−
    </div>    
 
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  </div>
 
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</div>
 
 
</div>
 
</div>
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</main>
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<div class="container-fluid slideanim">
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  <div class="row" style="border: none;">
 +
    <div class="col-sm-4 col-sm-push-8">
 +
    <div class="section-image">
 +
    <div class="image-align">
 +
    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Safety"><img id="safety" src="https://static.igem.org/mediawiki/2016/5/5e/T--TEC-Costa_Rica--prostal_project_safety.png" class="img-responsive" alt="Project Safety"></a>
 +
    </div>
 +
    </div>
 +
    </div>
 +
    <div class="col-sm-8 col-sm-pull-4">
 +
  <h2>Safety</h2>
 +
      <p>Our project is related to the detection of a human disease via a biomarker molecule found in the urine of patients with prostate cancer. Since local regulation does not allow us to work with human samples, we designed our project in a way that it can work as a proof-of-concept of a detection system and pose no risk to human health.</p>
 +
      <br><a class="btn btn-default btn-lg" href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Safety">Get in Touch</a>
 +
    </div>
 +
  </div>
 +
</div>
 +
 
 +
<div class="container-fluid slideanim">
 +
  <div class="row">
 +
    <div class="col-sm-4">
 +
    <div class="section-image">
 +
    <div class="image-align">
 +
    <a href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Collaborations"><img id="collaborations" src="https://static.igem.org/mediawiki/2016/7/76/T--TEC-Costa_Rica--prostal_project_collaborations.png" alt="Project Collaborations"></a>
 +
    </div>
 +
    </div>    
 +
    </div>
 +
    <div class="col-sm-8">
 +
  <h2>Collaborations</h2>
 +
      <p>Lorem ipsum dolor sit amet, consectetur adipiscing elit, sed do eiusmod tempor incididunt ut labore et dolore magna aliqua. Ut enim ad minim veniam, quis nostrud exercitation ullamco laboris nisi ut aliquip ex ea commodo consequat.
 +
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 +
      <br><a class="btn btn-default btn-lg" href="https://2016.igem.org/Team:TEC-Costa_Rica/Project/Collaborations">Get in Touch</a>
 +
    </div>
 +
  </div>
 +
</div>
 +
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Revision as of 20:37, 10 October 2016

Project

Prostal is a non-invasive, innovative system which aims to detect RNA and to produce a signal which is easy to read. To achieve this, we have separated our project in two main modules: I) detection of RNA and II) Signal. For the RNA detection, we chose the dCas9 (D10A, H840A) protein of Streptococcus pyogenes. This protein binds to the RNA and is engineered to produce a measurable signal.

Background

Prostate cancer (pCa) is the second most common type of cancer among men in Costa Rica, with a man dying every 27 hours in average. Yearly data since 2012 shows that an average of 373 men die every year of this disease, and 44 of every 100 000 men suffer from this illness. Globally, an estimated 300 000 men die every year of pCa, and more than a million men are diagnosed, so this is a global concern. This data is aggravated by the fact that most of deaths occur because men refuse to undergo clinical examination, which consists mainly in Digital Rectal Examination (DRE). Therefore, if a method which can detect pCa is developed in which DRE or a biopsy are not needed, the rate of deaths could be dramatically reduced, since pCa is not aggressive if properly treated. There are alternative tests, such as Prostate Specific Antigen (PSA) or RNA-PCR amplification, but the first is not really specific for cancer, and the second one is expensive and requires costly equipment. Therefore, we propose a bacterial-based system which can detect RNA and produce an easy-to-read signal.

Overview

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Project System

System

Our system was designed aiming to detect PCA3, a long non-coding RNA that works as a biomarker for prostate cancer detection, but it can be used to detect any DNA or RNA molecule. This system uses a modified dCas9 to detect an specific nucleic acid molecule and the conformational change this protein suffers when it binds to the target molecule is used to trigger the signaling mechanism.


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Project Modelling & Simulations

Modelling & Simulations

The modelling for the Project can be classified into two categories:

  • Mathematical modelling

  • Structural modelling


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Project Parts

Parts

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Project Safety

Safety

Our project is related to the detection of a human disease via a biomarker molecule found in the urine of patients with prostate cancer. Since local regulation does not allow us to work with human samples, we designed our project in a way that it can work as a proof-of-concept of a detection system and pose no risk to human health.


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Project Collaborations

Collaborations

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iGEM TEC Costa Rica

Tecnológico de Costa Rica
Biotechnology Investigation Center
Cartago, Costa Rica
prostaltec@gmail.com

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