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ZenoTOF 7600 System System User Guide RUO-IDV-05-10350-F July 2023...
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SCIEX warranties are limited to those express warranties provided at the time of sale or license of its products and are the sole and exclusive representations, warranties, and obligations of SCIEX. SCIEX...
Shut Down and Vent the System.................... 25 Diverter Valve..........................27 Plumb the Diverter Valve in Injector Mode................. 27 Plumb the Diverter Valve in Diverter Mode................ 28 Calibrant Delivery System.......................30 Replace the CDS Bottle..................... 30 System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 3/83...
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APCI Calibration Ions......................68 ESI Calibration Ions........................ 70 B Exact Masses and Chemical Formulas................72 C Glossary of Symbols......................74 D Glossary of Warnings......................80 Contact Us..........................82 Customer Training........................82 Online Learning Center......................82 SCIEX Support........................82 ZenoTOF 7600 System System User Guide 4/83 RUO-IDV-05-10350-F...
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Contents CyberSecurity..........................82 Documentation........................82 System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 5/83...
The following symbols and conventions are used throughout the guide. DANGER! Danger identifies an action that can cause severe injury or death. WARNING! Warning identifies an action that can cause personal injury if precautions are not obeyed. ZenoTOF 7600 System System User Guide 6/83 RUO-IDV-05-10350-F...
• EN 61326-1 • EN 55011 (Class A) Refer to the section: Electromagnetic Compatibility. • Safety: Low Voltage Directives 2014/35/EU as implemented in these standards: • EN 61010-1 System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 7/83...
Removal of the covers is not required for routine maintenance, inspection, or adjustment. Contact a SCIEX Field Service Employee (FSE) for repairs that require removal of the covers. ZenoTOF 7600 System...
WARNING! Electrical Shock Hazard. Make sure that a protective earth conductor (grounding cable) is connected between the sample loop and an applicable grounding point at the ion source. This supplementary grounding reinforces the safety configuration specified by SCIEX. System User Guide ZenoTOF 7600 System...
For the health and safety precautions that must be obeyed for a chemical, refer to the safety data sheet (SDS). For storage information, refer to the certificate of analysis. To find a SCIEX safety data sheet or certificate of analysis, go to sciex.com/tech-regulatory. • Always wear assigned personal protective equipment, including powder-free gloves, safety glasses, and a laboratory coat.
CAUTION: Potential System Damage. Do not use any other fluid until confirmation is received from SCIEX that it does not cause a hazard. This is not an exhaustive list. Note: Use only new, freshly prepared LC-MS-grade or better solvents for the LC mobile phases.
WARNING! Puncture Hazard, Ionizing Radiation Hazard, Biohazard, or Toxic Chemical Hazard. If the ion source window is cracked or broken, then do not use the ion source. Contact a SCIEX Field Service Employee (FSE). Any toxic or injurious materials introduced in the equipment will be present in the source exhaust output.
CAUTION: Potential Mass Shift. Maintain a stable ambient temperature. If the temperature changes by more than 2 °C per hour, then the resolution and mass calibration might be affected. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 13/83...
Operation of this equipment in a residential area is likely to cause harmful interference in which case you will be required to correct the interference, at your own expense. Changes or ZenoTOF 7600 System System User Guide 14/83...
Customer Familiarization Checklist to help the customer become familiar with system operation, cleaning, and basic maintenance. If a system is under warranty, then SCIEX is not responsible for repairs required because of servicing by personnel who are not authorized by SCIEX.
WARNING! Personal Injury Hazard. Use SCIEX-recommended parts only. The use of parts that are not recommended by SCIEX or the use of parts for any purpose other than their intended purpose can put the user at risk of harm or have a negative effect on system performance.
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If the system is operated outside the recommended environmental conditions or with unauthorized modifications, then the acquired data might be inaccurate. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 17/83...
(APCI) probe. Refer to the document: Turbo V Ion Source Operator Guide. • A SCIEX-supplied computer and monitor with the control software for instrument optimization, acquisition method development, data acquisition, and processing. For computer specifications and requirements, refer to the software documentation.
Alternate (left) location for diverter valve. For more information, contact an FSE. Ion source. Refer to the ion source Operator Guide. Calibrant bottles. Refer to Replace the CDS Bottle. Panel symbols. Refer to Panel Symbols. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 19/83...
