BME100 s2016:Group7 W1030AM L6

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Lab Write-Up 1 | Lab Write-Up 2 | Lab Write-Up 3
Lab Write-Up 4 | Lab Write-Up 5 | Lab Write-Up 6
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Name: Milan Patel
Name: Ryan Masayesva
Name: student
Name: student
Name: student
Name: student


Bayesian Statistics

Overview of the Original Diagnosis System

What Bayes Statistics Imply about This Diagnostic Approach

In calculation.1, basically it demonstrates the the chances of an individual whose PCR reaction is positive. Meaning that their chances of enhancing the disease is close to 1.00. On the other hand, calculation.2 concludes how a patient is receiving the disease negatively by almost very large. In other words, there is a huge possibility that the patients with negative PCR reaction are not developing SNP.

In calculation.3, however, it shows the probability that an individual to develop the disease is about 50%. That is only very slight prediction that patients who concluded by having the disease may or may may not develop the disease. Calculation.4 indicates the probability that a person will not get the disease more that 100%. Meaning that the chance a patient who has been tested will not be developing the disease as well as showing it is 100% negative.

To conclude, there are such errors that would lead the experiment to be redone which ultimately affect the Bayes values. Lack of knowledge of using the machine given to test the patients samples, not precisely placing the samples given onto the fluorimeter, and data collections can be fragile as well. Those are some of the major errors that the group members have come across during this experiment.

Intro to Computer-Aided Design


TinkerCAD is a simple beginners computer automated design program. TinkerCAD is an online 3D design and printing tool for the masses.We used TinkerCAD to quickly put together a model of the PCR machine.

Our Design

Design frontview.png Design topview.jpg
The design we chose to implement was adding a tube holder to the side of the pcr device. We chose this because it would add a lot of utility to the device and make the pcr process easier. This design is different from the original because it features a side slot that can hold tubes that would be used during the pcr process.

Feature 1: Consumables

Our Kit
The consumables kit will consist of all the necessary reagents, pre-labeled plastic tubes, glass slides, and optional micropipettes. The included reagents will consist of PCR reaction mix, positive and negative control DNA, buffer, SYBR Green solution, and Calf Thymus calibration DNA. The template DNA for the samples will be provided by the customer. All the reagents will come in pre-labeled plastic tubes so they can be easily identified. There will also be additional plastic tubes that can be easily self labeled to complete the PCR reactions and mix reagents with samples to be analyzed with the fluorimeter. Glass slides will also be provided for when the DNA is analyzed using the fluorimeter. Lastly, micropipettes will be an optional add on that can be applied by the customer when ordering the kit.

Feature 2: Hardware - PCR Machine & Fluorimeter

PCR Machine
To improve the PCR machine we were given to use during the lab, we can change the wood to a lighter weight plastic to keep the machine sturdy and durable. Also, we could add in spacers with a lock clip instead of an adjustable knob on the top so the spacing is perfect every time. Often time, people may tighten the knob too tight or not tighten it enough, leaving errors in the lab. Next, we would add in a more advanced screen, rather than a pixelated screen, we would change it out with a touch screen. The machine itself has many cords and wires coming from in that plug into computers, digital readers, and even power sources; we can make the PCR machine completely cordless by making the power source, batteries, we can connect the machine to the computer by using Bluetooth or a similar wireless connection. Fluorimeter
Our redesigned fluorimeter will include two features that address two weaknesses of the original hardware. First, the camera cradle will be redesigned so it can be compatible with most popular smart phones. This will allow the cradle to have its length and width adjusted to accommodate for different smart phone dimensions. The cradle will also be able to be raised and lowered to the camera on the smart phone is properly aligned with the drop that is being analyzed on the glass slide. The second feature will allow for the glass slide to be placed on a tray on the fluorimeter to allow the slide to be moved side to side. This will allow for the glass slide to be moved side to side with little effort when switching to a new sample or replacing the glass slide.

The original fluorimeter hardware included a cradle that was not compatible with the iPhone or any other popular smart phone. This was a major design flaw and our group had to use an alternate method to align the camera with the drop that was being analyzed. Also, the fluorimeter had a a little slit that that glass slide was inserted into and was very stiff. This made the glass slide difficult to move when placed in the fluorimeter and did not allow for easy removal or insertion.