BME103 s2013:T900 Group4 L3

BME 103 Spring 2013	Home People Lab Write-Up 1 Lab Write-Up 2 Lab Write-Up 3 Course Logistics For Instructors Photos Wiki Editing Help
OUR TEAM Name: Kinjal Ahir Role:Protocol Name: Student Role(s) Name: Student Role(s) Name: Student Role(s) Name: Student Role(s) LAB 3 WRITE-UP Original System: PCR Results PCR Test Results Sample Name Ave. INTDEN* Calculated μg/mL Conclusion (pos/neg) Positive Control --- --- N/A Negative Control --- --- N/A Tube Label:___ Patient ID: ____ rep 1 --- --- --- Tube Label:___ Patient ID: ____ rep 2 --- --- --- Tube Label:___ Patient ID: ____ rep 3 --- --- --- Tube Label:___ Patient ID: ____ rep 1 --- --- --- Tube Label:___ Patient ID: ____ rep 2 --- --- --- Tube Label:___ Patient ID: ____ rep 3 --- --- --- * Ave. INTDEN = Average of ImageJ integrated density values from three Fluorimeter images Bayesian Statistics These following conditional statistics are based upon all of the DNA detection system results that were obtained in the PCR lab for 20 hypothetical patients who were diagnosed as either having cancer or not having cancer. Bayes Theorem equation: P(A|B) = P(B|A) * P(A) / P(B) Calculation 1: The probability that the sample actually has the cancer DNA sequence, given a positive diagnostic signal. A = [text description] = [frequency shown as a fraction] = [final numerical value] B = [text description] = [frequency shown as a fraction] = [final numerical value] P (B|A) = [text description] = [frequency shown as a fraction] = [final numerical value] P(A|B) = [answer] Calculation 3: The probability that the patient will develop cancer, given a cancer DNA sequence. A = [text description] = [frequency shown as a fraction] = [final numerical value] B = [text description] = [frequency shown as a fraction] = [final numerical value] P (B|A) = [text description] = [frequency shown as a fraction] = [final numerical value] P(A|B) = [answer] New System: Design Strategy We concluded that a good system Must Have: [Must have #1 - why? short, ~4 or 5 sentences] [Must have #2 - why? short, ~4 or 5 sentences] - Simple OpenPCR Software: The OpenPCR Software shoulder be simple and easy to use and that would help lab experiments done faster, rather than the need to spend extra time to figure out how the software works. We concluded that we would Want a good system to have: [Want #1 - why? short, ~4 or 5 sentences] [Want #2 - why? short, ~4 or 5 sentences] - Low cost: OpenPCR $599 Fluorimeter $300. A low cost material would help since there is always a limited budge for the research experiment. This would allow us to buy more OpenPCR and fluorimeter and create more data results in the same amount of time. Phone camera should not be easily moveable when played in front of the fluorimeter. Phone camera adjustment can be time consuming and not setting it in the correct position/distance results data error. There should be an extra modification where the camera should be in a fixed position and distance and easily re-adjustable. We concluded that a good system Must Not Have: [Must Not Have #1 - why? short, ~4 or 5 sentences] [Must Not Have #2 - why? short, ~4 or 5 sentences] We concluded that a good system Should Avoid: [Should Avoid #1 - why? short, ~4 or 5 sentences] [Should Avoid #2 - why? short, ~4 or 5 sentences] New System: Machine/ Device Engineering SYSTEM DESIGN KEY FEATURES We chose to include these new features Feature 1 - explanation of how this addresses any of the specifications in the "New System: Design Strategy" section Feature 2 - explanation of how this addresses any of the specifications in the "New System: Design Strategy" section Etc. [OR] We chose keep the devices the same as the original system Feature 1 - explanation of how a pre-existing feature addresses any of the specifications in the "New System: Design Strategy" section Feature 2 - explanation of how a pre-existing feature addresses any of the specifications in the "New System: Design Strategy" section Etc. INSTRUCTIONS New System: Protocols DESIGN We chose to include these new approaches/ features Feature 1 - explanation of how this addresses any of the specifications in the "New System: Design Strategy" section Feature 2 - explanation of how this addresses any of the specifications in the "New System: Design Strategy" section Etc. [OR] We chose keep the protocols the same as the original system Feature 1 - explanation of how a pre-existing feature addresses any of the specifications in the "New System: Design Strategy" section Feature 2 - explanation of how a pre-existing feature addresses any of the specifications in the "New System: Design Strategy" section Etc. MATERIALS Supplied in the Kit Amout Smart phone Reaction mix given more for more reactions Battery Software Supplied in the User Amout Filter water SYBR Green Primers DNA sample (negative and positive) PROTOCOLS PCR Protocol Step 1: Reaction mix Step 2: Add 2.5 μL of negative and positive DNA sample Step 3: Fluorometer gave the sample result DNA Measurement and Analysis Protocol Step 1: Step 2: Step 3: New System: Research and Development BACKGROUND DESIGN Primers for PCR Our primers address the following design needs Design specification 1 - explanation of how an aspect of the primers addresses any of the specifications in the "New System: Design Strategy" section Design specification 2 - explanation of how an aspect of the primers addresses any of the specifications in the "New System: Design Strategy" section Etc. New System: Software [THIS SECTION IS OPTIONAL. If your team has creative ideas for new software, and new software is a key component included in your new protocols, R&D, or machine design, you may describe it here. You will not receive bonus points, but a solid effort may raise your overall page layout points. If you decide not to propose new software, please delete this entire section, including the ==New System: Software== header.]