BME103:W930 Group10

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 TEAM Name: Susan Sajadi Role(s) Name: Raymond Feliciano Role(s) Name: Britny Sepulveda Role(s) Name: Rachel Lundeen Role(s) Name: Liz Lopez Role(s) Name: Larry Moss Role(s) Name: Collin Siguenza Role(s) Name: Rotem Berger Role(s) LAB 1 WRITE-UP (Please finish by 11/7/2012) Initial Machine Testing The Original Design This is the OpenPCR machine used to automate polymerase chain reactions. This reaction allows for the amplification of specific DNA which useful for detecting different markers such as those indiciating an increased risk for cancer, presence of HIV, etc. Experimenting With the Connections When we unplugged the LCD screen from the Open PCR circuit board, the machine's LCD screen did not turn on. When we unplugged the white wire that connects Open PCR circuit board to the heat sink, there appeared to be no effect, however it is likely that the heat sink would not function during a trial. Test Run On Oct. 24th, 2012 we first used the Open PCR machine to run 25 cycles on eight samples which included two sets of three samples and a positive and negative control. The process was succesful, taking ~90 minutes for the reaction to complete. Initial testing of the device indicated the machine and software were synced in regards to the temperature during each cycle. Protocols Polymerase Chain Reaction (1. Polymerase Chain Reaction(PCR) works by using a mix of enzymes that transcribe sections of DNA. The enzyme mix is combined with patient DNA. Then, the sample is heated and cooled in regular cycles to match the ideal temperatures for the different enzymes. This will result in replication of the specific section of DNA that is being tested. 2. Steps to amplify a patient's DNA sample 1. add 50 microliters PCR master mix of enzymes to patient DNA sample 2. put in PCR machine 3. run for the prescribed number of cycles) Fluorescent Measurements Research and Development Specific Cancer Marker Detection - The Underlying Technology (Add a write-up of the information discussed in Week 3's class) (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.) For an animated walkthrough of the process, check out this PCR Virtual Lab from the team at the University of Utah's Genetic Science Learning Center Works Cited "Microbial Chatter." - Thermus Aquaticus. N.p., n.d. Web. 31 Oct. 2012. <http://docp.edublogs.org/thermus-aquaticus/>. "Replication." Shmoop. N.p., n.d. Web. 31 Oct. 2012. <http://www.shmoop.com/dna/dna-replication.html>. Results Sample ID Area & x,y,w,h info Mean Pixel Value INTDEN RAWINTDEN INTDEN 110927 28072 65.2 18311650 18311650 110927 110501 1110252