BME100 f2013:W900 Group16 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 Laura Stanovich Aakriti Gupta Meilin Ossanna Paul Lim Kevin Liao LAB 6 WRITE-UP Computer-Aided Design TinkerCAD In this lab, TinkerCAD was used to make changes to the micropipette tubes. In the original design, it was difficult to determine which tube went to which material, and in order to fix this, numbers were added on the side of the tubes. To complete this, the main tool used was the change of workplane. The workplane was changed to be flat against the side of the tubes so that numbers could be directly written on the surface. The tool to change colors was also used to make them all uniform in the set. Implications of Using TinkerCAD for Design Because of the errors created with the camera holder, it would be more practical to change the design so that it is easier to use. This could easily be completed on TinkerCAD because the current version could be modified into one that would be easier to use. One idea for this would be to make it so that the camera holder slides out from the fluorimeter so that it is able to stay a constant distance away without being moved. Also, it would be beneficial for the phone to be standing completely upright when the images are being taken. This would result in a clearer picture that is able to correctly detect the amount of light in each drop of substance. To demonstrate this on TinkerCAD, new shapes could be added in order to demonstrate how the camera holder would slide out from the fluorimeter. Also, The front of the camera stand could be extended to be completely vertical and taller to have a straight on picture of the device. 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 The consumables, such as the micro-pipette tubes, micro-pipette, tips, PCR primers, and PCR mix will be packaged in an unfoldable box that functions as a "mini-lab station". The micro-pipette tubes will be packaged and stored in micro-pipette tube racks that are built into the sides of the box. While the racks can stay on the sides of the box, they are also removable so the individual can place the racks on the table to have better access the tubes during the experiment. The micro-pipette tubes will also have a non-glossy, smear-free section of the side to make labeling each tube easier. A black foam stand with holes to insert micro-pipette tubes into is also included. Similar to the design of a micro-pipette tip holder, this stand is intended to hold micro-pipette tubes that have PCR mixtures, primers, and SBYR green. The PCR mixtures and primers will come in clear bottles and will be stored in a black foam stand. Difficulty labeling micro-pipette tubes and larger tubes, bleaching of SYBR green, and disorganization of the lab materials are some of the problems within the current consumables system. The new packaging will solve some of these problems. The unfoldable box serves as a “mini-lab station”. Each of the items needed to conduct the experiment has a specific storage place and is easily removable when needed in the lab process. This will help keep materials organized throughout the experiment. The addition of a non-glossy coating to the outside of the micro-pipette tubes will allow individuals to properly label each tube without the worry that the writing will rub off. The black foam stands are designed to prevent bleaching of SYBR green and other PCR related mixtures. By keeping the tubes and bottles in the dark and away from the fluorescent lights above, the mixtures will have less of a chance of bleaching and ruining lab results. The stands should be used during experiments so the tubes are easily accessible but are also protected from the surrounding environment. 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.]