BME103 s2013:TEMPwu2: Difference between revisions

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=LAB 2 WRITE-UP=
=LAB 2 WRITE-UP=
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'''SYBR Green Dye'''<br>
'''SYBR Green Dye'''<br>
''A short summary describing SYBR green and how it is used to detect double-stranded DNA''<br>
''[A short summary describing SYBR green dye]''<br>




'''Single-Drop Fluorimeter'''<br>
'''Single-Drop Fluorimeter'''<br>
''A PHOTO and description of the single-drop fluorimeter''<br>
''[A description of the single-drop fluorimeter device. Add a PHOTO for bonus points]''<br>




'''How the Fluorescence Technique Works'''<br>
''[In your own words, a summary of the information from page 9 of the worksheet]''


<br><br>
 
<br>
<!-- Note: Be sure to delete the text in brackets: ''[ ]'' -->


==Procedure==
==Procedure==


'''Smart Phone Camera Settings'''<br>
'''Smart Phone Camera Settings'''<br>
''The type of smart phone you used and how you adjusted the camera settings, if applicable (see worksheet page 4).''<br>
* ''[The type of smart phone you used and how you adjusted the camera settings, if applicable (see worksheet page 4).]''
** Flash:
** ISO setting:
** White Balance:
** Exposure:
** Saturation:
** Contrast:
 
* ''[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).]''
** Flash:
** ISO setting:
** White Balance:
** Exposure:
** Saturation:
** Contrast:




'''Calibration'''<br>
'''Calibration'''<br>


''[Place a PHOTO of your camera phone set up in front of the flourimeter here]''
''[Describe how to set up your camera in front of the fluorimeter. Add a PHOTO of this set-up for bonus points.]''


* Distance between your smart phone cradle and drop =
* Distance between the smart phone cradle and drop =
''[See worksheet page 5]''


{| {{table}}
 
'''Solutions Used for Calibration''' ''[See worksheet page 5]''
{| {{table}} width=700
|-
|-
| row 1 cell 1 || row 1 cell 2 || row 1 cell 3 || row 1 cell 4
| row 1 cell 1 || row 1 cell 2 || row 1 cell 3 || row 1 cell 4
|-
|-
| row 2 cell 1 || row 2 cell 2 || row 2 cell 3 || row 2 cell 4
| row 2 cell 1 || row 2 cell 2 || row 2 cell 3 || row 2 cell 4
|-
| row 3 cell 1 || row 3 cell 2 || row 3 cell 3 || row 3 cell 4
|}
|}
''[Add more rows as needed]''




'''DNA Sample Set-up Procedure'''
'''Placing Samples onto the Fluorimeter'''
# Step 1
* ''[Step one, in your OWN words]''
# Step 2
* ''[Step two, in your own words]''
# Step 3...
* ''[Step three, in your own words]''
* ''[etc.]''


<br>
<!-- Note: Be sure to delete the text in brackets: ''[ ]'' -->


'''PCR Reaction Mix'''
==Data Analysis==
* What is in the PCR reaction mix?


'''Representative Images of Samples'''


'''DNA/ primer mix'''
''[Show an IMAGE <u>where you drew a circle around the droplet</u> with the freehand tool for a sample with no DNA]''
* What is in the DNA/ primer mix?


''[Show an IMAGE <u>where you drew a circle around the droplet</u> with the freehand tool for a sample '''with''' DNA (positive signal)]''






<br><br>
'''Image J Values for All Samples''' ''[See worksheet page 5]''
 
{| {{table}} width=700
==Research and Development==
|-
| row 1 cell 1 || row 1 cell 2 || row 1 cell 3 || row 1 cell 4 || row 1 cell 5
|-
| row 2 cell 1 || row 2 cell 2 || row 2 cell 3 || row 2 cell 4 || row 2 cell 5
|-
| row 3 cell 1 || row 3 cell 2 || row 3 cell 3 || row 3 cell 4 || row 2 cell 5
|}
''[Add more rows as needed]''


'''Specific Cancer Marker Detection - The Underlying Technology'''<br>


(Add a write-up of the information discussed in Week 3's class)<br>


(BONUS points: Use a program like Powerpoint, Word, Illustrator, Microsoft Paint, etc. to illustrate how primers bind to the cancer DNA template, and how Taq polymerases amplify the DNA. Screen-captures from the OpenPCR tutorial might be useful. Be sure to credit the source if you borrow images.)
'''Fitting a Straight Line'''<br>
''[Place an IMAGE of your Excel plot with a line of best fit here. See worksheet page 8]''




<br><br>
<br>
<!-- Note: Be sure to delete the text in brackets: ''[ ]'' -->





Latest revision as of 16:05, 26 March 2013

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: student
Name: student
Name: student
Name: student
Name: student
Name: student


LAB 2 WRITE-UP

Background Information

SYBR Green Dye
[A short summary describing SYBR green dye]


Single-Drop Fluorimeter
[A description of the single-drop fluorimeter device. Add a PHOTO for bonus points]


How the Fluorescence Technique Works
[In your own words, a summary of the information from page 9 of the worksheet]



Procedure

Smart Phone Camera Settings

  • [The type of smart phone you used and how you adjusted the camera settings, if applicable (see worksheet page 4).]
    • Flash:
    • ISO setting:
    • White Balance:
    • Exposure:
    • Saturation:
    • Contrast:
  • [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).]
    • Flash:
    • ISO setting:
    • White Balance:
    • Exposure:
    • Saturation:
    • Contrast:


Calibration

[Describe how to set up your camera in front of the fluorimeter. Add a PHOTO of this set-up for bonus points.]

  • Distance between the smart phone cradle and drop =

[See worksheet page 5]


Solutions Used for Calibration [See worksheet page 5]

row 1 cell 1 row 1 cell 2 row 1 cell 3 row 1 cell 4
row 2 cell 1 row 2 cell 2 row 2 cell 3 row 2 cell 4
row 3 cell 1 row 3 cell 2 row 3 cell 3 row 3 cell 4

[Add more rows as needed]


Placing Samples onto the Fluorimeter

  • [Step one, in your OWN words]
  • [Step two, in your own words]
  • [Step three, in your own words]
  • [etc.]


Data Analysis

Representative Images of Samples

[Show an IMAGE where you drew a circle around the droplet with the freehand tool for a sample with no DNA]

[Show an IMAGE where you drew a circle around the droplet with the freehand tool for a sample with DNA (positive signal)]


Image J Values for All Samples [See worksheet page 5]

row 1 cell 1 row 1 cell 2 row 1 cell 3 row 1 cell 4 row 1 cell 5
row 2 cell 1 row 2 cell 2 row 2 cell 3 row 2 cell 4 row 2 cell 5
row 3 cell 1 row 3 cell 2 row 3 cell 3 row 3 cell 4 row 2 cell 5

[Add more rows as needed]


Fitting a Straight Line
[Place an IMAGE of your Excel plot with a line of best fit here. See worksheet page 8]