Difference between revisions of "Team:Cambridge-JIC/Tech Specs"
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<h3>Cleaning</h3> | <h3>Cleaning</h3> | ||
− | <p><img src="//2015.igem.org/wiki/images/3/31/CamJIC-Notebook-Acetone.JPG" style="height:300px;margin:5px;float:right">We are aware that an item placed into the sterile environment of an incubator can cause contamination to any living samples. | + | <p><img src="//2015.igem.org/wiki/images/3/31/CamJIC-Notebook-Acetone.JPG" style="height:300px;margin:5px;float:right">We are aware that an item placed into the sterile environment of an incubator can cause contamination to any living samples. In order to use OpenScope in such a scenario, there must be an effective and non-damaging way to sterilise and clean it. This can be achieved by spraying with isopropanol before using. Isopropanol (propan-2-ol) is safe for the PLA and the electronics. Never attempt to use methanol (this will make the PLA soft) or acetone (this will dissolve the plastic).</p> |
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<div style="width: 100%; padding: 0% 10%; margin: 30px 0px;color:#000;min-height:0px"> | <div style="width: 100%; padding: 0% 10%; margin: 30px 0px;color:#000;min-height:0px"> | ||
<h3>Stage Drift</h3> | <h3>Stage Drift</h3> | ||
− | <p><img src="//2015.igem.org/wiki/images/3/39/CamJIC-TrackerCALIBRATION.png" style="height:300px;margin:5px;float:right">In order to perform time-lapse imaging, the digital microscope must be left capturing images for long periods of time. However, most microscope stages exhibit a drift, which causes the sample to move during the experiment. OpenScope is not an exception, especially given the fact that the stage is made of plastic. In order to characterise our prototype brightfield microscope, an experiment was set-up to record the movement of points (fiducial | + | <p><img src="//2015.igem.org/wiki/images/3/39/CamJIC-TrackerCALIBRATION.png" style="height:300px;margin:5px;float:right">In order to perform time-lapse imaging, the digital microscope must be left capturing images for long periods of time. However, most microscope stages exhibit a drift, which causes the sample to move during the experiment. OpenScope is not an exception, especially given the fact that the stage is made of plastic. In order to characterise our prototype brightfield microscope, an experiment was set-up to record the movement of points (fiducial marks) on a slide over a period of roughly 16 hours. The detailed experimental findings are available in the PDF below. In spite of the drift, OpenScope is still suitable for time-lapse imaging if used in conjunction with software which is capable of point tracking and drift correction. This involves the use of motors to compensate for drift, and is a strategy used by many commercial microscopes. However, this has not yet been implemented into OpenScope.</p> |
<center><a class="btn btn-default" href="//2015.igem.org/wiki/images/5/52/CamJIC-Specs-Drift.pdf" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | <center><a class="btn btn-default" href="//2015.igem.org/wiki/images/5/52/CamJIC-Specs-Drift.pdf" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | ||
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<div style="width: 100%; padding: 0% 10%; margin: 30px 0px;color:#fff;min-height:0px"> | <div style="width: 100%; padding: 0% 10%; margin: 30px 0px;color:#fff;min-height:0px"> | ||
<h3>Optics</h3> | <h3>Optics</h3> | ||
− | <p><img src="//2015.igem.org/wiki/images/2/2d/CamJIC-Specs-Resolution.png" style="height:300px; margin: 5px;float:right">The imaging system of OpenScope is based on a Raspberry Pi camera. Inverting the lens of the camera converts it into a microscope objective. | + | <p><img src="//2015.igem.org/wiki/images/2/2d/CamJIC-Specs-Resolution.png" style="height:300px; margin: 5px;float:right">The imaging system of OpenScope is based on a Raspberry Pi camera. Inverting the lens of the camera converts it into a microscope objective. For a detailed explanation, see the PDF below. With the Raspberry Pi Camera a resolution of 4 μm was achieved, but subsequently sub-micron resolution was reached with a commercially available 'ball lens' (from <ahref="http://www.comaroptics.com/">Comar Optics</a>). OpenScope's objective holder is 3D-printed - like the rest of the chassis - and the spacing between the CCD and the lens in it was optimised for the lenses we used. However, this is an easily modifiable parameter in our .scad design files, which means that anyone can adapt the objective they use for the magnification, field of view, and resolution they need.</p><center><a class="btn btn-default" href="#" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> |
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<h3>Strength</h3> | <h3>Strength</h3> | ||
− | <p><img src="//2015.igem.org/wiki/images/8/84/CamJIC-Instron_1.png" style="height:300px;margin:5px;float:right"></center> | + | <p><img src="//2015.igem.org/wiki/images/8/84/CamJIC-Instron_1.png" style="height:300px;margin:5px;float:right"></center>Three point bending tests were performed to confirm the strength of the OpenScope stage. The material used to print it - PLA - turns out to be both 4 times stronger and and 13 times stiffer than the alternative material, ABS. We also explored how different orientations of the object during 3D-printing affects its strength, and took this into account when putting together the OpenScope print files. Moreover, it was confirmed that the plastic is not subject to plastic deformation due to the weight-loads that the OpenScope stage will typically have to bear. In short: you can put OpenScope in your backpack and not worry about it getting broken (we tried this, too). The detailed report from the strength testing experiments can be found below.</p> |
