Difference between revisions of "Team:Newcastle/Parts"

 
(48 intermediate revisions by 9 users not shown)
Line 1: Line 1:
−
{{Newcastle/navbar}}
+
{{Newcastle/navbar2}}
 
<html>
 
<html>
  
 +
<head>
 +
  <title>Alternative Roots/Protocols</title>
 +
</head>
  
−
<div class="column full_size">
+
<body id="top">
−
<h1>Parts</h1>
+
−
<p>Each team will make new parts during iGEM and will submit them to the Registry of Standard Biological Parts. The iGEM software provides an easy way to present the parts your team has created. The <code>&lt;groupparts&gt;</code> tag (see below) will generate a table with all of the parts that your team adds to your team sandbox.</p>
+
−
<p>Remember that the goal of proper part documentation is to describe and define a part, so that it can be used without needing to refer to the primary literature. Registry users in future years should be able to read your documentation and be able to use the part successfully. Also, you should provide proper references to acknowledge previous authors and to provide for users who wish to know more.</p>
+
−
</div>
+
  
−
<div class="column full_size">
+
    <!-- home
−
<div class="highlight decoration_background">
+
    ================================================== -->
−
<h3>Note</h3>
+
    <section id="home" class="s-home target-section" data-parallax="scroll" data-image-src="https://static.igem.org/mediawiki/2018/f/f3/T--Newcastle--SmRBenchling.png">
−
<p>Note that parts must be documented on the <a href="http://parts.igem.org/Main_Page"> Registry</a>. This page serves to <i>showcase</i> the parts you have made. Future teams and other users and are much more likely to find parts by looking in the Registry than by looking at your team wiki.</p>
+
−
</div>
+
−
</div>
+
  
−
<div class="clear extra_space"></div>
+
        <div class="overlay"></div>
−
<div class="line_divider"></div>
+
        <div class="shadow-overlay"></div>
−
<div class="clear extra_space"></div>
+
  
 +
        <div class="home-content">
  
 +
            <div class="row home-content__main">
  
 +
                <h3>Alternative Roots</h3>
  
 +
                <h1>
 +
                    Parts Overview <br>
 +
                    <br>
 +
                 
 +
                </h1>
  
−
<div class="column two_thirds_size">
+
                <div class="home-content__buttons">
−
<div class="highlight decoration_B_full">
+
                    <a href="#protocol" class="smoothscroll btn btn--stroke">
 +
                        Overview
 +
                    </a>
 +
                </div>
  
−
<h3>Adding parts to the registry</h3>
+
            </div>
−
<p>You can add parts to the Registry at our <a href="http://parts.igem.org/Add_a_Part_to_the_Registry">Add a Part to the Registry</a> link.</p>
+
  
−
<p>We encourage teams to start completing documentation for their parts on the Registry as soon as you have it available. The sooner you put up your parts, the better you will remember all the details about your parts. Remember, you don't need to send us the DNA sample before you create an entry for a part on the Registry. (However, you <b>do</b> need to send us the DNA sample before the Jamboree. If you don't send us a DNA sample of a part, that part will not be eligible for awards and medal criteria.)</p>
 
−
<div class="button_link">
 
−
<a href="http://parts.igem.org/Add_a_Part_to_the_Registry">
 
−
ADD PARTS
 
−
</a>
 
−
</div>
 
  
−
</div>
+
        </div> <!-- end home-content -->
−
</div>
+
  
 +
    </section> <!-- end s-home -->
  
  
−
<div class="column third_size">
+
    <!-- services
−
<div class="highlight decoration_A_full">
+
    ================================================== -->
−
<h3>Inspiration</h3>
+
    <section id='protocol' class="s-services">
−
<p>We have a created  a <a href="http://parts.igem.org/Well_Documented_Parts">collection of well documented parts</a> that can help you get started.</p>
+
  
−
<p> You can also take a look at how other teams have documented their parts in their wiki:</p>
+
        <div class="row section-header has-bottom-sep" data-aos="fade-up">
−
<ul>
+
                <div class="col-full">
−
<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
+
                   
