BME100 s2014:T Group9 L6: Difference between revisions
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==Feature 1: Disease SNP-Specific Primers== | ==Feature 1: Disease SNP-Specific Primers== | ||
'''Background on the disease-associated mutation'''<br> | '''Background on the disease-associated mutation'''<br> | ||
It was found the species for this variation is homo sapien. This variation is found on teh chromosome 6:149721690 and the clinical significance was listed as other. This SNP is associated with the genes SUMO4 and TAB2. SUMO4, small ubiquitin-like modifier 4, is located in the cytoplasm of cells and specifically modifies IRBA. The diseases linked to it are type 1 Diabetes, Type 2 Diabetes, nephropathy, and VKH syndrome. | |||
Revision as of 22:02, 23 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 [Instructions: A short summary (up to five sentences) of the TinkerCAD tool and how you used it in lab on November 20th]
[Instructions: Show an image of your TinkerCAD design here] [Instructions: A short paragraph describing your design. Why did you choose this design? How is it different from the original OpenPCR design?]
Feature 1: Disease SNP-Specific PrimersBackground on the disease-associated mutation It was found the species for this variation is homo sapien. This variation is found on teh chromosome 6:149721690 and the clinical significance was listed as other. This SNP is associated with the genes SUMO4 and TAB2. SUMO4, small ubiquitin-like modifier 4, is located in the cytoplasm of cells and specifically modifies IRBA. The diseases linked to it are type 1 Diabetes, Type 2 Diabetes, nephropathy, and VKH syndrome.
Primer design
If the template contains the non-disease allele PCR should not occur. This is due to the disease-specific primer and template not binding 1oo% to the non-disease allele because the non-disease allele had a sequence of GTG, when the disease-assocoated allele has a sequence of ATG.
Feature 2: Consumables KitThe consumables kit will be held within a small b ox. This will include all the materials needed to preform a small number of PCR reactions. All items will be packaged in groups based on the item. They will then be labeled with a short description, and then they will be placed in the consumables box. This includes
Feature 3: Hardware - PCR Machine & FluorimeterIn order to create an easier teaching environment, the current PCR design has been revamped to include a clear lid. The lid will consist of both glass and plastic. The glass will be facing the samples on the inside of the lid in order to keep the samples safe from outside contaminants and regulate the temperature, and heavy duty plastic will surround the glass to give more stability to the machine.
Bonus Opportunity: What Bayesian Stats Imply About The BME100 Diagnostic ApproachWhen looking into the PCR results, it was made clear that the machine did not do the best job at predicting illness. For the percentage of people who developed the disease and also received a positive result from the machine was not a strong percentage. Unfortunately, it was not close to one, like it ideally would be. On the other hand, the people who did not develop the illness and received a negative result was closer to 1 than the prior results. While that is a much stronger result, overall the machine does not have a strong reliability. |