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Column heater connection. Used to supply power to the ion source column heater, if power cannot be supplied by the LC system. AUX IO connection. Not used. Ethernet connection. Used for communication with the acquisition computer. Zero air gas supply ZenoTOF 7600 System System User Guide 20/83 RUO-IDV-05-10350-F...
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After the system is turned on, the power LED illuminates, and the fault LED flashes for a few seconds. Then the vacuum LED starts to flash. After the operating vacuum level is achieved, this LED remains illuminated. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 21/83...
Mass spectrometry measures the mass-to-charge ratio of ions to identify and quantify compounds. The ZenoTOF 7600 system has a series of quadrupole filters that select or transmit ions according to their mass-to-charge ratio (m/z). The first quadrupole in this series is the QJet ion guide, which is located between the orifice plate and the Q0 region.
WARNING! Personal Injury Hazard. Follow the instructions in the documentation when using the system. The protection provided by the equipment might be impaired if the equipment is used in a manner not specified by SCIEX. Start Up the System WARNING! Electrical Shock Hazard. Make sure that the system can be disconnected from the mains supply outlet in an emergency.
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Dry pump: Make sure that the circuit breaker on the back of the pump is turned on, and then press the Start button on the front panel. Figure 3-2 Dry Pump, Front and Back ZenoTOF 7600 System System User Guide 24/83...
Open the SCIEX OS software. After Venting the Mass Spectrometer • Do a Quick Status Check in the MS Tune workspace of the SCIEX OS software. Refer to the document: Help System. • If resolution drift occurs 16 to 24 hours after startup, then perform a Quick Status Check again.
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Unless the gas supply is turned off, nitrogen gas will continue to flow through the curtain plate at a rate of 4 L/min when the instrument is shut down and vented. ZenoTOF 7600 System System User Guide 26/83...
When the valve is in Position A, the sample flows through the external loop. When the valve switches to Position B, the sample is injected. • Plumb the valve for Injector mode. Figure 3-4 Diverter Valve—Injector Mode Position A System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 27/83...
When the valve is in Position A, the sample flow goes to the mass spectrometer. When the valve switches to Position B, the flow goes to waste. • Plumb the valve for Diverter mode. ZenoTOF 7600 System System User Guide 28/83...
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Operating Instructions — Hardware Figure 3-6 Diverter Valve—Diverter Mode Position A Figure 3-7 Diverter Valve—Diverter Mode Position B System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 29/83...
Start the CDS Use the direct control function to start the CDS manually when flushing the CDS or when introducing solutions during tuning. In the SCIEX OS software, on the status panel, click (Direct CDS control). The Device Control dialog opens.
Operating Instructions — Hardware Figure 3-8 Device Control (CDS) Click Start. Stop the CDS In the SCIEX OS software, on the status panel, click (Direct CDS control). Click Stop. Flush the CDS WARNING! Toxic Chemical Hazard. Refer to the chemical product Safety Data Sheets and follow all of the recommended safety procedures when handling, storing, and disposing of chemicals.
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The container must hold at least 20 mL of additional solution that might come out of the instrument. In the SCIEX OS software, follow these steps to put the CDS in Wash mode: On the status panel, click (Direct CDS control).
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Press the bottle sensor switch for 1 minute or until 20 mL of solvent accumulates into the waste container. 10. Discard the waste. 11. Repeat step to step to purge the wash solution. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 33/83...
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Tip! We recommend that the tubing be flushed with the new calibrant solution before the new calibrant is allowed to recirculate back into the calibrant bottle. 13. Clear Wash Mode. 14. Put the return tubing into the calibrant bottle, and then install the bottle. ZenoTOF 7600 System System User Guide 34/83 RUO-IDV-05-10350-F...
Laboratory Director Guide. Configure the LIMS Help System. Add users to the software and assign roles Laboratory Director Guide or Help System. Archive logs Help System. Reviewer Review processed results Help System. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 35/83...
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Operating Instructions — User Workflows Table 4-1 User Workflows (continued) Task Reference Explore data Help System. Review logs Help System. ZenoTOF 7600 System System User Guide 36/83 RUO-IDV-05-10350-F...