−
<li><a href="https://2014.igem.org/Team:Heidelberg/Parts"> 2014 Heidelberg</a></li>
+
                <h1 class="display-2">Parts Used</h1>
−
<li><a href="https://2014.igem.org/Team:Tokyo_Tech/Parts">2014 Tokyo Tech</a></li>
+
            </div>
−
</ul>
+
<p><font class="3"><center>Here we list the parts used in our study.</center></font></p>
−
</div>
+
<br><br>
 +
<h2>New Parts</h2>
 +
        </div> <!-- end section-header -->
 +
<table style=''width:0%>
 +
<tr>
 +
      <th>Name</th>
 +
      <th>Type</th>
 +
      <th>Description</th>
 +
      <th>Designer</th>
 +
      <th>Length(bp)</th>
 +
  </tr>
 +
<tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797002" class='black'>BBa_K2797002</a></td>
 +
      <td>Composite</td>
 +
      <td>Composite part for streptomycin resistance</td>
 +
      <td>Frank Eardley</td>
 +
      <td>908</td>
 +
  </tr>
 +
<tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797014" class='black'>BBa_K2797014</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>Catalyses the formation of p-coumaric acid from tyrosine</td>
 +
      <td>Heather Bottomley</td>
 +
      <td>1596</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797003" class='black'>BBa_K2797003</a></td>
 +
      <td>Basic</td>
 +
      <td>mNeonGreen fluorescent protein gene codon optimised for expression in <i>E. coli</i></td>
 +
      <td>Kyle Stanforth</td>
 +
      <td>711</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797004" class='black'>BBa_K2797004</a></td>
 +
      <td>Composite</td>
 +
      <td>  Test device 1 (originally BBa_J364000) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter </td>
 +
      <td>Kyle Stanforth</td>
 +
      <td>909</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797005"class='black' >BBa_K2797005</a></td>
 +
      <td>Composite</td>
 +
      <td>  Test device 2 (originally BBa_J364001) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter </td>
 +
      <td>Kyle Stanforth</td>
 +
      <td>909</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797006" class='black'>BBa_K2797006</a></td>
 +
      <td>Composite</td>
 +
      <td>  Test device 3 (originally BBa_J364002) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter </td>
 +
      <td>Kyle Stanforth</td>
 +
      <td>909</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797007" class='black'>BBa_K2797007</a></td>
 +
      <td>Composite</td>
 +
      <td>  Test device 4 (originally BBa_J364007) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter </td>
 +
      <td>Kyle Stanforth</td>
 +
      <td>909</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797008" class='black'>BBa_K2797008</a></td>
 +
      <td>Composite</td>
 +
      <td>  Positive control (originally BBa_I20270) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter </td>
 +
      <td>Kyle Stanforth</td>
 +
      <td>910</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K2797013" class='black'>BBa_K2797013</a></td>
 +
      <td>Plasmid vector</td>
 +
      <td> High copy BioBrick assembly plasmid pSB1C3 with RFP internal standard</td>
 +
      <td>Kyle Stanforth</td>
 +
      <td>3073</td>
 +
  </tr>
 +
</table>
 +
 
 +
        <div class="row section-header has-bottom-sep" data-aos="fade-up">
 +
                <div class="col-full">
 +
<h2>Existing Parts</h2></div></div>
 +
<table style=''width:0%>
 +
  <tr>
 +
      <th>Name</th>
 +
      <th>Type</th>
 +
      <th>Description</th>
 +
      <th>Designer</th>
 +
      <th>Length(bp)</th>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_I20270" class='black'>BBa_I20270</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>Positive control for the interLab study</td>
 +
      <td>Jason Kelly</td>
 +
      <td>919</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_J364000" class='black'>BBa_J364000</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>GFP gene for the interlab study</td>
 +
      <td>Traci Haddock-Angelli</td>
 +
      <td>918</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_J364001" class='black'>BBa_J364001</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>GFP gene for the interlab study</td>
 +
      <td>Traci Haddock-Angelli</td>
 +
      <td>918</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_J364002" class='black'>BBa_J364002</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>GFP gene for the interlab study</td>
 +
      <td>Traci Haddock-Angelli</td>
 +
      <td>918</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_J364007" class='black'>BBa_J364007</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>GFP gene for the interlab study</td>
 +
      <td>Traci Haddock-Angelli</td>
 +
      <td>918</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_J364008" class='black'>BBa_J364008</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>GFP gene for the interlab study</td>
 +
      <td>Traci Haddock-Angelli</td>
 +
      <td>918</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_J364009" class='black'>BBa_J364009</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>GFP gene for the interlab study</td>
 +
      <td>Traci Haddock-Angelli</td>
 +
      <td>918</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_R0040" class='black'>BBa_R0040</a></td>
 +
      <td>Regulatory sequence</td>
 +
      <td>TetR repressible promoter for the interlab study</td>
 +
      <td>June Rhee, Connie Tao, Ty Thomson, Louis Waldman</td>
 +
      <td>54</td>
 +
  </tr>
 +
  <tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_J04450" class='black'>BBa_J04450</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>RFP gene for the interlab study</td>
 +
      <td>Tamar Odle</td>
 +
      <td>1069</td>
 +
  </tr>
 +
<tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K1033001" class='black'>BBa_K1033001</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>Catalyses the reaction from p-coumaric acid to 4-coumaroyl-coenzyme A</td>
 +
      <td>Karl Holdar</td>
 +
      <td>1708</td>
 +
  </tr>
 +
 
