Difference between revisions of "Team:NUS Singapore-A/shadow/Hardware"

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<h1>Ontroduction</h1>
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<h1>Introduction</h1>
 
<p>Our team developed two sets of hardware to address problems in synthetic biology.</p>
 
<p>Our team developed two sets of hardware to address problems in synthetic biology.</p>
 
<br>
 
<br>
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<h1>Methodology</h1>
 
<h1>Methodology</h1>
−
<p>IN progress.</p><br>
 
−
 
−
<h4>12 Well Plate LED System</h4>
 
 
<p>IN progress.</p>
 
<p>IN progress.</p>
  
−
<h4>Petri Dish/Flask LED System</h4>
+
<br>
−
<p>IN progress. </p>
+
<h2> 4 COLUMN THINGY </h2>
 +
<br>
 +
<p> KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.</p>
 +
<br>
  
−
<h4>Small Bioreactor LED System</h4>
+
<figure class="figures">
−
<p>IN progress. </p>
+
  <img src="#" alt="Video">
 +
  <figcaption><b>Video goes here</b> : blah blah 3</figcaption>
 +
</figure>
 +
<br>
  
−
<h4>Industrial Scale Bioreactor</h4>
+
  <button class="accordion"> TEST </button>
−
<p>IN progress.</p>
+
    <div class="panel" style="line-height: 17em;">
 +
 
 +
      <div class="row">
 +
        <div class="column left">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Abs<sub>600</sub></i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Wavelength: 600nm </li>
 +
                  <li> Read Speed: Normal </li>
 +
                  <li> Delay: 100 msec </li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
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        </div>
 +
        <div class="column right">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Fluorescence</i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Excitation: 485 </li>
 +
                  <li>Emission: 525</li>
 +
                  <li>Optics: Top</li>
 +
                  <li>Gain: 50</li>
 +
                  <li>Light Source: Xenon Flash</li>
 +
                  <li>Lamp Energy: High</li>
 +
                  <li>Read Speed: Normal</li>
 +
                  <li>Delay: 100 msec</li>
 +
                  <li>Read Height: 7 mm</li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
 +
        </div>
 +
      </div>
 +
    </div>
 +
  <button class="accordion"> COMPONENTS </button>
 +
    <div class="panel" style="line-height: 17em;">
 +
 
 +
      <div class="row">
 +
        <div class="column left">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Abs<sub>600</sub></i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Wavelength: 600nm </li>
 +
                  <li> Read Speed: Normal </li>
 +
                  <li> Delay: 100 msec </li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
 +
        </div>
 +
        <div class="column right">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Fluorescence</i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Excitation: 485 </li>
 +
                  <li>Emission: 525</li>
 +
                  <li>Optics: Top</li>
 +
                  <li>Gain: 50</li>
 +
                  <li>Light Source: Xenon Flash</li>
 +
                  <li>Lamp Energy: High</li>
 +
                  <li>Read Speed: Normal</li>
 +
                  <li>Delay: 100 msec</li>
 +
                  <li>Read Height: 7 mm</li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
 +
        </div>
 +
      </div>
 +
    </div>
 +
<br>
 +
<h2> BIOREACTOR </h2>
 +
<br>
 +
<p> KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.</p>
 +
<br>
 +
 
 +
<figure class="figures">
 +
  <img src="#" alt="Video">
 +
  <figcaption><b>Video goes here</b> : blah blah 3</figcaption>
 +
</figure>
 +
<br>
 +
 
 +
  <button class="accordion"> TEST </button>
 +
    <div class="panel" style="line-height: 17em;">
 +
 
