BME103:T130 Group 7

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
(OUR TEAM)
(Initial Machine Testing)
Line 27: Line 27:
'''The Original Design'''<br>
'''The Original Design'''<br>
-
(Add image of the full OpenPCR machine here, from the Week 3 exercise. Write a paragraph description for visitors who have no idea what this is)<br>
+
This is a PCR machine (model: Open PCR 1 Jankowski and Perfetto) this machine is capable of replicating DNA through a series of temperature changes.<br>
[[Image:PCR Machine.png]]
[[Image:PCR Machine.png]]
Line 34: Line 34:
'''Experimenting With the Connections'''<br>
'''Experimenting With the Connections'''<br>
-
When we unplugged (part 3) from (part 6), the machine ... (did what? fill in your answer)
+
When we unplugged the PCB board from the Open PCR circuit board the machine's LED display ceased to function.
-
When we unplugged the white wire that connects (part 6) to (part 2), the machine ... (did what? fill in your answer)
+
When we unplugged the white wire that connects the Open PCR circuit board to 16 tube PCR block, the machine's LED display read -40 Celsius indicating that the temperature could not be read.  

Revision as of 18:50, 1 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
Image:BME494_Asu_logo.png

Contents

OUR TEAM

Name: Emily ThompsonResearch & Development Scientist
Name: Emily Thompson
Research & Development Scientist
Name: Vivian BenjesExperimental Protocol Planner
Name: Vivian Benjes
Experimental Protocol Planner
Image:Frances.jpg
Name: Frances Marrett
Experimental Protocol Planner
Name: Chris GlassOpen PCR Machine Engineer
Name: Chris Glass
Open PCR Machine Engineer
Name: Ryan FrantzOpen PCR Machine Engineer
Name: Ryan Frantz
Open PCR Machine Engineer
Name: Cenric NigburGhost/ TBD
Name: Cenric Nigbur
Ghost/ TBD

LAB 1 WRITE-UP

Initial Machine Testing

The Original Design
This is a PCR machine (model: Open PCR 1 Jankowski and Perfetto) this machine is capable of replicating DNA through a series of temperature changes.

Image:PCR Machine.png


Experimenting With the Connections

When we unplugged the PCB board from the Open PCR circuit board the machine's LED display ceased to function.

When we unplugged the white wire that connects the Open PCR circuit board to 16 tube PCR block, the machine's LED display read -40 Celsius indicating that the temperature could not be read.


Test Run

(Write the date you first tested Open PCR and your experience(s) with the machine)




Protocols

Polymerase Chain Reaction

(Add your work from Week 3, Part 1 here)


Flourimeter Measurements

(Add your work from Week 3, Part 2 here)




Research and Development

Specific Cancer Marker Detection - The Underlying Technology

Polymerase Chain Reaction, or PCR, is used to ampllify a specific segment of DNA, in this case the segment known to code for cancer. A primer, which is a piece of complementary DNA artificially synthesized from free bases, binds to the desired DNA, and taq polymerase catalyzes the replication of the DNA strand. This is repeated over and over to produce many copies of the DNA. Once the copies are made, a fluorescent dye that only bonds to DNA double strands is added to the solution. If a solution that shows fluorescence by using a fluorimeter, then that DNA sample contains the cancer-associated sequence.

The single nucleotide polymorphism, or SNP, that is linked to cancer is rs17879961. The sequence associated with cancer is ACT, while the non-cancer sequence is ATT. PCR works to identify ACT from ATT because the primers, which are complementary to DNA strands containing cancer-positive ACT, will not bind to DNA containing ATT, and instead of DNA double strands, the solution will only contain single strands. The fluorescent dye will only bind to double strands and will identify those.


(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)


Personal tools