# BME103 s2013:T900 Group6 L3

(Difference between revisions)
 Revision as of 20:52, 15 April 2013 (view source) (→Original System: PCR Results)← Previous diff Revision as of 21:14, 15 April 2013 (view source) (→Original System: PCR Results)Next diff → Line 58: Line 58: * A = Frequency of positive conclusions from cancer DNA sequence = 9/20 = .45 * A = Frequency of positive conclusions from cancer DNA sequence = 9/20 = .45 * B = Frequency of Total Positive DNA sequences = 26/60 = .433 * B = Frequency of Total Positive DNA sequences = 26/60 = .433 - * P (B|A) = Frequency of total positive DNA sequences given a positive conclusion =  25/26 = [.962 + * P (B|A) = Frequency of total positive DNA sequences given a positive conclusion =  25/26 = .962 * '''P(A|B) = .962''' * '''P(A|B) = .962'''

Line 71: Line 71: Calculation 3: The probability that the patient will develop cancer, given a cancer DNA sequence.
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] + * A = Frequency of a mismatch for pos = 3/9 = .33 - * B = [text description] = [frequency shown as a fraction] = [final numerical value] + * B = Frequency of all mismatches = 5/9 = .55 - * P (B|A) = [text description] = [frequency shown as a fraction] = [final numerical value] + * P (B|A) = Probability patient will get cancer = 3/10 = .3 - * '''P(A|B) = [answer]''' + * '''P(A|B) = .3'''

## Revision as of 21:14, 15 April 2013

BME 103 Spring 2013 Home
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# OUR TEAM

 Name: Cyril Wassef - Design Strategy-Machine/Device Engineer Name: StudentRole(s) Name: StudentRole(s) Name: StudentRole(s) Name: StudentRole(s)

# LAB 3 WRITE-UP

## Original System: PCR Results

PCR Test Results

 Sample Name Ave. INTDEN* Calculated μg/mL Conclusion (pos/neg) Positive Control 7301649 62.48 N/A Negative Control 3786507.33 29.57 N/A Tube Label: 1-1 Patient ID: 72537 rep 1 7457625.66 63.94 pos Tube Label: 1-2 Patient ID: 72537 rep 2 9087739.66 79.2 pos Tube Label: 1-3Patient ID: 72537 rep 3 4817516.33 39.23 neg Tube Label: 2-1 Patient ID: 74083 rep 1 3558606.33 27.44 neg Tube Label: 2-2 Patient ID: 74083 rep 2 4247969.66 33.89 neg Tube Label:2-3 Patient ID: 74083 rep 3 4704281 38.17 neg

* 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 = Frequency of positive conclusions from cancer DNA sequence = 9/20 = .45
• B = Frequency of Total Positive DNA sequences = 26/60 = .433
• P (B|A) = Frequency of total positive DNA sequences given a positive conclusion = 25/26 = .962
• P(A|B) = .962

Calculation 3: The probability that the patient will develop cancer, given a cancer DNA sequence.

• A = Frequency of a mismatch for pos = 3/9 = .33
• B = Frequency of all mismatches = 5/9 = .55
• P (B|A) = Probability patient will get cancer = 3/10 = .3
• P(A|B) = .3

## 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]

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]

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

PROTOCOLS

• PCR Protocol
1. Step 1
2. Step 2
3. Etc.

• DNA Measurement and Analysis Protocol
1. Step 1
2. Step 2
3. Etc.

## 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.]