 +
<tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K1497000" class='black'>BBa_K1497000</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>Catalyses the reaction from naringenin chalcone to naringenin.</td>
 +
      <td>Sascha Hein, Niklas Hummel, Sebastian Barthel, Thomas Dohmen</td>
 +
      <td>726</td>
 +
  </tr>
 +
<tr>
 +
      <td><a href="http://parts.igem.org/Part:BBa_K1497001" class='black'>BBa_K1497001</a></td>
 +
      <td>Coding sequence</td>
 +
      <td>Catalyses the reaction from 4-Coumaroyl-CoA to naringenin chalcone.</td>
 +
      <td>Sascha Hein, Niklas Hummel, Sebastian Barthel, Thomas Dohmen</td>
 +
      <td>1197</td>
 +
  </tr>
 +
</table>
 
</div>
 
</div>
  
 +
       
  
−
<div class="clear extra_space"></div>
 
  
 +
    </section> <!-- end s-services -->
  
  
  
−
<div class="column full_size">
+
    <!-- photoswipe background
 +
    ================================================== -->
 +
    <div aria-hidden="true" class="pswp" role="dialog" tabindex="-1">
  
−
<h3>What information do I need to start putting my parts on the Registry?</h3>
+
        <div class="pswp__bg"></div>
−
<p>The information needed to initially create a part on the Registry is:</p>
+
        <div class="pswp__scroll-wrap">
−
<ul>
+
−
<li>Part Name</li>
+
−
<li>Part type</li>
+
−
<li>Creator</li>
+
−
<li>Sequence</li>
+
−
<li>Short Description (60 characters on what the DNA does)</li>
+
−
<li>Long Description (Longer description of what the DNA does)</li>
+
−
<li>Design considerations</li>
+
−
</ul>
+
  
−
<p>
+
            <div class="pswp__container">
−
We encourage you to put up <em>much more</em> information as you gather it over the summer. If you have images, plots, characterization data and other information, please also put it up on the part page. </p>
+
                <div class="pswp__item"></div>
 +
                <div class="pswp__item"></div>
 +
                <div class="pswp__item"></div>
 +
            </div>
  
−
</div>
+
            <div class="pswp__ui pswp__ui--hidden">
 +
                <div class="pswp__top-bar">
 +
                    <div class="pswp__counter"></div><button class="pswp__button pswp__button--close" title="Close (Esc)"></button> <button class="pswp__button pswp__button--share" title=
 +
                    "Share"></button> <button class="pswp__button pswp__button--fs" title="Toggle fullscreen"></button> <button class="pswp__button pswp__button--zoom" title=
 +
                    "Zoom in/out"></button>
 +
                    <div class="pswp__preloader">
 +
                        <div class="pswp__preloader__icn">
 +
                            <div class="pswp__preloader__cut">
 +
                                <div class="pswp__preloader__donut"></div>
 +
                            </div>
 +
                        </div>
 +
                    </div>
 +
                </div>
 +
                <div class="pswp__share-modal pswp__share-modal--hidden pswp__single-tap">
 +
                    <div class="pswp__share-tooltip"></div>
 +
                </div><button class="pswp__button pswp__button--arrow--left" title="Previous (arrow left)"></button> <button class="pswp__button pswp__button--arrow--right" title=
 +
                "Next (arrow right)"></button>
 +
                <div class="pswp__caption">
 +
                    <div class="pswp__caption__center"></div>
 +
                </div>
 +
            </div>
  
 +
        </div>
  
−
<div class="clear extra_space"></div>
+
    </div> <!-- end photoSwipe background -->
−
<div class="line_divider"></div>
+
<section id='team' class="s-services">
−
<div class="clear extra_space"></div>
+
  
−
<div class="column full_size">
 
−
<h3>Part Table </h3>
 
  
−
<p>Please include a table of all the parts your team has made during your project on this page. Remember part characterization and measurement data must go on your team part pages on the Registry. </p>
+
        <div class="row section-header has-bottom-sep" data-aos="fade-up">
 +
                <div class="col-full">
 +
                            <br>
 +
<br>
 +
<br>
 +
<br>
 +
<h3 class="subhead"></h3>
 +
                <h1 class="display-2">References & Attributions</h1>
 +
            </div>
  
−
</html>
+
        </div>
−
<groupparts>iGEM18 Newcastle</groupparts>
+
−
<html>
+
−
</div>
+
  
  
  
