BIO RAD iCycler iQ Packing List And Installation Manual
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BIO RAD iCycler iQ Packing List And Installation Manual

BIO RAD iCycler iQ Packing List And Installation Manual

Real time pcr detection system
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iCycler iQ
Real Time PCR
Detection System
Packing List
and
Installation Guide
Catalog Number
170-8740
For Technical Service Call Your Local Bio-Rad Office or in the U.S. Call 1-800-4BIORAD (1-800-424-6723)

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Summary of Contents for BIO RAD iCycler iQ

  • Page 1 ™ iCycler iQ Real Time PCR Detection System Packing List Installation Guide Catalog Number 170-8740 For Technical Service Call Your Local Bio-Rad Office or in the U.S. Call 1-800-4BIORAD (1-800-424-6723)

  • Page 2: Table Of Contents

    Table of Contents Page Section 1 System Components/Packing List..............1 Section 2 Installing the Optical Module ..............2 Preparing the Reaction Module .................2 2.1.1 Removing the Standard iCycler Lid from the Reaction Module ......2 2.1.2 Mounting the Optical Lid on the Reaction Module..........4 Mounting the Support Bracket...................5 Mounting Procedure....................5 Section 3...

  • Page 3: System Components/Packing List

    #6 x ¼" Phillips screws (2) • 10-32 x 7/8 socket head screws (4) • Ball end hex driver (5/32") • CD-ROM with iCycler iQ Software • Optical Module Installation Guide • Optical System Instruction Manual • Sodium fluorescein (1mM) •...

  • Page 4: Installing The Optical Module

    Optical Module Optical Lid iCycler Chassis Fig. 1. iCycler iQ Real Time PCR Detection System. 2.1 Preparing the Reaction Module The reaction module shipped with the iCycler thermal cycler must be modified with an optical lid before it can be used with the iQ Optical system. The following figures show how to replace the top of the reaction module.
  • Page 5 4. Using your index fingers, lift both of the green latches up. Push the green latches as far back as possible until they are in contact with the reaction module lid. 5. Hold the handle of the reaction module and lift it up and out of the chassis. Gently place the module down on a clean, flat surface.

  • Page 6: Mounting The Optical Lid On The Reaction Module

    Screw Spacer Ribbon Cable Clip Fig. 3. Disconnecting the Ribbon Cable Between the Lid and the Reaction Module (rear view). 2.1.2 Installing the Optical Lid on the Reaction Module To attach the optical lid that is designed for use with the iQ Optical system, reverse the procedure discussed above.

  • Page 7: Mounting The Support Bracket

    2.2 Installing the Support Bracket A support bracket with roller is provided for the Optical Module. This is mounted to the rear of the iCycler thermal cycler as shown in Figure 4. Using the two ¼" #6 Phillips screws, adjust the height of the bracket so that both of the screws are approximately in the center of the slots on the bracket.
  • Page 8 Note: The iCycler requires approximately 8" (20 cm) of clearance behind the chassis for movement of the Optical Module. This completes the retrofit procedure. Refer to the user manual for detailed instruction on how to set up and use the iCycler iQ Real Time PCR Detection System.

  • Page 9: Connecting To The Computer

    Switch Miniature Phone Plug Connector Fig. 3.1. Side View of iCycler iQ Real-Time Detection System showing cable connections. To connect the system cabling: 1. Before attaching cables, turn off all power to the system; close the reaction module by slid- ing the lid forward and pressing the lid handle down.

  • Page 10: Installing Filters

    Note: The power cord for the computer, the power cord for the iCycler chassis, and the power cord for the iCycler iQ Real Time PCR Detection System should be plugged into the same circuit to avoid noise from the grounds of separate circuits affecting RS232 communications.
  • Page 11 1. Turn off the power to the Optical Module. 2. Release the two black latches on each side of the Optical Module. Slide the housing backwards 2–3" (5–8 cm), exposing a black case, the filter wheel housing. It is not necessary to remove the housing or cables.

