Difference between revisions of "Team:SUSTech Shenzhen/Hardware/Light"
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{{SUSTech_Image_Center_8 | filename=T--SUSTech_Shenzhen--magicprojector.jpg| caption='' }} | {{SUSTech_Image_Center_8 | filename=T--SUSTech_Shenzhen--magicprojector.jpg| caption='' }} | ||
| − | * Weight: | + | * Weight: 10kg |
* Power: 200W | * Power: 200W | ||
| − | * Cost: | + | * Cost: ￥15299.36 |
| − | Multiple devices of optics are designed and created for the various experiment requirements. All devices are attempt to modulate the spatio-temporal pattern in a '''elegant''' and '''effective''' way. | + | Multiple devices of optics are designed and created for the various experiment requirements, such as stimulate neuron of ''C. elegans'', train ''C. elegans'' and induce ''C. elegans'' walk in special direction . All devices are attempt to modulate the spatio-temporal pattern in a '''elegant''' and '''effective''' way. |
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= Projector Light Source = | = Projector Light Source = | ||
| + | '''Biology background in our project''': We need 395nm light activate Calcium indicator protein GEM-GECO for neuron image. For the independent excitation of neurons(AWA and AWB) in ''C. elegans'', channelrhodopsins CoChR and Chrimson are activated by blue light and red light<ref>Lisa C. Schild and Dominique A. Glauser , Dual Color Neural Activation and Behavior Control with Chrimson and CoChR in Caenorhabditis elegans, 2015, GENETICS.</ref>. Due to these proteins are sensitive to the wavelength of light, it is necessary to purify light of the projector. | ||
| + | {{SUSTech_Image | filename=T--SUSTech_Shenzhen--Spectrum0.8.png | width=194px |caption=Fig. 2 Spectra of protein in genetic circuit }} | ||
{{SUSTech_Image | filename=T--SUSTech_Shenzhen--Schematic_fluorescencemicroscope.png | caption=Fig.1 Schematic of fluorescence microscope}} | {{SUSTech_Image | filename=T--SUSTech_Shenzhen--Schematic_fluorescencemicroscope.png | caption=Fig.1 Schematic of fluorescence microscope}} | ||
Fluorescence microscope play a important role in our experiment. Zeiss Company creates a perfect visual animation to show how the fluorescence microscope works, you can find in their [http://zeiss-campus.magnet.fsu.edu/tutorials/basics/axioobserver/indexflash.html web]. However, typical fluorescence microscope can only illuminate the specimen( ''C. elegans'') with same light in whole view. There, we modify a consumed projector to new light source, which can illuminate specimen '''locally''', '''in multi-color''', ''' in multi-points''' and '''dynamically'''. Projector Light Source also has short response time and high light intensity, which will be a effective, hackable and potential tool for synthesis biology. | Fluorescence microscope play a important role in our experiment. Zeiss Company creates a perfect visual animation to show how the fluorescence microscope works, you can find in their [http://zeiss-campus.magnet.fsu.edu/tutorials/basics/axioobserver/indexflash.html web]. However, typical fluorescence microscope can only illuminate the specimen( ''C. elegans'') with same light in whole view. There, we modify a consumed projector to new light source, which can illuminate specimen '''locally''', '''in multi-color''', ''' in multi-points''' and '''dynamically'''. Projector Light Source also has short response time and high light intensity, which will be a effective, hackable and potential tool for synthesis biology. | ||
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GEM-GECO is activated by 395nm light from [https://micro-manager.org/wiki/LumencorSpectraLumencor LumencorSpectra LED Illuminator]. | GEM-GECO is activated by 395nm light from [https://micro-manager.org/wiki/LumencorSpectraLumencor LumencorSpectra LED Illuminator]. | ||
