BME103 s2013:T900 Group9 L2: Difference between revisions
Coley White (talk | contribs) No edit summary |
|||
(26 intermediate revisions by 3 users not shown) | |||
Line 16: | Line 16: | ||
| [[Image:BME103 Group9ColeyWhite Assembly.jpg|100px|thumb|Name: Coley White]] | | [[Image:BME103 Group9ColeyWhite Assembly.jpg|100px|thumb|Name: Coley White]] | ||
| [[Image:BME103 Group3 AimenVanood.jpg|100px|thumb|Name: Aimen Vanood]] | | [[Image:BME103 Group3 AimenVanood.jpg|100px|thumb|Name: Aimen Vanood]] | ||
| [[Image: | | [[Image:Nordy.gif|100px|thumb|Name: Brady Falk]] | ||
| [[Image: | | [[Image:BME103_Group9_Vignesh.jpg|100px|thumb|Name: Vignesh Senthil]] | ||
|} | |} | ||
Line 25: | Line 25: | ||
==Background Information== | ==Background Information== | ||
[[Image:setup.png|400px|]]<br> | |||
''Photo of the Single-Drop Fluorimeter Device.<br>(Image used from Google Images, http://openwetware.org/wiki/BME103:T130_Group_6)''<br> | |||
'''SYBR Green Dye'''<br> | '''SYBR Green Dye'''<br> | ||
SYBR Green Dye is a type of dye that is used to highlight when dsDNA is present because that is when it fluoresces the strongest. The dye fluoresces weak with water or single strands of DNA.<br> | |||
'''Single-Drop Fluorimeter'''<br> | '''Single-Drop Fluorimeter'''<br> | ||
The Single-Drop Fluorimeter (as pictured above) is a custom device designed for the purpose of finding when a double-stranded piece of DNA is present. It fluoresces double-stranded DNA fragments in a green color, and does nothing to a solution without the double-stranded piece of DNA.<br> | |||
'''How the Fluorescence Technique Works'''<br> | '''How the Fluorescence Technique Works'''<br> | ||
The process had several different variables that were chosen for very specific reasons. The slide to be used was chosen because it had a rough surface with glass circles exposed in it, causing the solution to concentrate at those locations and be easier to examine. The DNA dye chosen for the experiment was used because it was not completely soluble, which allowed for the light to glow instead of causing a reflective light off of the drop. | |||
Line 45: | Line 48: | ||
'''Smart Phone Camera Settings'''<br> | '''Smart Phone Camera Settings'''<br> | ||
* '' | * ''Type of smart phone used and adjusted camera settings.'' | ||
**Phone: HTC Droid Incredible 2 | |||
** Flash: None | ** Flash: None | ||
** ISO setting: 800 | ** ISO setting: 800 | ||
Line 53: | Line 57: | ||
** Contrast:-2 | ** Contrast:-2 | ||
'''Calibration'''<br> | '''Calibration'''<br> | ||
'' | [[Image:sdp.png|400px|]]<br> | ||
''Photo of how camera is pointing at, and focusing in on, the drop.''<br> | |||
''(Image used from Google Images, http://openwetware.org/wiki/BME103:T130_Group_9)''<br> | |||
The phone was set up in the phone stand so that the camera was focusing on the drop. It was zoomed in far enough to notice the color of the drop and how it changed with each concentraton change. | |||
* Distance between the smart phone cradle and drop = 3.7 cm | * Distance between the smart phone cradle and drop = 3.7 cm | ||
Line 88: | Line 89: | ||
| 0 || 80 || 80 || blank | | 0 || 80 || 80 || blank | ||
|} | |} | ||
'''Placing Samples onto the Fluorimeter''' | |||
* | '''Placing Samples onto the Fluorimeter'''<br> | ||
* | <u>Materials</u> | ||
* | {| {{table}} | ||
* | |- | ||
| SYBR green | |||
|- | |||
| Pipette | |||
|- | |||
| Water | |||
|- | |||
| Hydrophobic Tray | |||
|- | |||
| Smartphone | |||
|- | |||
| Cradle | |||
|- | |||
| Box (For Cover) | |||
|- | |||
| Plastic Base | |||
|} | |||
* Step 1: Calibrate your smartphone to ensure the proper imaging environment. | |||
* Step 2: Place the pre-determined concentration droplet of SYBR green onto the hydrophobic tray between the initial 2 ruts. | |||
* Step 3: Make sure the droplet is centered on the green light to ensure proper imaging. | |||
* Step 4: Place the hydrophobic tray onto the cradle. | |||
* Step 5: Set up the smartphone on the plastic base a fixed distance away from the hydrophobic tray. | |||
* Step 6: Level the view of the camera to show the droplet in a horizontal perspective. | |||
* Step 7: Place the box over the contraption to create a dark room. | |||
* Step 8: Take the picture of the droplet in the closed environment. | |||
* Step 9: Repeat the initial steps for all the sample trials. | |||
* Step 10: Use the pictures to analyze the affect of the concentration of SYBR green in the droplet samples. | |||
<br> | <br> | ||
Line 104: | Line 132: | ||
'''Representative Images of Samples''' | '''Representative Images of Samples''' | ||
'' | ''<u>Sample with no DNA</u>''<br> | ||
[[Image:BME103_NODNA_Group9.png|200px|Description of image]] | [[Image:BME103_NODNA_Group9.png|200px|Description of image]] | ||
'' | ''<u>Sample with DNA (positive signal)</u>''<br> | ||
[[Image:DNA_postive_signal_group9.png|200px|Description of image]] | [[Image:DNA_postive_signal_group9.png|200px|Description of image]] | ||
Line 151: | Line 179: | ||
|} | |} | ||
'''Fitting a Straight Line'''<br> | '''Fitting a Straight Line'''<br> | ||
[[Image:BME103Group9INTDENvs.Concentration.png| | [[Image:BME103Group9INTDENvs.Concentration.png|500px|Description of image]] | ||
<br> | <br> |
Latest revision as of 23:26, 1 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 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
OUR TEAM
LAB 2 WRITE-UPBackground InformationPhoto of the Single-Drop Fluorimeter Device.
ProcedureSmart Phone Camera Settings
Calibration
The phone was set up in the phone stand so that the camera was focusing on the drop. It was zoomed in far enough to notice the color of the drop and how it changed with each concentraton change.
Solutions Used for Calibration [See worksheet page 5] Image J Values for All Samples [See worksheet page 5]
Placing Samples onto the Fluorimeter
Data AnalysisRepresentative Images of Samples Sample with DNA (positive signal)
Fitting a Straight Line
|