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LI-COR ODYSSEY Series Operator's Manual

Infrared imaging system
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Summary of Contents for LI-COR ODYSSEY Series

  • Page 1 ® Operator’s Manual...
  • Page 3 CE Marking: This product (model number 9260) is a CE-marked product. For conformity information, contact LI-COR Support at http://www.licor.com/biotechsupport. Outside of the U.S., contact your local sales office or distributor. Page 3...
  • Page 4 Note on Safety LI-COR products have been designed to be safe when operated in the manner described in this manual. The safety of this product cannot be guaranteed if the product is used in any other way than is specified in this manual. The Odyssey®...
  • Page 5 LI-COR Biosciences is an ISO 9001:2015 registered company. © 2015 LI-COR, Inc. Specifications subject to change. LI-COR, Odyssey, Image Studio, and IRDye are registered trademarks of LI-COR, Inc. in the United States and other countries. All other trademarks belong to their respective owners. The Odyssey Infrared Imaging Systems and IRDye reagents are covered by U.S.
  • Page 6 Siemensstraße 25A • 61352 Bad Homburg • Germany Phone: +49 (0) 6172 17 17 771 • Fax: +49 (0) 6172 17 17 799 • bio-eu@licor.com LI-COR Biosciences UK Ltd. St. John’s Innovation Centre • Cowley Road Cambridge • CB4 0WS United Kingdom •...

  • Page 7: Table Of Contents

    Odyssey® Table of Contents Imager Chapter 1: Safety and Operational Information In This Manual... Safety Considerations Laser Safety Safety Interlocks Placement in the Laboratory Ambient Laboratory Conditions Ventilation Space Requirements Removing the Laser/Microscope Assembly Shipping Lock Moving the Imager Level the Imager Electrical Considerations Power Cords Fuse Replacement...
  • Page 8 Loading Microplates for Standard Scans Starting Microplate Scans Scanning Membranes in the Membrane Carrier Loading a Membrane Scanning Membranes Scanning Gels in the Membrane Carrier Using the Bar Code Reader (Optional Accessory) Chapter 4: Assembling the Odyssey Sa System Introduction Import the Odyssey Sa Express Software Key Assembling the Odyssey Sa System Adding Users...

  • Page 9: Chapter 1: Safety And Operational Information

    Odyssey® Chapter 1: Imager Safety and Operational Information In This Manual... The following topics are discussed in this manual: Safety considerations. Instrument placement and power considerations. Description of detection optics and signal processing. Operation of the Odyssey® Sa Imager. Safety Considerations Laser Safety The Center for Devices and Radiological Health (CDRH) was established in October, 1982, by the U.S.

  • Page 10: Safety Interlocks

    CDRH compliance notices, 3) Laser radiation exposure warning, and 4) Class 1 Laser Product classification. Chemical Safety LI-COR Biosciences recommends that all biochemicals be handled carefully, and that safe laboratory procedures be followed at all times. Be aware of the hazards associated with any chemical before you begin work.

  • Page 11: Placement In The Laboratory

    Please contact LI-COR Technical Support for help in removing these screws. Moving the Imager LI-COR recommends that you do not move your imager. Instead, please contact LI-COR Technical Support for options. LI-COR cannot be held responsible for any damage incurred while moving, transporting, or shipping the Odyssey Sa Imager, even if an existing warranty and/or service contract applies.

  • Page 12: Electrical Considerations

    Fuse Replacement There are no user serviceable fuses inside the Odyssey Sa Imager. If the instrument fails to power up, and you suspect that a fuse has blown, contact LI-COR Technical Support. Routine Maintenance The Odyssey Sa Imager requires only minimal maintenance. However, as with any equipment utilizing electrical voltages, there is a danger of fire or electrical shock if the equipment is not properly maintained.
  • Page 13 Odyssey® Sa Imager carbon tetrachlorides, lacquer thinner, or alcohol to clean the case. Inspect all cables and power cords for evidence of fraying, exposed wire, or loose connections. Page 13...
  • Page 14 Page 14...

  • Page 15: Chapter 2: Overview And General Description

    Odyssey® Chapter 2: Imager Overview and General Description Buttons and Indicator Lights Power Button Briefly press the power button on the front panel to start up or shut down the Odyssey® Sa instrument. An indicator light in the power button blinks during the start-up or shut-down procedure and is continuously on when the instrument is ready to operate.

  • Page 16: Using The Eject Button To Reset Network Parameters

    Instrument Status: The instrument status light is normally off, but illuminates red when there is a malfunction in the instrument. Contact LI-COR Technical Support if the instrument status light turns on. Back Panel Connectors ®...

  • Page 17: Odyssey Sa Server And Server Software

    Software. The Odyssey Sa server has a pre-installed copy of Odyssey Sa Server software. This software is periodically updated with new releases that are posted on LI-COR Biosciences’ web site. Users will be contacted with download instructions when new releases are available.
  • Page 18 Page 18...

  • Page 19: Chapter 3: Operation

    When choosing a brand of plate, test it to make sure you have sufficient fluorescent intensity from the samples and that the background fluorescence from the plate is low. The following plates are recommended by LI-COR Biosciences: 96-well format Nunc®...

