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pH-Rocker     ForDNA-sequencing experiments   By: Pranav Rathi     CHTM-UNM                      1
Why pH-Rocker was needed?•  During DNA Sequencing reactions based onquantification of pH measurements for analyzingsequenc...
Design of pH-Rocker                     Things I Considered for design• Something which can sort of simulate the circular ...
Components of pH-Rocker RA90-thorlabs post clamp                                TR12- thorlabs postTR6- thorlabs post     ...
Construction   Stand           Arrange all the parts as shown in the picture.                                             ...
Motor Arm                                                  • This is the most important part of the                       ...
Arrange the arm• I made a 8/32 hole on thecage plate and thread it to hold the motor• Arranged every thing asshown in the ...
Mount the motor arm on the stand                                   8
Some components                         96 well platepH Sensor                                         9
The pH- rocker is complete                             10
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pH rocker

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In one of the DNA-sequencing experiments based on change in pH difference due to release of proton per nuceotide added to DNA. There was considerable pH change in pH due to various factors out of which one was due to the pH-sensor position inside the well; sensor kept stable vs sensor moving in the well in circular motion gives different result. So the pH rocker is designed to simulate the hand motion for the sensor and stabilize the results.

http://openwetware.org/wiki/User:Pranav_Rathi/Notebook/OT/2012/05/21/pH-rocker_for_DNA-sequencing_experiments

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pH rocker

  1. 1. pH-Rocker ForDNA-sequencing experiments By: Pranav Rathi CHTM-UNM 1
  2. 2. Why pH-Rocker was needed?• During DNA Sequencing reactions based onquantification of pH measurements for analyzingsequencing reactions, various factors made it difficultto get consistent data. Few of them were changes inpH in stationary reaction mixture and continuouslyreaction mixture and speed of stirring (donemanually). To overcome this, pH rocker wasdesigned to help keep a steady speed for sensor andalso to keep a continuous stirring and get aconsistent data. 2
  3. 3. Design of pH-Rocker Things I Considered for design• Something which can sort of simulate the circular motion by hand• Do not require and advance electronics• Do not require any specific tools or hardware not available in my lab 3
  4. 4. Components of pH-Rocker RA90-thorlabs post clamp TR12- thorlabs postTR6- thorlabs post PK22G21-hennkwell DC motor CP02T-thorlabs cage plate PH37-SS Hach company pH sensor CL6 -thorlabsPH4-thorlabs clamppost holder 96 well platePoweline variable MB6-thorlabsDC-power supply breadboard 4
  5. 5. Construction Stand Arrange all the parts as shown in the picture. 5
  6. 6. Motor Arm • This is the most important part of the system; it simulates the arm movement • It is simple to make. I salvaged the black disk from a radio and machined it to fit the motor shaft •I drilled 3 4/40 holes from the edge to put the cage rod Rubber • In end to hold the wire I Put 2 wire cushion holder back to back, one of the holders4/40 screws has a 4/40 hole to attach it to the rod. Black disk Linkage through ER1-thorlsba wire holder 1’’ cage assembly rod 6
  7. 7. Arrange the arm• I made a 8/32 hole on thecage plate and thread it to hold the motor• Arranged every thing asshown in the picture 8/32 screw 7
  8. 8. Mount the motor arm on the stand 8
  9. 9. Some components 96 well platepH Sensor 9
  10. 10. The pH- rocker is complete 10

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