 +
      <div class="row">
 +
        <div class="column left">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Abs<sub>600</sub></i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Wavelength: 600nm </li>
 +
                  <li> Read Speed: Normal </li>
 +
                  <li> Delay: 100 msec </li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
 +
        </div>
 +
        <div class="column right">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Fluorescence</i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Excitation: 485 </li>
 +
                  <li>Emission: 525</li>
 +
                  <li>Optics: Top</li>
 +
                  <li>Gain: 50</li>
 +
                  <li>Light Source: Xenon Flash</li>
 +
                  <li>Lamp Energy: High</li>
 +
                  <li>Read Speed: Normal</li>
 +
                  <li>Delay: 100 msec</li>
 +
                  <li>Read Height: 7 mm</li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
 +
        </div>
 +
      </div>
 +
    </div>
 +
  <button class="accordion"> COMPONENTS </button>
 +
    <div class="panel" style="line-height: 17em;">
 +
 
 +
      <div class="row">
 +
        <div class="column left">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Abs<sub>600</sub></i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Wavelength: 600nm </li>
 +
                  <li> Read Speed: Normal </li>
 +
                  <li> Delay: 100 msec </li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
 +
        </div>
 +
        <div class="column right">
 +
          <table>
 +
            <tr>
 +
              <td style="padding:0;">
 +
                <h3><i>Fluorescence</i></h3>
 +
              </td>
 +
              <td>
 +
                <ul style="list-style: none; margin: 0; padding: 1em; text-align:left; border-left: .5px solid black">
 +
                  <li> Excitation: 485 </li>
 +
                  <li>Emission: 525</li>
 +
                  <li>Optics: Top</li>
 +
                  <li>Gain: 50</li>
 +
                  <li>Light Source: Xenon Flash</li>
 +
                  <li>Lamp Energy: High</li>
 +
                  <li>Read Speed: Normal</li>
 +
                  <li>Delay: 100 msec</li>
 +
                  <li>Read Height: 7 mm</li>
 +
                </ul>
 +
              </td>
 +
            </tr>
 +
          </table>
 +
        </div>
 +
      </div>
 +
    </div>
 +
<br>
 +
<hr>
 +
<br>
 +
<h2> CONFIGURATIONS </h2>
 +
<br>
 +
 
 +
<p> KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.</p>
 +
<br>
 +
<figure class="figures">
 +
  <img src="#" alt="Video">
 +
  <figcaption><b>Video goes here</b> : blah blah 3</figcaption>
 +
</figure>
 +
<br>
 +
<br>
 +
<figure class="figures">
 +
  <img src="#" alt="Video">
 +
  <figcaption><b>Video goes here</b> : blah blah 3</figcaption>
 +
</figure>
 +
<br>
 +
<br>
 +
<figure class="figures">
 +
  <img src="#" alt="Video">
 +
  <figcaption><b>Video goes here</b> : blah blah 3</figcaption>
 +
</figure>
 +
<br>
 +
<p> KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.</p>
 +
<br>
  
 
<h2>Bio-production</h2>
 
<h2>Bio-production</h2>
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Revision as of 07:39, 14 October 2018

CONNECT WITH US

Introduction

Our team developed two sets of hardware to address problems in synthetic biology.


The first problem is that while there is a rapidly-growing interest in using optogenetics for biomanufacturing, development of custom tools to support the research of optogenetic circuits is insufficient to meet user needs[2].


An example of the most current hardware tools available is a modified Tecan microplate reader, which provides controlled illumination on top of its usual measurement capabilities[3]. Such an approach is costly and requires specialized knowledge of the microplate reader model. Tabor et al. constructed an open-source light exposure tool for a 24-well plate[4]. Based on literature review it seems that tools have been developed only for well plates. However there are certain reasons why researchers would like to choose petri dishes and erlenmeyer flasks over well plates when studying optogenetic circuits.


Graphic of scaling-up process
Figure 1 : blah blah

We needed to use these when developing our biomanufacturing process. We thus created PDF-LA! to empower optogenetic researchers.


picture
Figure 2 : blah blah 2

We validated this using modelling and characterization of our own blue-light repressible circuits. See our Modelling page here.


