Difference between revisions of "Team:Cambridge-JIC/Description"

 
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            <center><p><span class="dark" style="font-size:340%">Microscopy awaits you...</span></p></center>
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        <center><p><span class="dark" style="font-size:170%">Cambridge-JIC brings you OpenScope: the foundation to a new era of accessible microscopy.</span></p></center>
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            <h1>Overview</h1>
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<p><span class="dark" style="font-size:170%">The chassis</span> is 3D printed, allowing simple modification. The plastic is cheap, biodegradable and flexible. Stage translation, based on work by Dr Richard Bowman [1], makes use of the flexibility to give fine control.</p>
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The ability to image fluorescent stains and proteins is integral to modern biology, but the necessary equipment can be prohibitively expensive, particularly for schools and labs in developing countries. To address this issue, we aim to provide an affordable and well documented fluorescence microscope - easy to build and modify.<br>
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<p><span class="dark" style="font-size:170%">The mechanics</span> of the stage can be automated using stepper motors. The user has remote control of the microscope, and can introduce tailor-made programs to facilitate their experiments.</p>
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The mechanics of our microscope will be 3D printable, and all other parts will be cheap and easy to source. The figure below shows our basic set-up: the sensor and fluorescence cube will move in the Z direction to achieve the necessary focus, whilst the sample will move in the X and Y directions (in order to achieve this translation, we will use Dr Richard Bowman's innovative method, which exploits the flexibility of the 3D printed parts).<br>
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<p><span class="dark" style="font-size:170%">The optics</span> are low-cost, low-energy and modular. Illumination using LEDs means reducing power consumption and cost. A Raspberry Pi camera makes the microscope digital, and an epi-fluorescence cube makes imaging GFP a reality. With sub-micrometer resolution in brightfield and darkfield modes, you are ready to image single cells or whole tissues.</p>
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<img src="https://static.igem.org/mediawiki/2015/f/f6/CamJIC-microscope.png" width="500px">
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<p><span class="dark" style="font-size:170%">The software</span> uses OpenCV and forms a core part of the project. The Webshell gives you real-time control over the microscope live-stream: from time-lapse to scale-bars. MicroMaps uses image stitching and sample recognition algorithms to give you the whole sample field in one, ready for annotation and screening. Autofocus capabilities allow automation of OpenScope’s motors, letting you image dynamic samples without supervision.</p>
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<p><span class="dark" style="font-size:170%">The documentation</span> is comprehensive, non-proprietary and easy to access. And its licensed to make sure it stays that way.</p>
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As proof-of-concept, we will develop a fluorescent cube for wild-type GFP and one for RFP. They will be interchangeable as necessary, and can be removed for bright-field imaging. Ultimately, we aim to achieve < 10 micron resolution, both in bright-field and fluorescent modes. We are also developing user-friendly software to control the microscope and automate image processing.<br>
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<p><span class="dark" style="font-size:170%">The community</span> of ‘makers’ is free to develop, modify and redistribute the documentation. OpenScope can evolve, improve and adapt to different needs.</p>
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We believe that everyone should have access to good education and facilities, regardless of financial status: this is why we want to bring you the best possible low-cost microscope.
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<p><span class="dark" style="font-size:170%">The overall cost</span> is below £200, orders of magnitude below commercial lab microscopes.</p>
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<p style="font-size:80%">[1] Sharkey, J., Foo, D., Kabla, A., Baumberg, J. and Bowman, R. (2015). <i>A one-piece 3D printed microscope and flexure translation stage.</i><a href="http://arxiv.org/abs/1509.05394" class="blue">[online]</a>  Arxiv.org. [Accessed 18 Sep. 2015].</p>
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<p><span class="dark" style="font-size:170%">The result?</span></p>
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<p>A microscopy solution for synthetic biologists, letting <span class="dark" style="font-size:170%">researchers</span> tailor the microscope to their needs. Image in the incubator, fume-hood or the field using remote access and battery power, or use OpenScope for rapid preliminary screening.</p>
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<p>A microscopy solution for <span class="dark" style="font-size:170%">schools</span>, providing education in programming, optics and one of the most ubiquitous techniques in biological research: fluorescence imaging.</p>
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<p>A microscopy solution for laboratories with small budgets, based on low-cost and easily sourced components. The potential of Openscope to increase access to microscopy in <span class="dark" style="font-size:170%">developing countries</span> has been a key part of the design process from day one. </p>
 
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Latest revision as of 21:17, 18 September 2015

CAMBRIDGE-JIC

Microscopy awaits you...

Cambridge-JIC brings you OpenScope: the foundation to a new era of accessible microscopy.

The chassis is 3D printed, allowing simple modification. The plastic is cheap, biodegradable and flexible. Stage translation, based on work by Dr Richard Bowman [1], makes use of the flexibility to give fine control.

The mechanics of the stage can be automated using stepper motors. The user has remote control of the microscope, and can introduce tailor-made programs to facilitate their experiments.

The optics are low-cost, low-energy and modular. Illumination using LEDs means reducing power consumption and cost. A Raspberry Pi camera makes the microscope digital, and an epi-fluorescence cube makes imaging GFP a reality. With sub-micrometer resolution in brightfield and darkfield modes, you are ready to image single cells or whole tissues.

The software uses OpenCV and forms a core part of the project. The Webshell gives you real-time control over the microscope live-stream: from time-lapse to scale-bars. MicroMaps uses image stitching and sample recognition algorithms to give you the whole sample field in one, ready for annotation and screening. Autofocus capabilities allow automation of OpenScope’s motors, letting you image dynamic samples without supervision.

The documentation is comprehensive, non-proprietary and easy to access. And its licensed to make sure it stays that way.

The community of ‘makers’ is free to develop, modify and redistribute the documentation. OpenScope can evolve, improve and adapt to different needs.

The overall cost is below £200, orders of magnitude below commercial lab microscopes.

[1] Sharkey, J., Foo, D., Kabla, A., Baumberg, J. and Bowman, R. (2015). A one-piece 3D printed microscope and flexure translation stage.[online] Arxiv.org. [Accessed 18 Sep. 2015].

The result?

A microscopy solution for synthetic biologists, letting researchers tailor the microscope to their needs. Image in the incubator, fume-hood or the field using remote access and battery power, or use OpenScope for rapid preliminary screening.

A microscopy solution for schools, providing education in programming, optics and one of the most ubiquitous techniques in biological research: fluorescence imaging.

A microscopy solution for laboratories with small budgets, based on low-cost and easily sourced components. The potential of Openscope to increase access to microscopy in developing countries has been a key part of the design process from day one.