Difference between revisions of "BME103:W930 Group9 l2"

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(Research and Development)
(Thermal Cycler Engineering)
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'''System Design'''<br>
'''System Design'''<br>
[[Image:BME103_Group9_Assembly2.png‎|800px|New OpenPCR Design]]
[[Image:BME103_Group9_Assembly.png‎|700px|New OpenPCR Design]]

Revision as of 09:24, 28 November 2012

Owwnotebook icon.png BME 103 Fall 2012 Home
Lab Write-Up 1
Lab Write-Up 2
Lab Write-Up 3
Course Logistics For Instructors
Wiki Editing Help
BME494 Asu logo.png


Name: Tyler Ray
Research and development scientist
Name: Seth Howell
Name: Ryan
Open PCR machine engineer
Name: Hamas
Name: Deanna
Open PCR machine engineer
Name: Daniela

Everyone has contributed to this project even though there are only two usernames. Every person used these two users to make edits to the wiki. Dr. Haynes said that this would be sufficient enough to give each member full participation credit for this project


Thermal Cycler Engineering

Our re-design is based upon the Open PCR system originally designed by Josh Perfetto and Tito Jankowski.

System Design

New OpenPCR Design

The image above portrays the main heating block located inside the OpenPCR.
Consequently, the entire dimensions of the OpenPCR will increase accordingly, to fit the new 5x5 heating block.
An example is shown in the image above, indicating that the lid of the device
will increase to accommodate the new heating block.

Key Features

The key features of the new design include




PCR Protocol

DNA Measurement Protocol

Research and Development

Background on Disease Markers
The disease our group chose to look at was cystic fibrosis. It is a recessive trait caused by mutations in a gene on the 7th chromosome that "Causes thick, sticky mucus to build up in the lungs, digestive tract, and other areas of the body"([1]). This disease is life threatening and has a prevalence (at birth) of 1 in 2000 to 3000 in Europe and 1 in 3500 in the U.S. [2]. The marker used is a two nucleotide deletion and has identy rs200007348 and a description of the phenotype along with location in the chromosome. can be found at [3].

Primer Design

Forward primer
Reverse Primer
The disease allele will give a positive result in open pcr because both the forward and reverse primers match that allele perfectly. The non-disease allele will not give a positive result because there is a frameshift mutation between the two alleles. Two nucleotides are added into the non-disease allele (between the second, and third nucleotides before the 5' end of the reverse primer). This means that the first two nucleotides willl bind to the reverse primer, but the rest will not, and exponential replication of the disease-carrying allele will be impossible.


DNA Amplification