BME103 s2013:TEMPwu3

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(LAB 2 WRITE-UP)
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=LAB 2 WRITE-UP=
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=LAB 3 WRITE-UP=
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==Original System: PCR Results==
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==Background Information==
 
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==New System: Machine/ Device Engineering==
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<!-- This is the Machine operator's section -->
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'''SYBR Green Dye'''<br>
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'''KEY FEATURES'''<br>
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''[A short summary describing SYBR green dye]''<br>
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 +
'''We concluded that our new system must have:'''
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* [Must have #1 and why]
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* [Must have #2 and why]
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'''Single-Drop Fluorimeter'''<br>
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'''We concluded that our new system must not have:'''
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''[A description of the single-drop fluorimeter device. Add a PHOTO for bonus points]''<br>
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* [Must not have #1 and why]
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* [Must not have #2 and why]
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'''How the Fluorescence Technique Works'''<br>
 
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''[In your own words, a summary of the information from page 9 of the worksheet]''
 
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'''Instructions'''<br>
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<br>
 
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<!-- Note: Be sure to delete the text in brackets: ''[ ]'' -->
 
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==Procedure==
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<!--- From Week 4 exercise --->
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'''Smart Phone Camera Settings'''<br>
 
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* ''[The type of smart phone you used and how you adjusted the camera settings, if applicable (see worksheet page 4).]''
 
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** Flash:
 
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** ISO setting:
 
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** White Balance:
 
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** Exposure:
 
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** Saturation:
 
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** Contrast:
 
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* ''[If you used an additional phone, describe the other type of smart phone you used and how you adjusted the camera settings, if applicable (see worksheet page 4).]''
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<br><br>
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** Flash:
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** ISO setting:
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** White Balance:
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** Exposure:
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** Saturation:
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** Contrast:
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==Protocols==
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'''Calibration'''<br>
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<!--- Design a new protocol based on your group's new PCR design. Make a step-by-step list of how someone should use your method
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Things to consider:
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How should the PCR machine be set up? Does it need to be plugged in?
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How many samples will fit into a single 2-hour run?
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How many replicates should be created per patient?
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What should the final volume of the reaction be?
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Will signal reading be integrated into the PCR machine or remain separate?
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If it is separate, you will need to include instructions on how to use the fluorimeter.
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How should the user calculate the about of signal amplified?
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etc.
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--->
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''[Describe how to set up your camera in front of the fluorimeter. Add a PHOTO of this set-up for bonus points.]''
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'''Materials'''
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* Distance between the smart phone cradle and drop =
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<!--- Place your two tables "Supplied in the kit" and "Supplied by User" here --->
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''[See worksheet page 5]''
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'''Solutions Used for Calibration''' ''[See worksheet page 5]''
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'''PCR Protocol'''
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{| {{table}} width=700
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|-
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| row 1 cell 1 || row 1 cell 2 || row 1 cell 3 || row 1 cell 4
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|-
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| row 2 cell 1 || row 2 cell 2 || row 2 cell 3 || row 2 cell 4
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|-
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| row 3 cell 1 || row 3 cell 2 || row 3 cell 3 || row 3 cell 4
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|}
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''[Add more rows as needed]''
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'''Placing Samples onto the Fluorimeter'''
 
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* ''[Step one, in your OWN words]''
 
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* ''[Step two, in your own words]''
 
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* ''[Step three, in your own words]''
 
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* ''[etc.]''
 
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<br>
 
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<!-- Note: Be sure to delete the text in brackets: ''[ ]'' -->
 
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==Data Analysis==
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'''DNA Measurement Protocol'''
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'''Representative Images of Samples'''
 
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''[Show an IMAGE <u>where you drew a circle around the droplet</u> with the freehand tool for a sample with no DNA]''
 
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''[Show an IMAGE <u>where you drew a circle around the droplet</u> with the freehand tool for a sample '''with''' DNA (positive signal)]''
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==Research and Development==
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<!--- Bonus: explain how Bayesian statistics can be used to assess the reliability of your team's method. Just write the equation using variables that are relevant to your team's new test. You do not need actual numbers --->
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'''Background on Disease Markers'''
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<!--- A description of the diseases and their associated SNP's (include the database reference number and web link) --->
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 +
 
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'''Primer Design'''
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<!--- Include the sequences of your forward and reverse primers. Explain why a disease allele will give a PCR product and the non-disease allele will not. --->
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'''Image J Values for All Samples''' ''[See worksheet page 5]''
 
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{| {{table}} width=700
 
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|-
 
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| row 1 cell 1 || row 1 cell 2 || row 1 cell 3 || row 1 cell 4 || row 1 cell 5
 
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|-
 
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| row 2 cell 1 || row 2 cell 2 || row 2 cell 3 || row 2 cell 4 || row 2 cell 5
 
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|-
 
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| row 3 cell 1 || row 3 cell 2 || row 3 cell 3 || row 3 cell 4 || row 2 cell 5
 
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|}
 
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''[Add more rows as needed]''
 
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'''Illustration'''
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<!--- Include an illustration that shows how your system's primers allow specific amplification of the disease-related SNP --->
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'''Fitting a Straight Line'''<br>
 
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''[Place an IMAGE of your Excel plot with a line of best fit here. See worksheet page 8]''
 
<br>
<br>
<!-- Note: Be sure to delete the text in brackets: ''[ ]'' -->
<!-- Note: Be sure to delete the text in brackets: ''[ ]'' -->

Revision as of 16:16, 9 April 2013

BME 103 Spring 2013 Home
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Contents

OUR TEAM

Name: StudentRole(s)
Name: Student
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Name: Student
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Name: StudentRole(s)
Name: Student
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Name: StudentRole(s)
Name: Student
Role(s)
Name: StudentRole(s)
Name: Student
Role(s)

LAB 2 WRITE-UP

Original System: PCR Results

New System: Machine/ Device Engineering

KEY FEATURES

We concluded that our new system must have:

  • [Must have #1 and why]
  • [Must have #2 and why]

We concluded that our new system must not have:

  • [Must not have #1 and why]
  • [Must not have #2 and why]


Instructions





Protocols

Materials


PCR Protocol



DNA Measurement Protocol



Research and Development

Background on Disease Markers



Primer Design



Illustration




Personal tools