 +
 +
 +
 +
 +
 +
 +
<button class="collapsible">Click for References and Attributions</button>
 +
<div class="content">
 +
              <div class="row about-desc" data-aos="fade-up">
 +
                <div class="col-full">
 +
 +
<p class="about-para"><font size="2"><strong>Attributions: Frank Eardley, Heather Bottomley and Kyle Stanforth
 +
</strong><font></p>
 +
 +
 +
 +
 +
 +
 +
</div>
 +
</section>
 +
 
 +
    <!-- Java Script
 +
    ================================================== -->
 +
    <script type="text/javascript" src="https://2018.igem.org/Template:Newcastle/JSjquery?
 +
    action=raw&ctype=text/javascript"></script>
 +
    <script type="text/javascript" src="https://2018.igem.org/Template:Newcastle/JSplugins?
 +
    action=raw&ctype=text/javascript"></script>   
 +
    <script type="text/javascript" src="https://2018.igem.org/Template:Newcastle/JSmain?
 +
    action=raw&ctype=text/javascript"></script> 
 +
    <script>
 +
var coll = document.getElementsByClassName("collapsible");
 +
var i;
 +
 +
for (i = 0; i < coll.length; i++) {
 +
  coll[i].addEventListener("click", function() {
 +
    this.classList.toggle("active");
 +
    var content = this.nextElementSibling;
 +
    if (content.style.maxHeight){
 +
      content.style.maxHeight = null;
 +
    } else {
 +
      content.style.maxHeight = content.scrollHeight + "px";
 +
    }
 +
  });
 +
}
 +
</script>
 +
</body>
  
 
</html>
 
</html>
 
{{Newcastle/footer}}
 
{{Newcastle/footer}}

Latest revision as of 00:33, 18 October 2018

Alternative Roots/Protocols

Alternative Roots

Parts Overview

Overview

Parts Used

Here we list the parts used in our study.



New Parts

Name Type Description Designer Length(bp)
BBa_K2797002 Composite Composite part for streptomycin resistance Frank Eardley 908
BBa_K2797014 Coding sequence Catalyses the formation of p-coumaric acid from tyrosine Heather Bottomley 1596
BBa_K2797003 Basic mNeonGreen fluorescent protein gene codon optimised for expression in E. coli Kyle Stanforth 711
BBa_K2797004 Composite Test device 1 (originally BBa_J364000) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter Kyle Stanforth 909
BBa_K2797005 Composite Test device 2 (originally BBa_J364001) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter Kyle Stanforth 909
BBa_K2797006 Composite Test device 3 (originally BBa_J364002) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter Kyle Stanforth 909
BBa_K2797007 Composite Test device 4 (originally BBa_J364007) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter Kyle Stanforth 909
BBa_K2797008 Composite Positive control (originally BBa_I20270) of the iGEM 2018 InterLab study with mNeonGreen replacing the GFPmut3b fluorescent reporter Kyle Stanforth 910
BBa_K2797013 Plasmid vector High copy BioBrick assembly plasmid pSB1C3 with RFP internal standard Kyle Stanforth 3073

Existing Parts

Name Type Description Designer Length(bp)
BBa_I20270 Coding sequence Positive control for the interLab study Jason Kelly 919
BBa_J364000 Coding sequence GFP gene for the interlab study Traci Haddock-Angelli 918
BBa_J364001 Coding sequence GFP gene for the interlab study Traci Haddock-Angelli 918
BBa_J364002 Coding sequence GFP gene for the interlab study Traci Haddock-Angelli 918
BBa_J364007 Coding sequence GFP gene for the interlab study Traci Haddock-Angelli 918
BBa_J364008 Coding sequence GFP gene for the interlab study Traci Haddock-Angelli 918
BBa_J364009 Coding sequence GFP gene for the interlab study Traci Haddock-Angelli 918
BBa_R0040 Regulatory sequence TetR repressible promoter for the interlab study June Rhee, Connie Tao, Ty Thomson, Louis Waldman 54
BBa_J04450 Coding sequence RFP gene for the interlab study Tamar Odle 1069
BBa_K1033001 Coding sequence Catalyses the reaction from p-coumaric acid to 4-coumaroyl-coenzyme A Karl Holdar 1708
BBa_K1497000 Coding sequence Catalyses the reaction from naringenin chalcone to naringenin. Sascha Hein, Niklas Hummel, Sebastian Barthel, Thomas Dohmen 726
BBa_K1497001 Coding sequence Catalyses the reaction from 4-Coumaroyl-CoA to naringenin chalcone. Sascha Hein, Niklas Hummel, Sebastian Barthel, Thomas Dohmen 1197




References & Attributions

Attributions: Frank Eardley, Heather Bottomley and Kyle Stanforth