BME100 f2013:W1200 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: Samuel Mokdad Role(s) TinkerCAD & Design Name: Morgan Jameson Role(s) Design & Improvements Name: Tony Facchini Role(s) Data Analysis Name: Cameron Ghods Role(s) Design & Improvements Name: Evan Epperson Role(s) Design & Improvements All contributions on lab work is equal throughout the group though it may not appear in the open wetware history of contributions due to the way our group has structured our execution of lab work. All members of the group perform equal duties and contribute to the completion of all lab work. LAB 6 WRITE-UP Computer-Aided Design TinkerCAD TinkerCAD is a simplified version of AutoCAD that is used to create 3D objects and designs. The program is pretty straight forward and is an introductory program for people going into design. In this program I created a 96 well plate which I used to hold the micro test tubes. I also designed a PCR machine that was capable of holding up to 96 samples as opposed to the previous 16. This program saves designs as .stl files so they are capable of being 3D printed. Implications of Using TinkerCAD for Design A possible way of redesigning the OpenPCR machine is to make it faster, hold more samples, and more compact. We cannot show how to make it faster using TinkerCAD since that is based on the internal functions, but it would be a good improvement. What we can do is make is more efficient by increasing the number of samples it can fit. By adding a 96 well plate inside this machine will only need to be used a few times for an entire class because of the drastic increase in capacity while saving time, power, and money. When we opened up the OpenPCR machine a few classes ago we notices there was a lot of empty space inside so we could redesign it to become more compact while still being able to hold more samples be making into this shape as opposed to the taller version. This way the samples can all fit while still maintaining the components and rearranging them into shorter, but wider manner. This will then reduce the amount of material needed and save money in production costs. Feature 1: Cancer SNP-Specific Primers [Instructions: This information will come from the Week 9 exercises you did in lab. Your notes should be in a pdf file that is saved on Blackboard under your group.] Background on the cancer-associated mutation [Instructions: Use the answers from questions 3, 4, 5, and 7 to compose, in your own words, a paragraph about rs17879961] Primer design Forward Primer: [Instructions: write the sequence of the forward primer] Cancer-specific Reverse Primer: [Instructions: write the sequence of the forward primer] How the primers work: [Instructions: explain what makes the primers cancer-sequence specific. In other words, explain why the primers will amplify DNA that contains the cancer-associated SNP rs17879961, and will not exponentially amplify DNA that has the non-cancer 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.] [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.]