  • Page 20: Determining Focus Offset

    Chapter 3: Operation Width: 3.365" (85.47 mm) +/0.015" (0.38 mm) at the corners Length: 5.030" (127.76 mm) +/- 0.015" (0.38mm) at the corners Height: 0.565" (14.35 mm) +/- 0.010" (0.254 mm) ® Note: The Odyssey Sa Imager does support deep-well microplates, but the Bio-Stack does not. Determining Focus Offset The Odyssey Sa Imager requires that microplates have a maximum of 4.0 mm distance from the base of the microplate to the target detection area of the plate.

  • Page 21: Starting Microplate Scans

    The Focus Offset can be set at 3.0 mm when using the plates specified by LI-COR Biosciences. The Intensity for both 700 and 800 nm channels should be set to 7 for initial scanning. If the image signal is saturated or too high, rescan using a lower intensity setting (i.e., 4).

  • Page 22: Scanning Membranes

    Chapter 3: Operation 2) Place the membrane face-down onto the surface of the Membrane Carrier. Avoid introducing bubbles, and ensure that the membrane lies flat and completely within the edge boundaries of the Carrier. Membranes may be scanned wet or dry. When placing dry membranes onto the Membrane Carrier, make sure that the membrane lies flat on the glass surface.

  • Page 23: Scanning Gels In The Membrane Carrier

    Odyssey® Sa Imager Scanning Gels in the Membrane Carrier The Odyssey Sa Imager can also be used to document Coomassie- stained gels, provided the gels fit in the Odyssey Sa Membrane Carrier (10.5 x 6.5 cm maximum) and are thin enough (< 2 mm) that the laser/microscope has enough focus offset to focus in the gel.
  • Page 24 Chapter 3: Operation For best results, it is recommended that the bar code is centered on the side of the plate and its dimensions are 51 mm wide by 9.5 mm high. There is a maximum number of characters for each of the supported bar code symbologies that will fit these dimensions and the minimum bar code line width of at least 0.177 mm.

  • Page 25: Chapter 4: Assembling The Odyssey Sa System

    Odyssey® Chapter 4: Imager Assembling the Odyssey Sa System Introduction Though not intended to be an installation guide, this chapter gives basic information on assembling the Odyssey Sa Infrared Imaging System. The Odyssey Sa Imager is a network server device that connects to a network, and ultimately to a computer, via TCP/IP.
  • Page 26 Chapter 4: Assembling the Odyssey Sa System ® 4) Turn on the computer and the Odyssey Sa Imager, and wait for their start-up procedures to be completed. Note: Make sure the networking cable is connected to the Odyssey Sa Imager and computer before turning on the power to either one.

  • Page 27: Adding Users

    Odyssey® Sa Imager If you cannot connect to the instrument, see Reset to Automatic IP Addressing on the next page. The default administrator account shipped with the Odyssey Sa instrument is named “admin” and the password is also “admin” (case sensitive). If you can log in using the default admin/admin account, you are successfully connected and will be able to create new user (control) accounts.

  • Page 28: Reset To Automatic Ip Addressing

    Chapter 4: Assembling the Odyssey Sa System In this dialog set the network configuration to either Automatic or Manual. In most cases, use ® Automatic addressing for the Odyssey Sa Imager. Reset to Automatic IP Addressing If you cannot connect to your Odyssey Sa Imager, it is possible that it is configured to an unknown manual address.
  • Page 29 Odyssey® Sa Imager 1) Start with both the computer and instrument turned off. 2) Make sure the included Cat. 5 RJ45 cable is connected to the network port on the Odyssey Sa instrument. The network port is identified in Chapter 2. Note: Use only the networking cables provided with the Odyssey Sa Imager.
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  • Page 31: Chapter 5: Installing A Biotek® Biostack™ Plate Stacker

    50 microplates to be scanned during an express run. Installation requires the Plate Stacker Install Kit (LI-COR, P/N 9250-14), which is used to lock the BioStack Plate Stacker in position at the correct height and distance from the Odyssey Sa Imager. It also includes communication cables to connect the two instruments.

  • Page 32: Initial Odyssey Sa Setup

    Chapter 5: Installing a BioTek® BioStack™ Plate Stacker ® 7) Orient the BioStack Plate Stacker so that microplates are correctly positioned on the Odyssey Imager plate carrier. 8) Use the Image Studio software to adjust the vertical travel of the BioStack plate gripper to match the height of the Odyssey Sa Imager plate carrier.
  • Page 33 Odyssey® Sa Imager Warning: Do not apply power to the BioStack Plate Stacker or Odyssey Sa Imager until directed to do so later in this procedure. Do not install the input/output stacks until installation is complete. Avertissement: Ne pas mettez sur le dispotif d’empilement de microplaques BioStack ou le Odyssey Sa Imager jusqu’à...

  • Page 34: Connecting Power And Communication Cables

    Chapter 5: Installing a BioTek® BioStack™ Plate Stacker 5) Secure the BioStack Plate Stacker to the stand using four thumb- screws. Connecting Power and Communication Cables ® 6) Connect one end of the USB cable into one of the Odyssey Sa Imager USB ports.