| − | We use projector [http://www.epson.com.cn/products/projectors/239/CB-X03/ EPSON CB-X03] as red light& blue light source for CoChR& Chrimson. Projector's 3LCDs(red, green and blue channel) function as 1024*768 electronic shutter in each channel. Projector's super high pressure mercury lamp as a high-intensity light source[Fig. 3]. | + | We use projector [http://www.epson.com.cn/products/projectors/239/CB-X03/ EPSON CB-X03] as red light& blue light source for CoChR& Chrimson. Projector's 3LCDs(red, green and blue channel) function as 1024*768 electronic shutter in each channel. Projector's super high pressure mercury lamp function as a high-intensity light source[Fig. 3]. |
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{{SUSTech_Image | filename=T--SUSTech_Shenzhen--projectorintomicroscope.jpg|width=200px| caption=Fig.5 Play movie on hand.}} | {{SUSTech_Image | filename=T--SUSTech_Shenzhen--projectorintomicroscope.jpg|width=200px| caption=Fig.5 Play movie on hand.}} | ||
| − | To use 395nm, red light and blue light at the same time, they are merged by a double LH Adapter, contained a semi-transparent mirror. Double LH Adapter connect to microscope. (Fig. 6) However, based on the optical principle of microscope, the light should image on the plane of Double LH adapter. To project whole image to microscope, it mean that image from projector should be about 5cm*5cm on plane. As all we known, normal projector will image in much longer distance and bigger than requirement. A new and cheap len Dukane 3inch/2.5 replaces original lens. The focus distance of [http://www.ebay.ph/itm/141444870051 Dukane 3 inch/2.5] is 3 inch(75mm). Every pixel in LCD is considered as single point light source, and using {{SUSTech_Shenzhen/bmath|equ=<nowiki> \frac{1}{f_{len}}=\frac{1}{D_{len-LCDs}}+\frac{1}{d_{len-adapter}} </nowiki>}} to estimate position of lens. Lens help us to smaller the projector's image to microscope(Fig. 5). Finally, we can control every pixel of image on specimen from projector. | + | To use 395nm light, red light and blue light at the same time, they are merged by a double LH Adapter, contained a semi-transparent mirror. Double LH Adapter connect to microscope. (Fig. 6) However, based on the optical principle of microscope, the light should image on the plane of Double LH adapter. To project whole image to microscope, it mean that image from projector should be about 5cm*5cm on plane. As all we known, normal projector will image in much longer distance and bigger than requirement. A new and cheap len Dukane 3inch/2.5 replaces original lens. The focus distance of [http://www.ebay.ph/itm/141444870051 Dukane 3 inch/2.5] is 3 inch(75mm). Every pixel in LCD is considered as single point light source, and using {{SUSTech_Shenzhen/bmath|equ=<nowiki> \frac{1}{f_{len}}=\frac{1}{D_{len-LCDs}}+\frac{1}{d_{len-adapter}} </nowiki>}} to estimate position of lens. Lens help us to smaller the projector's image to microscope(Fig. 5). Finally, we can control every pixel of image on specimen from projector. |
Revision as of 03:44, 1 November 2017
Light Modulator
Let there be light!
Contents
- Weight: 10kg
- Power: 200W
- Cost: ￥15299.36
Multiple devices of optics are designed and created for the various experiment requirements, such as stimulate neuron of C. elegans, train C. elegans and induce C. elegans walk in special direction . All devices are attempt to modulate the spatio-temporal pattern in a elegant and effective way.
Projector Light Source
Biology background in our project: We need 395nm light activate Calcium indicator protein GEM-GECO for neuron image. For the independent excitation of neurons(AWA and AWB) in C. elegans, channelrhodopsins CoChR and Chrimson are activated by blue light and red light[1]. Due to these proteins are sensitive to the wavelength of light, it is necessary to purify light of the projector.
Optical Design
GEM-GECO is activated by 395nm light from LumencorSpectra LED Illuminator.
We use projector [http://www.epson.com.cn/products/projectors/239/CB-X03/ EPSON CB-X03] as red light& blue light source for CoChR& Chrimson. Projector's 3LCDs(red, green and blue channel) function as 1024*768 electronic shutter in each channel. Projector's super high pressure mercury lamp function as a high-intensity light source[Fig. 3].
