BME100 f2015:Group12 1030amL6: Difference between revisions
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'''What Bayes Statistics Imply about This Diagnostic Approach''' | '''What Bayes Statistics Imply about This Diagnostic Approach''' | ||
<!-- Instructions: In your own words, discuss what the results for calculations 1 and 2 imply about the reliability of the individual PCR replicates for concluding that a person has the disease SNP or not. Please do NOT type the actual numerical values here. Just refer to the Bayes values in general terms (for example, "close to 1.00 (100%)", "about 50%", "very small", etc.). --> | <!-- Instructions: In your own words, discuss what the results for calculations 1 and 2 imply about the reliability of the individual PCR replicates for concluding that a person has the disease SNP or not. Please do NOT type the actual numerical values here. Just refer to the Bayes values in general terms (for example, "close to 1.00 (100%)", "about 50%", "very small", etc.). --> | ||
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<!-- Instructions: In your own words, discuss what the results for calculations 3 and 4 imply about the reliability of PCR for *predicting the development of the disease* (diagnosis). Please do NOT type the actual numerical values here. Just refer to the Bayes values in general terms (for example, "close to 1.00 (100%)", "about 50%", "very small", etc.). --> | <!-- Instructions: In your own words, discuss what the results for calculations 3 and 4 imply about the reliability of PCR for *predicting the development of the disease* (diagnosis). Please do NOT type the actual numerical values here. Just refer to the Bayes values in general terms (for example, "close to 1.00 (100%)", "about 50%", "very small", etc.). --> | ||
Calculation 3 implies that the probability that a patient who actually has the SNP and is diagnosed with the disease will receive a positive final test conclusion is actually quite small - around 10% - indicating that the class' final conclusions were not very effective at predicting whether or not the disease would develop. In addition, the probability that a patient with a positive final test conclusion would develop the disease was similarly low. This, unfortunately, implies that false positives were common. Calculation 4 indicates that a patient without the disease will receive a negative final test conclusion was close to 40%, and that a patient with a negative final test conclusion will not develop the disease close to 40% of the time. Therefore, negative test conclusions also seemed to be fairly poor predictors of disease development. | |||
<!-- Instructions: Discuss three possible sources of human or machine/device error that could have occurred during the PCR & detection steps that could have affected the Bayes values in a negative way. --> | |||
One significant source of error in this investigation was | |||
==Intro to Computer-Aided Design== | ==Intro to Computer-Aided Design== |
Revision as of 23:45, 24 November 2015
BME 100 Fall 2015 | 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
LAB 6 WRITE-UPBayesian StatisticsOverview of the Original Diagnosis System For this lab, 17 teams of approximately 6 students each worked to diagnose a total of 34 patients. Each team was assigned two patients to complete three PCR trials on. In each group, one or two team members would handle wet lab duties such as pipetting samples and working with the fluorimeter while the remaining team members focused on ImageJ analysis.
Final Data:
Calculation 1 implies that close to 80% of patients with a positive PCR reaction will receive a positive final test conclusion, and that the reverse is also true: the probability that a patient with a positive final test conclusion has a positive PCR reaction is close to 80%. In other words, close to 80% of people for which the PCR test comes back positive will be concluded to have the SNP, and people who are concluded to have the SNP will receive positive PCR tests around 80% of the time. Similarly, calculation 2 implies that people with negative final test conclusions will receive negative PCR reaction results about 80% of the time, while patients who receive a negative PCR result will get a negative final test conclusion about 90% of the time. This slightly higher percentage may indicate that the class' results favored negative test conclusions.
Intro to Computer-Aided DesignExisting Design Assessment
Planning
TinkerCAD TinkerCAD is a simple 3D design and 3D printing that can be used by all with its simple and all encompassing array of tools. TinkerCAD provides an easy to use design studio for any and all. The essence of TinkerCAD is the use of basic building blocs and tools to construct simple or complex designs. With two simple design tools, adding shapes to your design as solids or holes and combining shapes together, creating any 3 dimensional design is at your finger tips. forming a new shape.TinkerCad also provides you with pre-existing shapes as well as the ability to upload your own. It is also possible to import a 2D image and convert it in to a 3D design that is printable. Our Design
The black box, fluorimeter and camera stand were connected together to form a more secure system that reduces the variability in the data. The whole set up can also be disassembled and placed inside the black box for easy storage
Feature 1: ConsumablesFeature 2: Hardware - PCR Machine & FluorimeterFrom our experience using the open PCR machine and the fluorimeter and others experience, we found the PCR machine to meet and and exceed portable PCR standards. This PCR machine provided us with accurate results with the variations in results due to variations in samples not inconsistent performance by your thermocycler. The compatibility with computers is also handy providing users with easy to use software where users can adjust the time and the temperature and with in hours you will have plenty of DNA for sorting and sequencing. However the fluorimeter that was used to analyze the the samples seemed to have far to many variables to be accounted for. With the fluorimeter, there were three separate moving parts to the fluorimeter, the camera stand, the actual fluorimeter, and the dark box. These three moving parts are not connected causing the high possibility of the movement of any part effecting the other moving parts position. This can effect the accuracy of the data. The camera stand, which does not stand hold the camera in the first place, had to be placed 9 to 11 inches way from the fluorimeter. The black box had to removed to place a sample on the fluorimeter and placed over the fluorimeter and camera stand to reduce outside light. This process of removing and placing the box back on did in fact bump the fluorimeter, camera stand set up, altering the set up and in the end slightly altering our data. In order to prevent this, we decided to connect the black box to the fluorimeter and the camera stand with detachable and adjustable connections combined with a weighed base to the fluorimeter to prevent unnecessary movement. Be black box would be connected to the back of the fluorimeter through a rotating hinge that would allow the user to pull back the black box and have it rest on it's back side face. This would reduce the ill effects of having to constantly remove and place the black box. For the stand we created a a more mobile phone friendly stand, that can be adjusted to the proper distance, in inches, from the fluorimeter. This whole set up can disassembled and placed in the black box for easy storage. Open PCR. No changes were made to the PCR machine The black box, fluorimeter and camera stand were connected together to form a more secure system that reduces the variability in the data.
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