BME100 f2015:Group7 8amL5: Difference between revisions

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'''Calibration'''<br>
'''Camera set-up'''<br>
<!-- INSTRUCTIONS: In the space below, briefly describe how to set up your camera in front of the fluorimeter. Add a PHOTO of this set-up for bonus points. -->
<!-- INSTRUCTIONS: In the space below, briefly describe how to set up your camera in front of the fluorimeter. -->


<!-- INSTRUCTIONS: Type the distance between your phone cradle and the drop after the equal sign. -->
<!-- INSTRUCTIONS: Type the distance between your phone cradle and the drop after the equal sign. -->
* Distance between the smart phone cradle and drop =
* Distance between the smart phone cradle and drop =
'''Solutions Used for Calibration'''
{| {{table}} width=700
|-
| 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 and cells as needed. -->




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


==Data Analysis==
==Data Collection and Analysis==
 
'''Images of High, Low, and Zero Calf Thymus DNA'''
<!-- INSTRUCTIONS: Show ONE image where you drew a circle around the droplet in ImageJ for any image for the (1) 5 μg/mL sample (2) 0.5 μg/mL sample and (3) zero DNA. Please crop your images so that only the drop and a small empty rectangular region around the drop are included. Lots of empty space is a waste of space. -->
 
 
'''Calibrator Mean Values'''
<!-- INSTRUCTIONS: Show all values from Excel Table 2 from Section 3. '''To save time on typing a new Wiki table from scratch''', use THIS TOOL to auto-generate a Wiki table: http://excel2wiki.net/wikipedia.php. Copy the headers and values from the Excel spreadsheet you made, paste them into the form field, click submit, copy the Wiki code that the tool generated, and replace TABLE GOES HERE (below) with your auto-generated code.  -->
 
 
TABLE GOES HERE
 
 
'''Calibration curves'''<br>
<!-- INSTRUCTIONS: Place images of your Excel plots (2 total) here. -->
 


'''Representative Images of Negative and Positive Samples'''
<!-- INSTRUCTIONS: (1) Show ONE image where you drew a circle around the droplet with the freehand tool for any sample with *no* DNA. (2) Show ONE image where you drew a circle around the droplet with the freehand tool for a sample *with* DNA (positive signal). -If you include more than two images, you will not receive any additional credit. -->


'''Images of Our PCR Negative and Positive Controls'''
<!-- INSTRUCTIONS: Show ONE image where you drew a circle around the droplet in ImageJ for any image for the (1) Negative control PCR sample AND (2) the Positive control PCR sample.  -->




'''Image J Values for All Calibrator Samples'''
<!-- INSTRUCTIONS: Show a table for the ImageJ calf thymus DNA data. '''To save time on typing a new Wiki table from scratch''', use THIS TOOL to auto-generate a Wiki table: http://excel2wiki.net/wikipedia.php. Copy the headers and values from the Excel spreadsheet you made, paste them into the form field, click submit, copy the Wiki code that the tool generated, and replace TABLE GOES HERE (below) with your auto-generated code.  -->


'''PCR Results: PCR concentrations solved'''
<!-- INSTRUCTIONS: Show all values from Excel Table 5 from Section 5. '''To save time on typing a new Wiki table from scratch''', use THIS TOOL to auto-generate a Wiki table: http://excel2wiki.net/wikipedia.php. Copy the headers and values from the Excel spreadsheet you made, paste them into the form field, click submit, copy the Wiki code that the tool generated, and replace TABLE GOES HERE (below) with your auto-generated code.  -->


TABLE GOES HERE
TABLE GOES HERE


'''Calibration curve'''<br>
<!-- INSTRUCTIONS: Place an image of your Excel plot with a line of best fit here. -->




'''PCR Results Summary'''
'''PCR Results: Summary'''
<!-- INSTRUCTIONS: You completed 8 PCR reactions and used the SYBR Green I staining and imaging technique to measure the amount of amplified DNA in each PCR reaction. You used a standard curve (based on known concentrations of calf thymus DNA) to convert INTDEN values into DNA concentration. Your positive control and negative control samples should be used as '''threshold''' values for determining whether an unknown (patient) sample is truly positive or negative. Replace the underscore with your claculated initial concentration values.-->
<!-- INSTRUCTIONS: You completed 8 PCR reactions and used the SYBR Green I staining and imaging technique to measure the amount of amplified DNA in each PCR reaction. You used a standard curve (based on known concentrations of calf thymus DNA) to convert INTDEN values into DNA concentration. Your positive control and negative control samples should be used as '''threshold''' values for determining whether an unknown (patient) sample is truly positive or negative. Replace the underscore with your calculated initial concentration values.-->
* Our positive control PCR result was ____ μg/mL
* Our positive control PCR result was ____ μg/mL
* Our negative control PCR result was ____ μg/mL
* Our negative control PCR result was ____ μg/mL


<u>Observed results</u>
<u>Observed results</u>
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* Patient _____ :  
* Patient _____ :  
* Patient _____ :
* Patient _____ :


<u>Conclusions</u>
<u>Conclusions</u>

Revision as of 10:03, 28 October 2015

BME 100 Fall 2015 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 TEAM

Name: Tristan Loveday
Name: Jeremy Atkinson
Name: Kelly Harper
Name: Andrew Medina
Name: Farah Alyasari
Name: Rafael Lopez


LAB 5 WRITE-UP

PCR Reaction Report

Fluorimeter Procedure

Smart Phone Camera Settings

  • Type of Smartphone:
    • Flash:
    • ISO setting:
    • White Balance:
    • Exposure:
    • Saturation:
    • Contrast:


Camera set-up

  • Distance between the smart phone cradle and drop =


Placing Samples onto the Fluorimeter

  1. [Instructions: Step one, in your OWN words]
  2. [Instructions: Step two, in your own words]
  3. [Instructions: Step three, in your own words]
  4. [Instructions: Step etc., in your own words]


Data Collection and Analysis

Images of High, Low, and Zero Calf Thymus DNA


Calibrator Mean Values


TABLE GOES HERE


Calibration curves


Images of Our PCR Negative and Positive Controls


PCR Results: PCR concentrations solved

TABLE GOES HERE


PCR Results: Summary

  • Our positive control PCR result was ____ μg/mL
  • Our negative control PCR result was ____ μg/mL


Observed results

  • Patient _____ :
  • Patient _____ :


Conclusions

  • Patient _____ :
  • Patient _____ :



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