BME100 s2014:T Group10 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
The Group 10s of Tomorrow Sean-Christopher Bradbury Thursday Group 10 Member Suyen Go Thursday Group 10 Member Nathaniel Kirkpatrick Thursday Group 10 Member Maya Robinson Thursday Group 10 Member Lissette Valle Thursday Group 10 Member The Group 10s of Tomorrow presents: OpenerPCR Duluxe LAB 6 WRITE-UP Computer-Aided Design TinkerCAD [Instructions: A short summary (up to five sentences) of the TinkerCAD tool and how you used it in lab on November 20th] TinkerCAD is a 3D imaging software used to create three-dimensional models and designs with ease. Those models can then be printed using a 3D printer. Our Design [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.] The disease for the SNP-specific primers derives from the variation of single nucleotide polymorphisms that varies throughout a variation of species. Through this source of genetic specification scientists are able to detect a single has pair mutation simply from a specific locus. Since the loci of a humans genetic code has been conserved during evolution this can serve as a quantitative trait analysis when evaluation the affirmation of a certain disease. Harbron, Rapley S. "SNP Genotyping." Wikipedia. Wikimedia Foundation, 18 Apr. 2014. Web. 21 Apr. 2014. [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 [Instructions: Summarize how the consumables will be packaged in your kit. You may add a schematic image. An image is OPTIONAL and will not get bonus points, but it will make your report look awesome and easy to score.] The consumables in the improved PCR machine will consist increasing the amount of samples which will elad to also increasing the amount of consumables needed in the process. This will not only make amount of samples larger retains essential data such as negative and positive controls. The PCR machine will consist of: PCR Tubes(32) PCR Reaction Mix(32 with 50 μL each) Template DNA with Primer(32) Positive Control(1) Negative Control(1) Patient 1 DNA with primer (3 replicates) Patient 2 DNA with primer (3 replicates) Patient 3 DNA with primer (3 replicates) Patient 4 DNA with primer (3 replicates) Patient 5 DNA with primer (3 replicates) Patient 6 DNA with primer (3 replicates) Patient 7 DNA with primer (3 replicates) Patient 8 DNA with primer (3 replicates) Patient 9 DNA with primer (3 replicates) Patient 10 DNA with primer (3 replicates) 200μL Micropipeter Disposable Tips [Instructions: IF your consumables packaging plan addresses any major weakness(es), explain how in an additional paragraph.] The weakness of doubling the tubes that will be tested at one time will be keeping track of which tube is which because there are so many tubes that have to be accounted for. In the midst of tracking the data, tubes will be easily confused and possibly identified as a wrong subject or replicate.The packaging plan addresses weaknesses confusion of the tubes in the rack. Our tube rack will contain clear labels identifying the patients and the replicates. 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.] The PCR machine will be doubled therefore being able to test more two and a half as much subject compared to the original version. The amount of tubes will be doubled [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.]