BME100 s2014:T Group5 L6

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
goPCR Name: Keerthana Murali Name: Stephanie DiIullo Name: Melissa Thomas Name: Supreet Kaur LAB 6 WRITE-UP Computer-Aided Design TinkerCAD We used the TinkerCAD tool in lab on April 17th to create a design of the changes we would make to the PCR machine. We went to Thingiverse and imported a file of the main heating block of the Open PCR machine that was posted on the internet. When it was imported into TinkerCAD, we were then able to make adjustments to the main heating block. [Instructions: A short summary (up to five sentences) of the TinkerCAD tool and how you used it in lab on November 20th] Our Design Top View Side View [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 Primers [Instructions: This information will come from the exercises you did in PCR Lab B.] Background on the disease-associated mutation [Instructions: Use the answers from questions 3 - 7 to compose, in your own words, a paragraph about rs237025] Primer design Disease SNP-specific Forward Primer: [Instructions: type the sequence of the forward primer] Reverse Primer: [Instructions: type the sequence of the reverse primer] 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.] Feature 2: Consumables Kit [Along with the PCR a consumables kit would come with it to decrease the confusion in the experiement and decrease clutter of all the separetely grabbed consumables. Also the tubes will be color coded in order to distinguish different groups of samples used in the experiment better. The tube with the primers will also be prelabeled. The tube containing the SYBR green will be included in the set in a black tube. This will allow no light to reach it because it is photosensitive. The tube will also have a white surface for labeling that will hold marker better. The micro pipetter would be included in the kit but packaged in another box within so it does not break. The kit will also include a pamphlet with the functions of all the materials and PCR tips and tricks. The kit will contain all the materials used in the lab and each material will be packaged seperate and labeled within the kit. Consumables Kit: - Colored/white blank label PCR tubes - Pre labeled primer tubes - SYBR green in black tubes - Micro Pipette - Tips - Pamphlet.] [Instructions: IF your consumables packaging plan addresses any major weakness(es), explain how in an additional paragraph.] 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.] Bonus Opportunity: What Bayesian Stats Imply About The BME100 Diagnostic Approach [Instructions: This section is OPTIONAL, and will get bonus points if answered thoroughly and correctly. Here is a chance to flex some intellectual muscle. In your own words, discuss what the results for calculations 3 and 4 imply about the reliability of PCR for predicting the disease. Please do NOT type the actual numerical values here. Just refer to them as being "close to one" or "very small." The instructors will ask you to submit your actual calculations via a Blackboard quiz. We are doing so for the sake of academic integrity and to curb any temptation to cheat.]