Removal of the covers is not required for routine maintenance, inspection, or adjustment. Contact a SCIEX Field Service Employee (FSE) for repairs that require removal of the covers. WARNING! Ionizing Radiation Hazard, Biohazard, or Toxic Chemical Hazard.
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• Overall system run time To order consumable parts and for basic service and maintenance requirements, contact a QMP or refer to the document: Parts and Equipment Guide. Contact a SCIEX FSE for all other service and maintenance requirements. Table 5-1 Mass Spectrometer Maintenance Tasks...
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• Oil-sealed roughing pump: Refill the oil when the oil falls below the minimum oil level. • Examine all of the exhaust connections at regular intervals to make sure that the integrity is maintained, and that any exhaust is removed from the customer lab. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 39/83...
• Increased background noise • Additional peaks that are not part of the sample in full scan or survey scan methods If any of these issues are observed, then clean the mass spectrometer front-end. ZenoTOF 7600 System System User Guide 40/83...
Service and Maintenance Information Required Materials Note: U.S. customers can call 877-740-2129 for ordering information and inquiries. International customers can visit sciex.com/contact-us. • Powder-free gloves, nitrile or neoprene recommended • Safety glasses • Laboratory coat • Fresh LC-MS-grade water. Old water can contain contaminants that can further contaminate the mass spectrometer.
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• To avoid cross-contamination, discard the wipe or swab after it has touched the surface once. • If required, perform multiple cleanings, using multiple wipes for larger parts of the vacuum interface, such as the curtain plate. ZenoTOF 7600 System System User Guide 42/83...
WARNING! Hot Surface Hazard. Let the Turbo V ion source cool for at least 30 minutes before starting any maintenance procedures. Some surfaces of the ion source and vacuum interface become hot during operation. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 43/83...
Figure 5-2 Source Drain on the Vacuum Interface Deactivate the devices in the SCIEX OS software. Refer to the document: Help System. Remove the ion source. Refer to the document: Turbo V Ion Source Operator Guide.
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Wait until the curtain plate is dry. Inspect the curtain plate for solvent stains or lint, removing any residue with a clean, slightly damp, lint-free wipe. Note: Persistent spotting or filming is an indicator of contaminated solvent. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 45/83...
Operator Guide. Tighten the ion source by turning the source latches down in the locking position. Activate the devices in the SCIEX OS software. Refer to the document: Help System. Empty the Source Exhaust Drain Bottle WARNING! Hot Surface Hazard. Let the Turbo V ion source cool for at least 30 minutes before starting any maintenance procedures.
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Follow the steps in this procedure to empty the bottle. Remove the ion source. Refer to the document: Turbo V Ion Source Operator Guide. Loosen the clamps connecting the hoses to the cap of the source exhaust drain bottle. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 47/83...
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Roughing pump exhaust hose: 3.2 cm (1.25 inch) i.d. Source exhaust drain bottle Make sure that the bottle is secured to prevent spillage. Source exhaust connection to the mass spectrometer: 1.6 cm (0.625 inch) i.d. ZenoTOF 7600 System System User Guide 48/83 RUO-IDV-05-10350-F...
The check valve prevents calibrant from flowing into the ion source when the CDS is off. The flow module is a dimension-critical 10 cm length of black tubing that controls the flow rate of the calibrant into the ion source. Figure 5-5 Check Valve and Flow Module System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 49/83...
Replace the CDS Bottle Intake Filters WARNING! Toxic Chemical Hazard. Refer to the chemical product Safety Data Sheets and follow all of the recommended safety procedures when handling, storing, and disposing of chemicals. ZenoTOF 7600 System System User Guide 50/83 RUO-IDV-05-10350-F...
• Inspect the sight glass on the roughing pump to make sure that the oil is above the minimum level. If the oil is below the minimum level, then contact the Qualified Maintenance Person (QMP) or SCIEX Field Service Employee (FSE). System User Guide ZenoTOF 7600 System...
If the mass spectrometer must be stored for a long time or prepared for shipping, then contact a SCIEX FSE for decommissioning information. To disconnect power from the mass spectrometer, remove the mains supply connector from the AC mains supply.
On the right front side of the mass spectrometer, pull out the locking pin that attaches the lifting bar, pull out the bar until the hole in the bar lines up with the hole in the tube, and then attach the bar with the locking pin. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 53/83...