The second problem is that so far, while Zhao et al. have increased yield of isobutanol from yeast by using a blue light repressible system in a simple bioreactor as compared to traditional methods, showing the potential of optogenetics in biomanufacturing[5], they did not optimize the duration or intensity of blue light, and shone blue light periodically. Dynamic regulation is a good method for optimization, because prioritization of growth and production can be achieved simultaneously. Argeitis et. al developed automated optogenetic feedback control for precise and robust regulation of gene expression and cell growth[6]. So far this is the most recent and sophisticated feedback system for optogenetics. However after examining his method, we found that while his feedback control system was closed-loop, his physical system was not. Measurement samples were discarded as waste. This is not advantageous to biomanufacturing, as this will lead to much product being wasted, lowering effective yield. We should not take this approach, especially when there is no issue with introducing the samples back into the bioreactor. To solve this, we combined the insights and design features from these two systems to create Light Wait, a closed-system, closed-loop photobioreactor.

Optogenetics

The use of optogenetics in synthetic biology requires hardwares to control on and off, intensity of light. We designed and built light inducible or repressible hardware for the use in laboratory. Devices used to induce gene expression through light is developed. Devices range from small volume of 12 well plate to larger volume of bioreactor.


picture
Figure 3 : blah blah 3

We validated this through hardware testing. Read more here.



Methodology

IN progress.


4 COLUMN THINGY


KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.


Video
Video goes here : blah blah 3

Abs600
  • Wavelength: 600nm
  • Read Speed: Normal
  • Delay: 100 msec

Fluorescence
  • Excitation: 485
  • Emission: 525
  • Optics: Top
  • Gain: 50
  • Light Source: Xenon Flash
  • Lamp Energy: High
  • Read Speed: Normal
  • Delay: 100 msec
  • Read Height: 7 mm

Abs600
  • Wavelength: 600nm
  • Read Speed: Normal
  • Delay: 100 msec

Fluorescence
  • Excitation: 485
  • Emission: 525
  • Optics: Top
  • Gain: 50
  • Light Source: Xenon Flash
  • Lamp Energy: High
  • Read Speed: Normal
  • Delay: 100 msec
  • Read Height: 7 mm

BIOREACTOR


KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.


Video
Video goes here : blah blah 3

Abs600
  • Wavelength: 600nm
  • Read Speed: Normal
  • Delay: 100 msec

Fluorescence
  • Excitation: 485
  • Emission: 525
  • Optics: Top
  • Gain: 50
  • Light Source: Xenon Flash
  • Lamp Energy: High
  • Read Speed: Normal
  • Delay: 100 msec
  • Read Height: 7 mm

Abs600
  • Wavelength: 600nm
  • Read Speed: Normal
  • Delay: 100 msec

Fluorescence
  • Excitation: 485
  • Emission: 525
  • Optics: Top
  • Gain: 50
  • Light Source: Xenon Flash
  • Lamp Energy: High
  • Read Speed: Normal
  • Delay: 100 msec
  • Read Height: 7 mm


CONFIGURATIONS


KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.


Video
Video goes here : blah blah 3


Video
Video goes here : blah blah 3


Video
Video goes here : blah blah 3

KITTY IPSUM dolor sit amet discovered siamesecalico peaceful her Gizmo peaceful boy rutrum caturday enim lived quis Mauris sit malesuada gf's saved fringilla enim turpis, at mi kitties ham. Venenatis belly cat et boy bat dang saved nulla other porta ipsum mi chilling cat spoon tellus.


Bio-production

It’s important to have automation in bioproduction especially in industrial level. We designed a small bioreactor system which incorporated optical density (OD) and fluorescence sensors to control the metabolic behaviours in E. coli.


Automated Control through feedbacks

IN progress.

OD/F sensor

IN progress.

Pump

IN progress.



HEAR OUR STORY

We’re using synthetic biology to change the way the world thinks and functions.

We’re a little disruptive, dangerous and maybe a tad too bold. But the world needs some shaking up every now and then, and we think we’re just the right people for that.

Together we’re going to engineer biology and create something awesome.

CONTACT US

nusigem@gmail.com

21 Lower Kent Ridge Rd, Singapore 119077