BME100 f2013:W900 Group3 L6

BME 100 Fall 2013	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 Name: Marissa Kulick Name: Blake Woods Name: Shaun Wootten Name: Bryce Gonzales Thermo Diagnostics LAB 6 WRITE-UP Computer-Aided Design TinkerCAD TinkerCAD was is a free online tool used to create simple 3D files that can be saved as .stl which can be used in more advanced programs or even 3d printed. On Nov 20th, we used it to quickly mock up an alteration to the concept of the flourimeter, which we thought was a little to big and bulky. Not only did the program allow us to include a visual document in the report, but it also allowed our team members to more effectively communicate the concepts that were difficult to explain in words. Above is the redesigned PCR tubes that were both connected and reoriented using TinkerCAD software Implications of Using TinkerCAD for Design The redesign of the flourimeter was done using TinkerCAD software. The speed and simplicity at which a 3D technical image can be created allowed for team members to do more in less time. While the mock up wasn't anything that was ready to be printed and utilized as is, it did perfectly illustrate a concept and allow the team to all be on the same page in the redesign. If it was required, it would be possible to create a .stl file with enough precision to 3D print much of the flourimeter turning out a working prototype in less than a day. Feature 1: Cancer SNP-Specific Primers Background on the cancer-associated mutation rs17879961 is a pathogenic mutation found on the 22nd chromosome of homo sapiens. SNPs in the CHEK2 gene have been linked to inheritable cancer, as the gene normally produces a protein called checkpoint kinase 2, which is a tumor suppressing protein. Primer design Forward Primer: A C T C A C T T A A A C C A T A T T C T Cancer-specific Reverse Primer: G G T C C T A A A A A C T C T T A C A C How the primers work: Primers are designed sequences of DNA that allow for specificity in reproducing genetic material. The primers will bind around the gene of interest, before desired section of DNA on both strands. Two strands are needed because while the two strands are compliments of each other, they are not identical. In addition, DNA has to be extended in the 3' direction by the primase, and therefore will need to sit over a separate portion of the DNA. By choosing a primer of approximately 20 base pairs, there is enough specificity to ensure that only the gene of interest is extended. 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.] [Instructions: IF your consumables packaging plan addresses any major weakness discussed by your group or mentioned by others (see the Virtual Comment Board Powerpoint files on Blackboard, Lab Week 12) explain how in an additional paragraph.] Feature 3: PCR Machine Hardware [Instructions: Summarize how you will include the PCR machine 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 to address any major weakness discussed by your group or mentioned by others (see the Virtual Comment Board Powerpoint files on Blackboard, Lab Week 12) explain how in an additional paragraph.] Feature 4: Fluorimeter Hardware [Instructions: Summarize how you will include the 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 REALLY awesome and easy to score.] [Instructions: IF your group has decided to redesign the fluorimeter to address any major weakness discussed by your group or mentioned by others (see the Virtual Comment Board Powerpoint files on Blackboard, Lab Week 12) 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 CHEK2 PCR for predicting cancer. Please do NOT type the actual numerical values here. Just refer to them as being "less than one" or "very small." The instructors will ask you to submit your actual calculations via e-mail. We are doing so for the sake of academic integrity and to curb any temptation to cheat.]