BME100 s2014:T Group8 L6: Difference between revisions
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''[Instructions: IF your group has decided to redesign the PCR machine and/or Fluorimeter to address any major weakness(es), explain how in an additional paragraph.]'' | ''[Instructions: IF your group has decided to redesign the PCR machine and/or Fluorimeter to address any major weakness(es), explain how in an additional paragraph.]'' | ||
The PCR machine and Fluorimeter will function the same in our new design. However, the new system will generate a more efficient process as well as make the machine easier to operate. The new design contains labeled DNA wells to avoid confusion and they are spaced slightly further apart so as to allow easier transfer using the Fluorimeter. Since the process takes a significant amount of time to complete, additional DNA wells have been added to create more efficient tests. The primary change made to redesign the PCR machine was the addition of a miniature computer on the machine itself. In the original design the PCR machine had to be plugged in to an external computer for testing, so we implemented a mini-computer to make the device more portable and reduce the chance of errors or mistakes involving an external device. | |||
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Revision as of 01:44, 24 April 2014
BME 100 Spring 2014 | Home People Lab Write-Up 1 | Lab Write-Up 2 | Lab Write-Up 3 Lab Write-Up 4 | Lab Write-Up 5 | Lab Write-Up 6 Course Logistics For Instructors Photos Wiki Editing Help | |||||
OUR COMPANY
LAB 6 WRITE-UPComputer-Aided DesignTinkerCAD TickerCAD is a computer system that can design three dimensional design images. The program is very straightforward and user friendly. Lessons teach the basics of the program and then you have the ability to create your own images. You can even import generate shapes and designs.
Our new design incorporates a computer into the PCR machine so that all data could be retrieved straight from the device wihtout having to use an external computer. Our group noticed some aspects of Open PCR that could be improved.
They were: What we did to change this was to attach a mini computer to the PCR. Therefore no external computer will be needed.
This computer is attached to the heater and cooler, and has a tray with dna wells that can be pulled out. The difference here is that
the wells are more in number, and are labeled as well in order to prevent mistakes.
Feature 1: Disease SNP-Specific Primers[Instructions: This information will come from the exercises you did in PCR Lab B.] Background on the disease-associated mutation
How the primers work: [Instructions: explain what makes the primers disease-sequence specific. In other words, explain why the primers will amplify DNA that contains the disease-associated SNP, and will not exponentially amplify DNA that has the non-disease allele.] Every PCR reaction needs two primers, one forward and one reverse. The forward primer is disease-allele-specific because it ends with the nucleotide from the disease-associated allele. The forward primer for SNP rs237025 ends with ATG, the sequence for the disease associated allele. What this means is that the forward primer will amplify DNA that contains this disease-associated SNP, and will not react to amplify DNA without the allele.
Feature 2: Consumables KitThe consumables kit for our PCR Machine and Fluorimeter Set will include:
The light-blocking tubes for the SYBR Green address the issue of variance in the experiment due to prolonged light exposure during the experimental process. These tubes are not clear like PCR tubes and have a lockable rotational top to more easily get the substance out without over-exposing its photsensitivity.
Feature 3: Hardware - PCR Machine & Fluorimeter[Instructions: Summarize how you will include the PCR machine and fluorimeter in your system. You may add a schematic image. An image is OPTIONAL and will not get bonus points, but it will make your report look really awesome and easy to score.] [Instructions: IF your group has decided to redesign the PCR machine and/or Fluorimeter to address any major weakness(es), explain how in an additional paragraph.] The PCR machine and Fluorimeter will function the same in our new design. However, the new system will generate a more efficient process as well as make the machine easier to operate. The new design contains labeled DNA wells to avoid confusion and they are spaced slightly further apart so as to allow easier transfer using the Fluorimeter. Since the process takes a significant amount of time to complete, additional DNA wells have been added to create more efficient tests. The primary change made to redesign the PCR machine was the addition of a miniature computer on the machine itself. In the original design the PCR machine had to be plugged in to an external computer for testing, so we implemented a mini-computer to make the device more portable and reduce the chance of errors or mistakes involving an external device. Bonus Opportunity: What Bayesian Stats Imply About The BME100 Diagnostic ApproachCalculation 3 was not very close to one. Since this is the test that estimates the probability that a patient will develop the disease when they give a positive test, this is not very reliable. Calculation 4 was a bit closer than calculation 3 to 1, but still not "very close". This calculation was for the probability that a patient will not develop the disease when they give a negative test and is slightly reliable but not the most favorable probability.
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