BME103 s2013:T900 Group8 L2

From OpenWetWare

(Difference between revisions)
Jump to: navigation, search
(Background Information)
(Background Information)
Line 30: Line 30:
'''SYBR Green Dye'''<br><br>  
'''SYBR Green Dye'''<br><br>  
[[Image:200px-SYBR_Green_I.png|200px|thumb|frame|right|molecluar diagram of SYBR Green I]]
[[Image:200px-SYBR_Green_I.png|200px|thumb|frame|right|molecluar diagram of SYBR Green I]]
-
SYBR Green I is a dye that is used as a nucleic acid stain in several fields such as biochemistry, and molecualr biology. The way that this compund works is by absorbing the blue light and emits green light  
+
SYBR Green I is a dye that is used as a nucleic acid stain in several fields such as biochemistry, and molecualr biology. SYBR Green I can be diluted and a small amount of it can go a long way. This dye was useful in this experiment because, when the drop of DNA is put on the glass slide there is a blue ray of light that is turned on, which then passes through the drop. The way that this compund, SYBR Green, works is by absorbing the blue light and emitting green light. When we taking a picture of the drop under dark conditions the green emmited light can be visible. This compound is part of the cyanine synthetic dye family, this words comes from the word "cyan" which is blue-green. That this why green light is emitted.
-
 
+
'''Single-Drop Fluorimeter'''<br>
'''Single-Drop Fluorimeter'''<br>

Revision as of 00:18, 2 April 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
Image:BME494_Asu_logo.png


Contents

OUR TEAM

Name: Anthony ZingaleRole: Experimental Protocol Planner
Name: Anthony Zingale
Role: Experimental Protocol Planner
Name: Josh SnyderRole: Machine Tester
Name: Josh Snyder
Role: Machine Tester
Name: Adam PakRole:Experimental Protocol Planner
Name: Adam Pak
Role:Experimental Protocol Planner
Name: Sunhine SilvasRole: Machine Tester
Name: Sunhine Silvas
Role: Machine Tester
Name: Renee TranRole:Research and Development Scientist
Name: Renee Tran
Role:Research and Development Scientist


LAB 2 WRITE-UP

Background Information

SYBR Green Dye

molecluar diagram of SYBR Green I
molecluar diagram of SYBR Green I

SYBR Green I is a dye that is used as a nucleic acid stain in several fields such as biochemistry, and molecualr biology. SYBR Green I can be diluted and a small amount of it can go a long way. This dye was useful in this experiment because, when the drop of DNA is put on the glass slide there is a blue ray of light that is turned on, which then passes through the drop. The way that this compund, SYBR Green, works is by absorbing the blue light and emitting green light. When we taking a picture of the drop under dark conditions the green emmited light can be visible. This compound is part of the cyanine synthetic dye family, this words comes from the word "cyan" which is blue-green. That this why green light is emitted.

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 Tech Specs

Phone : iphone 4
Tech specs "
5-megapixel iSight camera

Video recording, HD (720p) up to 30 frames per second with audio

VGA-quality photos and video at up to 30 frames per second with the front camera

Tap to focus video or still images

LED flash

Photo and video geotagging
"

Source of Tech specs http://www.apple.com/iphone/iphone-4/specs.html

Smart Phone Camera Settings

Settings : Settings used in lab Observations
Flash: Turned off N/A
ISO setting: ISO setting 80-1000 No control over ISO settings
White Balance: Auto White balance No control over white balance
Exposure: Auto exposure No control over exposure
Saturation: Very high No control over saturation
Contrast: Very high No control over contrast
Source: http://www.imaging-resource.com/PRODS/IPHONE4/IPHONE4A.HTM This source was used to find out what were the defult settings of iphone 4


  • No additional phones or cameras used


Calibration

Diagram of the set up
Diagram of the set up

Distance and angles between the smart phone and =

  • candle = 3.62cm
  • table = 5.67cm
  • angle from camera to drop = approx 90°


Solutions Used for Calibration

Solution Concetration of SYBR green
1 None (Water)
2 0.25 micrograms per ml
3 0.05 micrograms per ml
4 1.0 micrograms per ml
5 2.0 micrograms per ml
6 5.0 micrograms per ml


Placing Samples onto the Fluorimeter Procedures

  • Aquire following materials :
Materials :
Set of read SYBR green(5 samples)
Water
pipette
Superhydrophobic surface
cradle
Smart phone
Box
plastic base
small box to set up the phone
  1. Calibrate phone
  2. Carefully palce one drop of sample onto Superhydrophobic surface
  3. Place Superhydrophobic surface onto cradle
  4. Place the big box over cradle to create a dark room
  5. Set up smart phone using plastic base
  6. Take a picture
  7. Repeat steps 2-6 for all 6 samples
  8. Measure distances of phone to table and to cradle
  9. Analyze pictures and write down the observations



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]




Personal tools