  • Page 35: Leveling The Odyssey Sa Imager

    Odyssey® Sa Imager 8) Connect the power supply to the BioStack Plate Stacker and tighten the threaded retainer ring until it is finger tight. Plug the power cord into a wall outlet. 9) Turn on the BioStack Plate Stacker. Initialization takes about 20 seconds. 10) If necessary, connect the power and network cables to the Odyssey Sa Imager as described earlier in this manual.

  • Page 36: Installing The Locator Clamp

    Chapter 5: Installing a BioTek® BioStack™ Plate Stacker Note: If the bubble level is difficult to see, it can be moved to the alternate position as shown above. ® 14) Turn the leveling feet in or out on the Odyssey Sa Imager until the bubble falls within the circle on the bubble level, indicating that the instrument is level.

  • Page 37: Leveling The Biostack™ Plate Stacker

    Odyssey® Sa Imager Figure 8-2. Front view showing the locator clamp locked in position around the two front legs of the Odyssey Sa Imager Figure 8-3. Side view showing the locator clamp locked in position with the left front leg clamped in the indentation in the clamp.
  • Page 38 Chapter 5: Installing a BioTek® BioStack™ Plate Stacker ® Important: Be careful during the height adjustments. Do not let the Odyssey Sa Imager plate carrier collide with the linear bearing on the BioStack Plate Stacker. 24) Push the eject button on the Odyssey Sa Imager front panel to retract the plate carrier. 25) Turn off the BioStack Plate Stacker.

  • Page 39: Connecting The Biostack Plate Stacker To The Locator

    Odyssey® Sa Imager 27) Adjust the leveling feet on the BioStack stand until the bubble level indicates the plate gripper is level. Adjust the feet only enough to level the instrument, while trying to maintain the same height and clearance from the Odyssey Sa Imager plate carrier. 28) Move the plate gripper to its highest position and press the eject button on the Odyssey Sa Imager to extend the plate carrier.
  • Page 40 Chapter 5: Installing a BioTek® BioStack™ Plate Stacker 32) If you need to adjust the height of the alignment pins, hold the threaded washer below the stand and unscrew the knob until it comes off. While holding the threaded washer, screw the align- ment pin in or out as needed to adjust the height and then replace the knob, but don’t tighten it.

  • Page 41: Biostack X-Y Alignment

    Odyssey® Sa Imager 34) Press the eject button on the Odyssey Sa Imager to extend the plate carrier and verify there is enough clearance between it and the BioStack Plate Stacker. 35) Slide the leveling and alignment fixture back in the plate gripper and verify that the BioStack accessory is level.
  • Page 42 Chapter 5: Installing a BioTek® BioStack™ Plate Stacker 38) If you observe that the fixture will contact one or more of the pins as it is lowered, carefully move the BioStack™ Plate Stacker in small increments until the fixture drops onto the surface of the plate carrier without hitting any of the pins and binding.

  • Page 43: Biostack Z-Axis Training

    Odyssey® Sa Imager 42) Press the eject button on the Odyssey Sa Imager to retract the plate carrier. 43) Turn on the BioStack instrument and wait for it to initialize. BioStack Z-Axis Training The final procedure is to adjust the vertical (Z-axis) travel of the BioStack plate gripper.
  • Page 44 Chapter 5: Installing a BioTek® BioStack™ Plate Stacker 46) Click Z-Axis Training in the BioTek® BioStack™ window. 47) Click Start in the Z-axis training window. This moves the BioStack plate gripper to its highest ® vertical position and opens the Odyssey Sa Imager plate carrier.
  • Page 45 Odyssey® Sa Imager 48) Use the supplied calibration ruler to measure, in millimeters, from the bottom tip of the plate gripper to the top surface of the Odyssey Sa Imager plate carrier. 49) Enter the measured Z-axis distance plus three millimeters (integers only) in the Move Amount (mm) field, or use the arrows to set a value.

  • Page 46: Express Run Errors Related To The Biostack Plate Stacker

    Chapter 5: Installing a BioTek® BioStack™ Plate Stacker 51) If the gripper stops above the Odyssey Sa plate carrier, put one millimeter in the Move Amount and click Move Down again. Conversely, if the gripper arms travel downward more than half way through the thickness of the Odyssey Sa Imager plate carrier, put one millimeter in the Move Amount and click Move Up.
  • Page 47 Odyssey® Sa Imager loose and stick to something. If the instruments have been moved out of alignment, you may also get errors if the BioStack Plate Stacker can’t pickup a plate or if it drops the plate incorrectly on the Odyssey Sa Imager plate carrier.
  • Page 48 Page 48...

  • Page 49: Chapter 6: Appendix

    Odyssey® Chapter 6: Imager Appendix Specifications Laser/Microscope Laser Lifetime: 40,000 hours typical. 700 Channel Laser Source: Solid-state diode laser at 685 nm. 800 Channel Laser Source: Solid-state diode laser at 785 nm. Detectors: Silicon avalanche photodiodes. Scanning Speed: 6 minutes with 100 μm resolution. Resolution: 20-500 µm.
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