Although original filter can separate white light into red light and blue light, the bandwidth of red light or blue light is not narrow as requirement of our optical sensory protein(CoChR& Chrimson). We install additional red filter Chroma ET630/20X and blue filter Chroma ET480/20X outside 3LCDs. (Fig. 4B)
According to the principle of fluorescence microscope, corresponding Di-Mirror 89402bs and emission filter 89402m are install inside the microscope filter wheel(Fig. 4C). You can see all filters we use in our project(Fig. 4).
Mechanical design
We need to install new lens on projector with adjustable component, and fix all device with microscope stably.
Lens Holder and Connection Tube are design(Solidworks Documents) by CNC and 3D-Print.
To build dark environment, we also build a dark room with cloth.
Here will be 3D model and real picture.
Control Software
Software is most flexible part. A very easy method is using slide(Demo Slide), such as LibreOffice(Test on 5.4.2.2.0+ in Arch Linux) or Microsoft Office. The image and time pattern is configured in slide, including color, intensity and pulse time etc.
We also develop a more powerful and hackable open source software suit called ColorMapping to track and activate multi C. eleganss or cell independently in one view. User can modify multi color, intensity, time and locations of light alternately in GUI. Everyone is welcome to join us to develop ColorMapping in GitHub, which still is developing.
ColorMapping, contains camera part, projector part, user&calculation part. It is coded by Python2, Pygraph, PyQt5, [http://lima.blissgarden.org/camera/andor3/doc/index.html?highlight=andor3 Lima(Library for Image Acquisition)]. ColorMapping tests on Arch Linux.
A important algorithm is how to project special area in special color. The key is coordinate system transformation between camera view(2560*2160) and projector(1024*768). To simplify question, only the left projector edge and 4 ROIs(region of interesting) are drew. Every point(X_{projector}, y_projector) in image will be generated from following formula.
\left[\begin{matrix}x_{projector}\\y_{projector}\end{matrix}\right]= [\begin{matrix}{1}&{\frac{1024}{L}}\end{matrix}](\left[\begin{matrix}x_1\\y_1\end{matrix}\right]-\left[\begin{matrix}x_0\\y_0\end{matrix}\right])
In ROIs Setting, every ROI can set the color(Blue or Red) and intensity(0~255). The 4 ROIs can move by mouse in real time, so the projector can response immediately. Generated image is showed a full-screen window in another extended desktop. Projector is only the show extended desktop.
Arduino Modulate Mercury Lamp
A simple and effective device to output pulse of certain wavelength of light. On time and off time of pulse is custom by Arduino. Wavelength of light is changed by replacing filter before beam expander.
The result can be found in behavior result part.
Optical Fiber Light
Bill
Here are detail bill.
| Parts | Unit | COST/unit ￥ | COST ￥ |
|---|---|---|---|
| EPSON | 1 | 3960 | 3960 |
| CNC Components | 1 | 600 | 600 |
| Precise 3D-print Component | 1 | Arduino Modulate Mercury Lamp213.22 | 213.22 |
| Optical plate | 1 | 230 | 230 |
| Lifting columns(GCM-2211) | 3 | 210 | 630 |
| Arduino nano v3.0 | 1 | 13.50 | 13.50 |
| Tower-Pro Servo | 1 | 8 | 8 |
| Filter 89402bs | 1 | 3159.45 | 3159.45 |
| Filter ET480/20X | 1 | 2161.73 | 2161.73 |
| Filter ET630/20X | 1 | 2161.73 | 2161.73 |
| Emission Filter 89402 | 1 | 2161.73 | 2161.73 |
| TOTAL COST | 15299.36 |
References
- ↑ Lisa C. Schild and Dominique A. Glauser , Dual Color Neural Activation and Behavior Control with Chrimson and CoChR in Caenorhabditis elegans, 2015, GENETICS.
- ↑ Venkatachalam, V., & Cohen, A. E. (2014). Imaging GFP-Based Reporters in Neurons with Multiwavelength Optogenetic Control. Biophysical Journal, 107(7), 1554–1563. http://doi.org/10.1016/j.bpj.2014.08.020
