BME103:T930 Group 9: Difference between revisions
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'''Steps to Run PCR'''<br> | '''Steps to Run PCR'''<br> | ||
#Connect the PCR machine to the computer.<br> | |||
#Open the 'OpenPCR' program on the computer.<br> | |||
#Label the tubes. This information should include the patient number (1 or 2) or control (+ or -), as well as the replication number (1, 2, or 3).<br> | |||
#Prepare the experiment by inserting the reactants into the PCR tubes. These tubes will consist of the patients DNA, along with the other provided mixing components'''*'''. After filling each tube, put it into the chamber at the top of the machine.<br> | |||
#Close and tighten the lid of the chamber.<br> | |||
#Customize the settings in the 'Thermal Cycler' program to include three stages: Stage 1 - one cycle that will heat the reactants up to 95 degrees Celcius for three minutes, Stage 2 - 35 cycles that will heat the reactancts to 95 degrees Celsius for 30 seconds, 57 degrees Celsius for 30 seconds, and 72 degrees Celsius for 30 seconds. <br> | |||
#Press start on the prgram to begin running the PCR.<br> | |||
#Collect and record data at the completion of the trial.<br> | |||
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'''* Provided Mixing Components'''<br> | '''* Provided Mixing Components'''<br> | ||
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'''Flourimeter Assembly Procedure'''<br> | '''Flourimeter Assembly Procedure'''<br> | ||
#Place a glass slide on the device. <br> | #Place a glass slide on the device. <br> | ||
#Using a pipette,add two drops of water to the slide. <br> | #Using a pipette, add two drops of water to the slide. <br> | ||
#Turn on the blue LED light, and adjust the slide so the light shines directly through the center of the water drop. <br> | #Turn on the blue LED light, and adjust the slide so that the light shines directly through the center of the water drop. <br> | ||
#Adjust the camera settings on a smartphone as follows: <br> | #Adjust the camera settings on a smartphone as follows: <br> | ||
#*Turn off the flash <br> | #*Turn off the flash <br> | ||
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#*Set saturation to the highest setting <br> | #*Set saturation to the highest setting <br> | ||
#*Set contrast to the lowest setting <br> | #*Set contrast to the lowest setting <br> | ||
#Place the smartphone on the phone holder and position in front of fluorimeter device. <br> | #Place the smartphone on the phone holder and position it in front the of fluorimeter device. <br> | ||
#Cover the entire setup with a black box in order to create as dark of an environment as possible. <br> | #Cover the entire setup with a black box in order to create as dark of an environment as possible. <br> | ||
#Take a picture with the smartphone. For best results, set the timer on the smartphone in order to be able to take a picture with the box completely closed. <br> | #Take a picture with the smartphone. For best results, set the camera timer on the smartphone in order to be able to take a picture with the box completely closed. <br> | ||
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'''How to | '''How to Open Pictures Using Image J''' <br> | ||
#Using the smartphone, email the images to someone in the group with a computer. <br> | |||
#From the computer, open the email and download the images. <br> | |||
#Save the images to the computer. <br> | |||
#If the computer does not already have Image J installed, the program can be downloaded by going to http://rsb.info.nih.gov/ij/download.html <br> | |||
#In Image J, go to file, open, and then select the desired picture. <br> | |||
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Revision as of 13:57, 8 November 2012
BME 103 Fall 2012 | Home People Lab Write-Up 1 Lab Write-Up 2 Lab Write-Up 3 Course Logistics For Instructors Photos Wiki Editing Help | ||||||||||||||||||||||||||||
OUR TEAMLAB 1 WRITE-UP(Please finish by 11/7/2012) Initial Machine TestingThe Original Design
When we unplugged part 3, the LCD, from part 6, the Open PCR circuit Board, the LCD on the machine turned off and no information appeared on the LCD screen.
Test Run On October 25 2012, we conducted our first test on our open PCR machine. We tested the machine to test the operation functionality. The initial test demonstrated the machine heat sink accuratly controlled and displayed the preprogrammed temperaute determined by the software on the computer. The overall successfullness of the machine was good, however it came with one difficulity, fluctuation of time to complete the preporgrammed cycles.
ProtocolsPolymerase Chain Reaction
Flourimeter Assembly Procedure
How to Open Pictures Using Image J
Research and DevelopmentSpecific Cancer Marker Detection - The Underlying Technology In Week 3 of our PCR experiment, we studied the cancer marker in the PCR experiment was correlated to the breast and colorectal cancer. Based on conditional probabilities, we found that the frequency of this cancer found in Finland was 7.8%. BONUS points: Use a program like Powerpoint, Word, Illustrator, Microsoft Paint, etc. to illustrate how primers bind to the cancer DNA template, and how Taq polymerases amplify the DNA. Screen-captures from the OpenPCR tutorial might be useful. Be sure to credit the source if you borrow images.
Results(Your group will add the results of your Fluorimeter measurements from Week 4 here)
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