BME100 f2017:Group13 W0800 L6

BME 100 Fall 2017	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: Devika Dileep Name: Frida Kaellgren Name: Stone Xia Name: Majdi Othman Name: Benjamin Pitts Our Product: FluoriPic LAB 6 WRITE-UP Bayesian Statistics Overview of the Original Diagnosis System The division of labor was effective and organized. Teams of 2 and 3 were easily made from 5 person groups to tackle several tasks at once and with precision. The fact that there were 17 groups solidified the reliability of the results. However, having 34 patients may have led to some disorganization, but for the most part, the groups were able to keep track of everything. When replicates are used, the reliability of the data goes up because the data recorded is similar and consistent. The PCR machines and setups were kept consistent in settings and directions. Each drop was processed by Image J and there were three images for each trial. This ensured total accuracy by the program. The number of images confirmed that the camera was not faulty and that the recordings of the results were entirely accurate. As for the calculations, having so many things to count may have led to some confusion, so a system on Excel would have been helpful for counting conclusions and results. The class’ final data was consistent in all groups and did not vary much, even without accounting for human error or different readings. What Bayes Statistics Imply about This Diagnostic Approach Calculation 1 fell between .5 and 1, close to 80%. Calculation 1 found the frequency of positive conclusions given PCR positives. This calculation gives an implication of how reliable the PCR replicates were in concluding if the patient is positive for the disease, SNP. Given that the calculation was closer to 1 than .5, it can be implied that the PCR replicates are reliable in determining if the patient is positive for the disease if the replicates have positive results. Calculation 2 is very close to 1 or 100%. Calculation 2 found the frequency of negative conclusions given PCR negatives. This calculation gives an implication of how reliable the PCR replicates were in concluding if the patient is negative for the disease, SNP. Since the calculation was very close to 100% it can be implied that the PCR replicates were highly reliable in determining if the patient does not have the disease if the replicates have negative results. Calculation 3 regarded “yes” diagnosis given positive conclusions. Calculation 3’s value is close to .5, or 50%, meaning the PCR replicants are reliable in positive diagnosis of a patient about half the time. Calculation 4 regarded “no” diagnosis given negative conclusions. The value for calculation 4 is close 1, or 100%, meaning the PCR replicants were very reliable in negative diagnosis of a patient. Calculations 1 and 3 showed the sensitivity of the PCR reactions. Calculations 2 and 4 showed the specificity of the PCR reactions. Intro to Computer-Aided Design 3D Modeling Our group decided to use Solidworks to build a 3D model of our product because a few of our members had experience with the program from other classes. We started the design by recreating the original fluorimeter as a Solidworks drawing. This was done by simply drawing a square, extruding it into a 3D model, and adding details through the fillet, shell, extruded cut, and intersect features. Then, we created our design in a separate document using similar methods. After all the parts were complete, we assembled them into the final product by using the assembly feature. By using the mate feature, we were able to connect all of the pieces together in the proper 3D orientation. Overall, we thought that Solidworks is a great program because it allows us to draw a blueprint of our product in 3D. It is easy to learn and extremely helpful in creating complicated designs. Our Design FluoriPic For our design, we improvised the fluorimeter and attached an adjustable phone holder. The phone holder has adjustable clamps that can slide in and out of place in order to accommodate any phone size. The phone holder can slide out of the fluorimeter box. This way, the phone will always be at a fixed length away from the fluorimeter and will not cause any variation between pictures of the drops. We also rearranged the orientation of the holder of the hydrophobic glass slides so that the slides will be visible to where the phone will be. The holder was also placed as far as it could from the phone so that the phone would not be too close to the drops. The main reasons for this design is to eliminate the error of having the phone at varying distances from the drops and fluorimeter. We also designed it with the intent of being able to hold any smartphone, regardless of its varying sizes. From the original OpenPCR design, we are keeping the PCR machine the same and only improving upon the design of the fluorimeter. The dimensions of the box is similar to the one used in the original lab, 15cm x 9cm x 5cm. The orientation and location of the glass slide holder is different, as well as the addition of the adjustable phone holder. Feature 1: Consumables Our kit will include: PCR Reaction Mix (primer & buffer, etc) SYBR Green dye Two rows of 8 empty PCR tubes 5 Hydrophobic glass slides Our PCR kit kit will include 8 tubes of 50 μL PCR reaction mix, SYBR Green dye, two rows of 8 empty PCR tubes, and 5 fluorimeter slides. The PCR mix is a primer and buffer solution, the dye serves as an indicator, and the empty tubes serve as a container for the solutions. The tubes are designed to fit the standard PCR Machines. The glass slides are used for capturing fluorescence detection in the fluorimeter. The kit does not provide everything needed for the PCR test. In addition to what is provided in the kit, the user will also need a micro pipette and about 50 pipette tips. Feature 2: Hardware - PCR Machine & Fluorimeter Both the Open PCR machine and the fluorimeter will still be used in the system. Both components are essential to successfully complete the lab. The new system will include the improvised version of the fluorimeter, the FluoriPic, that was designed to make the procedure during the fluorimeter part of the lab easier. The FluoriPic will include a phone holder attachment that is easily adjustable to fit all phone sizes. The Open PCR machine will be the same as the one used in the original lab setup. The redesign of the fluorimeter is to address the issue of accidentally moving and placing the phone at varying distances from the fluorimeter in the original lab. With the new design, the phone will be placed into a holder that slides out of the fluorimeter box. This way, the phone will always be placed the same distance and angle from the glass slide. The improvised fluorimeter will also make the process go much smoother as the phone will be supported to be upright and will not move from its initial placement. The design is also not bulky as the phone holder can slide back into the box and the clamps can be tucked back in. With this small addition, the fluorimeter will bring more convenience to the PCR test.