  • Page 12: Loading Software And Firmware

    Section 5 Loading Software and Firmware Installing Software 1. Insert the installation CD into your CD-ROM drive. 2. If the CD does not begin installation automatically, then click on Start and then select Run. 3. Enter the drive letter for your CD-ROM drive followed by a colon, backslash, "setup" and click OK.

  • Page 13: Adjusting Mask And Collecting Well Factors

    4. Open the CD-ROM directory and open the Utilities folder. Open the folder called Firmware Upgrade and copy the files Upgrade.exe and icycupdt.bin to the Firmware Upgrade folder. 5. From the Explorer, open the Upgrade folder on the C drive and double click on Upgrade.exe.
  • Page 14 Fig. 6.1. iQ configuration window, showing the image, gain, and filter positioning dialog boxes. 3. From the menu bar at the top of the screen, select Filters, and then select Positioning. This brings up the Filter Positioning dialog box (see Figure 6.1). 4.
  • Page 15 image. Fig. 6.2. iQ configuration window with a calibration plate image and the expose image dialog box. 6. From the tool bar at the top of the Image dialog box, select Tools, then select Zoom. Click with the left mouse button on the calibration plate image to increase the size of the image;...
  • Page 16 When the DC offset is set properly: • The Black and White lines are as far apart as possible. • The Black line cuts the large peak in the histogram about 1/3 of the way down from the peak. • The majority of pixels outside the image of the 96-well plate are in the range of 40–70 counts.

  • Page 17: Adjusting The Mask

    6.3 Positioning the Mask Every time data are collected, two separate readings are taken for each of the 96 wells: the inner reading and the outer reading. The inner reading is the average of all the pixels in the area defined by the mask as the inner well region.
  • Page 18 3. To adjust the masks over all of the plate wells at one time, use the Global buttons in the Mask Editor dialog box. Select the Show All button. Masks will appear over each of the wells of the calibration plate (see Figure 6.4). The masks may be moved as a group, Left, Right, Up, and Down, by selecting each of those buttons.

  • Page 19: Collecting Well Factors

    C. Collect well factors. 7.1 Preparing a Calibration Plate The calibration plate contains 50 µl of optimally diluted iCycler iQ Fluorescein Calibration Dye (catalog number 170-8780). The optimal concentration of the dye will result in a strong image at 640 or 320 ms exposure. During the installation process the optimal dilution will be determined and may be used for each subsequent calibration.

  • Page 20: Cycling The Calibration Plate

    3. Pipette 50 µl of the dilute calibration dye into each well of the 96 well Thin Wall PCR plate (catalog number 223-9441). 4. Press a piece of the iCycler iQ Optical Quality sealing tape (catalog number 223-9444) onto the 96 well plate.
  • Page 21 In the Cam Filter box, click Home and then select the radio button for position 2. If the filter returns to blank when you select position 2, check the interlock connector at the Reaction Module to be sure that it is properly attached. b.
  • Page 22 White line Black line Before capturing an image. DC offset too high. DC offset too low. DC offset correct. Black line is too close Black line cuts peak to White line. too early. 7. Once the DC offset is correct, take another exposure at 640 ms and check for saturated pixels.
  • Page 23 11. The "Select Target Factor File" dialog box will open. Select the file c:\Program Files\Bio-Rad\iCycler\Ini\Factor96.ini and click Save. 12. You will be asked if you want to replace the existing file. Click Yes to save the new factor file. 13. Close the iQconfig application by clicking in the top right corner. The system is now ready for operation.
  • Page 24 Bio-Rad Laboratories Life Science Website www.bio-rad.com Bio-Rad Laboratories Main Office 2000 Alfred Nobel Drive, Hercules, CA 94547, Ph. (510) 741-1000, Fx. (510)741-5800 Also in: Australia Ph. 02 9914 2800, Fx. 02 9914 2889 Austria Ph. (01) 877 89 01, Fx. (01) 876 56 29 Belgium Ph. 09-385 55 11, Fx. 09-385 65 54 Group Canada Ph.

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