BME100 f2013:W1200 Group6 L6: Difference between revisions
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==Feature 4: Fluorimeter Hardware== | ==Feature 4: Fluorimeter Hardware== | ||
The fluorimeter will be using its same methods when its incorporated in the system design. It will still detect DNA in the our system and transmit light that will detect a | The fluorimeter will be using its same methods when its incorporated in the system design. It will still detect DNA in the our system and transmit light that will detect a fluorescence for a concentration of DNA. The added changes to the fluorimeter will make it more efficient and easier to use. Such as adding grips and connecting the cradle to the fluorimeter box. | ||
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First | First, the entire bottom of the fluorimeter will be fitted with a material that serves as a grip. This will prevent the box from moving easily reducing error. It will also have an additional adjustable plate that will connect from the fluorimeter box to the cradle that holds the phone. This will help with the problem of having to adjust the distance every time the Fluorimeter is used with the same phone. Also there will be an app on the apple or android market specifically for the Fluorimeter Hardware. The app will have a camera application and when it is opened it will be set to the most optimized setting for taking pictures of the DNA. When the pictures are taken they can be automatically uploaded wirelessly to the computer ready for imageJ. This will reduce the time of uploading photos and making the Fluorimeter more efficient. | ||
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Weaknesses:<br> | Weaknesses:<br> | ||
1. The Fluorimeter was not very stable when adjusting the slides | 1. The Fluorimeter was not very stable when adjusting the slides because it moved very easily. <br> | ||
2. | 2. It was tedious and took too long to analyze the data. | ||
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Revision as of 01:23, 27 November 2013
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 COMPANYLAB 6 WRITE-UPComputer-Aided DesignTinkerCAD TinkerCAD is an online site that allows the user to create 3D designs easily. By combining and manipulation basic shapes, any design can be created. There are special tools and shapes that allow the user to create precise details. Once designed, it can be sent to a 3D printer to get a physical model by using a standard STL file.
We used TinkerCAD to modify a set of tubes used in PCR.
Feature 1: Cancer SNP-Specific PrimersBackground on the cancer-associated mutation A genome is an organism's entire genetic makeup. The human genome is composed of billions of base pairs. When the genome is copied to make a new cell it is not always perfect because a single base pair may: get deleted, added, or substituted. An example of this is when one DNA sequence is CTAAGTA and the other DNA sequence is CTAGGTA (this sequence should be CTAAGTA). The two DNA sequences seem identical; however, they differ at one nucleotide position. Variation or mutation in a single base pair creates a single nucleotide polymorphism (SNP). Our DNA is actually made up of millions of SNPs; this accounts for the many differences (e.g. physical characteristics, development of diseases or our systems’ response to pharmaceutical drugs) we have to each other. Furthermore, the SNP rs17879961 is linked to a high risk of cancers to homo sapiens. It commonly occurs on chromosome number 22 with a clinical significance of a pathogenic allele (i.e. it is in the human gene checkpoint kinase 2 or also called CHEK2). The CHEK2 gene provides codes for making proteins called checkpoint kinase 2. Checkpoint kinase 2 is stimulated when the dsDNA is damaged for whatever reason (e.g. disturbance of homeostasis). Ultimately, it acts as a tumor suppressor by inhibiting cancer cells from rapidly dividing and affecting healthy cells. Primer design
How the primers work: Feature 2: Consumables Kit
We will use a cardboard box with a styrofoam block in the inside to safely protect the materials. The micropipette, primer and mix will be held in place so that it will not move during packaging. Also, there will be plastic baggies to hold the tubes so that the kit is neatly organized and nothing gets mixed around. On the side of the styrofoam box will be the instructions manual. The outside of the box will have pictures that will demonstrate its uses and make it look professional.The logo and slogan will also be displayed on the outside of the box in a prominent position.
Feature 3: PCR Machine Hardware
Feature 4: Fluorimeter HardwareThe fluorimeter will be using its same methods when its incorporated in the system design. It will still detect DNA in the our system and transmit light that will detect a fluorescence for a concentration of DNA. The added changes to the fluorimeter will make it more efficient and easier to use. Such as adding grips and connecting the cradle to the fluorimeter box.
Bonus Opportunity: What Bayesian Stats Imply About The BME100 Diagnostic Approach
Calculation 4 tests specificity. It analyzes the probability that the patient will not develop cancer, given a non-cancer DNA sequence. Our result from calculation 4 was larger than calculation 3, but still not close to 1. So, a non-cancerous DNA would often still return a positive result.
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