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Install a short block on each lifting bar, and then attach it with a locking pin. CAUTION: Potential System Damage. Make sure that all locking pins are fully inserted, to avoid dropping the mass spectrometer while it is being moved. ZenoTOF 7600 System System User Guide 54/83...
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Note: The ends of the long bars must extend a greater distance at the back of the mass spectrometer. The front end of the long bars are marked. Repeat step on the left side of the mass spectrometer. 10. Install the locking pins in the long rods. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 55/83...
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11. Install the tall blocks on the ends of the long rods at the back of the mass spectrometer, and then attach the blocks with two locking pins. Figure 5-12 Tall Block Installed ZenoTOF 7600 System System User Guide 56/83...
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12. At the back of the mass spectrometer, insert a short rod through the tall blocks. 13. Attach the short rods with two locking pins. Figure 5-13 Installing the Locking Pin on the Short Rod System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 57/83...
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Service and Maintenance Information Figure 5-14 Lifting Kit Installed 14. With the assistance of 10 additional people, move the mass spectrometer to the new location, lifting in unison. ZenoTOF 7600 System System User Guide 58/83 RUO-IDV-05-10350-F...
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19. Install the left and right skirts. 20. Close the dress panel. 21. Connect the vacuum hose, gas tubing, source exhaust tubing, power cable, Ethernet cable, and InfiniBand (ADC PCB) cable to the mass spectrometer. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 59/83...
• Slotted screwdriver • Insert a screwdriver through the hole in the front dress panel to release the locking pin, remove the screwdriver, and then open the dress panel from the right side. ZenoTOF 7600 System System User Guide 60/83...
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Service and Maintenance Information Figure 5-17 Hole in Front Dress Panel System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 61/83...
Mass Spectrometer Troubleshooting This section contains information for troubleshooting basic system issues. Certain activities can only be carried out by a SCIEX-trained Qualified Maintenance Person (QMP) in the laboratory. For advanced troubleshooting, contact a SCIEX Field Service Employee (FSE). Table 6-1 System Issues...
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Install the probe. Refer to the ion source document: Operator Guide. Remove and then install the probe. Tighten the retaining ring securely. Refer to the ion source document: Operator Guide. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 63/83...
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Do not overtighten the fittings. Replace the fittings if leaks continue. Install and optimize an alternate ion source. Contact an FSE if the issue persists. ZenoTOF 7600 System System User Guide 64/83 RUO-IDV-05-10350-F...
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The nut that secures the electrodes on the ion Tighten the nut that secures the electrodes. source probe is not tight. The probe is not installed properly. Remove and install the probe. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 65/83...
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Clean the curtain plate. Refer to the section: Clean the Curtain Plate. The orifice plate is dirty. Clean the front of the orifice plate. Refer to the section: Clean the Front of the Orifice Plate. ZenoTOF 7600 System System User Guide 66/83 RUO-IDV-05-10350-F...
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Curtain Gas interface to 45 or 50. Run for a minimum of 2 hours, or preferably overnight, for best results. For sales, technical assistance, or service, contact an FSE or visit the SCIEX website at sciex.com for contact information. System User Guide...
Recommended Calibration Ions Recommended Calibration Ions The following table list the standards recommended by SCIEX for calibrating the ZenoTOF 7600 LC-MS/MS system. CAUTION: Potential Wrong Result. Do not use expired solutions or solutions that have not been stored at the indicated storage temperature.
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Fragment Ion 2 249.1033 277.0983 Fragment Ion 3 217.0771 158.0611 Fragment Ion 4 200.0591 125.0067 Fragment Ion 5 158.0611 93.0344 Fragment Ion 6 130.0662 Fragment Ion 7 116.0506 Fragment Ion 8 77.0397 System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 69/83...
235.136 397.212 706.486 Fragment ion 5 227.05 365.186 607.418 Fragment ion 6 220.112 236.128 532.334 Fragment ion 7 86.0964 195.065 512.344 Fragment ion 8 58.0651 174.091 494.334 411.297 399.26 381.25 298.213 268.166 ZenoTOF 7600 System System User Guide 70/83 RUO-IDV-05-10350-F...
