BME100 f2018:Group6 T1030 L6

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OUR TEAM

Name: Anna Haworth
Name: Adriana Gillespie
Name: Siris Smith
Name: Sarah Ruby
Name:Zachery Shropshire


LAB 6 WRITE-UP

Bayesian Statistics

Overview of the Original Diagnosis System

In BME 100 lab, 17 teams took 34 patients' DNA samples were tested for the single nucleotide polymorphism associated with Parkinson's Disease. Each group got 2 patient samples and a positive and negative sample. They ran a total of 8 samples: 3 runs of the first patient, 3 runs of the second patient, and a positive and negative control. We ran patient samples 3 times to make sure the error in our results were minimal. We also compared our samples to the positive and negative control to verify the presence or no presence of the SYBR green color. We viewed our samples in a fluorimeter with SYBR Green I added to the sample so we could watch the sample's fluorescent color if it was positive or no color if it was negative. We took pictures of our samples and processed them in ImageJ. We calibrated ImageJ using Calf Thymus DNA solution and SYBR green I and measured the different ranges of green color with different DNA concentrations. The classes' final data was kept in a spreadsheet with the doctor's conclusion and our conclusion. We analyzed the accuracy of our results using Bayesian statistics.


What Bayes Statistics Imply about This Diagnostic Approach


The probability of a patient getting a positive final test conclusion, given a positive PCR reaction and the probability of a patient getting a negative final test conclusion, given a negative PCR reaction were close to 1.00. This means that our tests were pretty relaible.


The probability that the patient will develop the disease, given a positive final test conclusion, was less than 0.5, meaning they are likely to not develop the disease. The probability that the patient will not develop the disease, given a negative final test conclusion, was very close to 1.00. This means that the patient will not develop Parkinson's disease given a negative test result.


Intro to Computer-Aided Design

3D Modeling


Our Design





Feature 1: Consumables

The following items will be included in the kit provided by the manufacturer:

-25 Plastic PCR test capsules: These allow for the mixture of DNA and reaction fluids as well as .

-Primer mix and acting reagents within the PCR reaction: Catalyze the reactions and allow for measurement.

-3 Stainless Steel micro pipette tips: Reusable micro pipette tips that can be sterilized in an autoclave.

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Feature 2: Hardware - PCR Machine & Fluorimeter

The AZS PCR machine that we have implemented into our idea or new concept would be a stainless steel, eco-friendly, robotic machine. This particular way of robotics will lessen the human mistakes made in the wet lab. Also, this machine will self-clean all stainless steel pipette tips used to transfer the gene mix used inside the PCR machine into the stainless steel tubes with fitted caps or lids.