<center><a class="btn btn-default" href="//2015.igem.org/wiki/images/2/24/CamJIC-Specs-Strength.pdf" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | <center><a class="btn btn-default" href="//2015.igem.org/wiki/images/2/24/CamJIC-Specs-Strength.pdf" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | ||
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<p>OpenScope supports three different modes of microscopy:</p> | <p>OpenScope supports three different modes of microscopy:</p> | ||
<ul> | <ul> | ||
− | <li><p> | + | <li><p>Brightfield: in this simplest setup, the sample is illuminated with a white LED from below</p></li> |
− | <li><p> | + | <li><p>Darkfield: this mode requires mounting of a 3D-printed darkfield tube underneath the stage (for an explanation on how darkfield works, see the document below)</p></li> |
− | <li><p> | + | <li><p>Fluorescence: for this mode, we have carefully developed the epi-cube, which houses the camera CCD, the lens, the 3 filters required, and the illuminating LED (for more information on how fluorescence works, see our <a href="https://2015.igem.org/Team:Cambridge-JIC/Modeling" class="blue">Modeling</a> page)</p></li> |
</ul> | </ul> | ||
− | <p>Switching between these modes is as simple as just swapping between the different modules, and the different modes of illumination can be controlled through the <a href="https://2015.igem.org/Team:Cambridge-JIC/Webshell">WebShell</a>.</p> | + | <p>Switching between these modes is as simple as just swapping between the different modules, and the different modes of illumination can be controlled through the <a href="https://2015.igem.org/Team:Cambridge-JIC/Webshell">WebShell</a> by switching between different LEDs for illumnation.</p> |
<center><a class="btn btn-default" href="#" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | <center><a class="btn btn-default" href="#" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | ||
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<h3>Movement Precision</h3> | <h3>Movement Precision</h3> | ||
− | <p>When designing the OpenScope stage, we have taken advantage of the flexibility of the plastic. The flexure mechanism allows the stage to move horizontally very smoothly, and all care was taken to provide just as smooth vertical movement. Using screws to control the mechanics provides an extra degree of | + | <p>When designing the OpenScope stage, we have taken advantage of the flexibility of the plastic following the strategy developed by Dr Richard Bowman. The flexure mechanism allows the stage to move horizontally very smoothly, and all care was taken to provide just as smooth vertical movement. Using screws to control the mechanics provides an extra degree of fine-control. In addition, the microscope can be motorized for complete remote operation (again, through the <a href="https://2015.igem.org/Team:Cambridge-JIC/Webshell">WebShell</a>). We used cheap, low-power (operating at 5V) stepper motors, which are still highly accurate: they are geared to 513 steps per revolution, which translates into approx. 0.6μm movement of the sample per step along the x- and y-axes. For the detailed analysis, see the document below.</p> |
<center><a class="btn btn-default" href="#" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | <center><a class="btn btn-default" href="#" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | ||
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<h3>Affordable Price</h3> | <h3>Affordable Price</h3> | ||
− | <p>The total cost of OpenScope is determined mainly by the price of the electronics used, given that the plastic 3D-printed components round up to | + | <p>The total cost of OpenScope is determined mainly by the price of the electronics used, given that the plastic 3D-printed components round up to £2 (100g of PLA, £20 per kg). You will also definitely need the Raspberry Pi camera(£15-20), the Raspberry Pi itself (£25), an Arduino PCB (£20) and some LEDs. On top of that are some optional components: motors if you want to control OpenScope remotely and filters if you will be imaging fluorescence. To figure out which components you need and which not, for your own OpenScope, consult our <a href="https://2015.igem.org/Team:Cambridge-JIC/Webshell">Make Your Own</a> page. You can download the full Bill of Materials below. The total price stays in the range £50-150, which is two or more orders of magnitude lower than the price of the commercial lab microscopes.</p> |
<center><a class="btn btn-default" href="#" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | <center><a class="btn btn-default" href="#" role="button" style="color:#b1e7ad;border-color:#b1e7ad">download pdf</a></center> | ||
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<h3>Size & Weight</h3> | <h3>Size & Weight</h3> | ||
− | <p>The plastic stage of OpenScope weights just over 100g, and the height of the whole assembly is just over 6cm in height. Together with all of the accompanying electronics, it is easily transportable in a 13x13x13 cm box.</p> | + | <p>The plastic stage of OpenScope weights just over 100g, and the height of the whole assembly is just over 6cm in height. Together with all of the accompanying electronics, it is easily transportable in a 13x13x13 cm box. A 3m ribbon cable is used to connect the camera to the Raspberry Pi, which gives extra flexibility of movement. However, in order to reduce cable management requirements this can be shortened. In our set-up, the Arduino and Raspberry Pi are not housed in the chassis of the microscope and are stand-alone. </p> |
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Revision as of 19:05, 16 September 2015