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248.9604 520.9100 928.8344 Fragment Ion 112.9856 154.9738 204.9706 384.9352 792.8596 Fragment Ion 68.99576 112.9856 154.9738 248.9604 656.8848 Fragment Ion 112.9856 204.9706 520.9100 Fragment Ion 154.9738 384.9352 Fragment Ion 112.9856 248.9604 204.9706 154.9738 System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 71/83...
Table B-2 Peptide ALILTLVS Exact Mass Name Sequence Mass Charge State Precursor Ion ALILTLVS 829.5393 ALILTLVS 811.5288 ALILTLV 724.4967 b7-18 ALILTLV 706.4862 b6-18 ALILTLV 607.4178 LTLVS 532.3341 ALILT 512.3443 b5-18 ALILT 494.3337 ALIL 411.2966 298.2125 ZenoTOF 7600 System System User Guide 72/83 RUO-IDV-05-10350-F...
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Table B-2 Peptide ALILTLVS Exact Mass (continued) Name Sequence Mass Charge State Internal fragment y|b IL or LI 227.1754 Internal fragment y|b LT or TL 215.139 185.1285 157.1335 Immonium Ions I or L 86.09643 System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 73/83...
Authorized representative in the European community Biohazard CE Marking of Conformity Catalog number Caution. Consult the instructions for information about a possible hazard. Note: In SCIEX documentation, this symbol identifies a personal injury hazard. ZenoTOF 7600 System System User Guide 74/83 RUO-IDV-05-10350-F...
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TUV Rheinland of North America Data Matrix symbol that can be scanned by a barcode reader to obtain a unique device identifier (UDI) Environmental Hazard Ethernet connection Explosion Hazard System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 75/83...
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Hertz International safety symbol "Caution, risk of electric shock" (ISO 3864), also known as High Voltage symbol If the main cover must be removed, then contact a SCIEX representative to prevent electric shock. Hot Surface Hazard In Vitro Diagnostic Device Ionizing Radiation Hazard Keep dry.
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Description Keep upright. Lacerate/Sever Hazard Laser Radiation Hazard Lifting Hazard Magnetic Hazard Manufacturer Moving Parts Hazard Pacemaker Hazard. No access to people with pacemakers. Pinching Hazard Pressurized Gas Hazard Protective Earth (ground) System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 77/83...
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Transport and store the system within –30 °C to +45 °C. Transport and store the system within –30 °C to +60 °C. Ultraviolet Radiation Hazard United Kingdom Conformity Assessment Mark UKRP United Kingdom Responsible Person ZenoTOF 7600 System System User Guide 78/83 RUO-IDV-05-10350-F...
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Glossary of Symbols Symbol Description Volt Ampere (apparent power) Volts (voltage) WEEE. Do not dispose of equipment as unsorted municipal waste. Environmental Hazard Watts (power) yyyy-mm-dd Date of manufacture System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 79/83...
INCLUDING TRIPPED IMPACT-O-GRAPH OR TIP-N-TELL INDICATORS, ON THE OR TIP-N-TELL INDICATORS, ON THE WAYBILL BEFORE ACCEPTING SHIPMENT. WAYBILL BEFORE ACCEPTING SHIPMENT. NOTIFY YOUR LOCAL SCIEX CUSTOMER NOTIFY YOUR LOCAL SCIEX CUSTOMER SUPPORT ENGINEER IMMEDIATELY. SUPPORT ENGINEER IMMEDIATELY. TIP & TELL...
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ELEVEN PERSONS REQUIRED TO LIFT THIS EQUIPMENT. THIS EQUIPMENT. WARNING: NO USER SERVICEABLE PARTS WARNING: NO USER SERVICEABLE PARTS INSIDE. REFER SERVICING TO QUALIFIED INSIDE. REFER SERVICING TO QUALIFIED PERSONNEL. PERSONNEL. Note: Consult instructions for use. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 81/83...
SCIEX Now Learning Hub SCIEX Support SCIEX and its representatives maintain a staff of fully-trained service and technical specialists located throughout the world. They can answer questions about the system or any technical issues that might arise. For more information, visit the SCIEX website at sciex.com...
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Contact Us Note: To request a free, printed version of this document, contact sciex.com/contact-us. System User Guide ZenoTOF 7600 System RUO-IDV-05-10350-F 83/83...
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