Thermo Scientific TSQ Altis Hardware Manual

Thermo Scientific TSQ Altis Hardware Manual

Tsq ii series
Table of Contents
TSQ Series II
TSQ Altis, TSQ Quantis,
and TSQ Fortis
Hardware Manual
80111-97047 Revision A
June 2018
Table of Contents
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Summary of Contents for Thermo Scientific TSQ Altis

  • Page 1 TSQ Series II TSQ Altis, TSQ Quantis, and TSQ Fortis Hardware Manual 80111-97047 Revision A June 2018...
  • Page 2 OptaMax NG, TSQ Fortis, and Viper are trademarks; Unity is a registered service mark; and Hypersil GOLD AQ, Thermo Scientific, TSQ Altis, TSQ Quantis, and Xcalibur are registered trademarks of Thermo Fisher Scientific Inc. in the United States. Fisher Scientific is a registered trademark of Fisher Scientific Co.
  • Page 3 Regulatory Compliance Thermo Fisher Scientific performs complete testing and evaluation of its products to ensure full compliance with applicable North American and European regulations. Your system meets the applicable requirements in the electromagnetic compatibility (EMC) and product safety standards described in this section. Unauthorized changes that you make to your system will void regulatory compliance and may defeat the built-in protections for your instrument.
  • Page 4 Notice on Lifting and Handling of Thermo Scientific Instruments For your safety, and in compliance with international regulations, the physical handling of this Thermo Fisher Scientific instrument requires a team effort to lift and/or move the instrument.
  • Page 5 WEEE Directive 2012/19/EU Thermo Fisher Scientific is registered with B2B Compliance (B2Bcompliance.org.uk) in the UK and with the European Recycling Platform (ERP-recycling.org) in all other countries of the European Union and in Norway. If this product is located in Europe and you want to participate in the Thermo Fisher Scientific Business-to-Business (B2B) Recycling Program, send an email request to [email protected] with the following information:...
  • Page 7: Table Of Contents

    TSQ Altis MS ........
  • Page 8 Guidelines for LC/H-ESI/MS Parameters ......49 viii TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 9 Using Tune to Acquire Sample Data ....... . . 82 Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 10 Setting the Tune Preferences ........118 TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 11 Index ............. . .155 Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 12 Contents TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 13 Gas inlets and vacuum (foreline) port (left side of the MS) ....16 Figure 6. API source interface for the TSQ Altis MS (cross section) ....18 Figure 7.
  • Page 14 Ion sweep cone removed from the MS mount assembly ....104 Figure 54. Ion transfer tube removal tool (TSQ Altis MS) ......105 Figure 55.
  • Page 15: Preface

    Preface The TSQ Altis, Quantis, and Fortis Hardware Manual describes how to set up and calibrate the Thermo Scientific™ TSQ Altis™, TSQ Quantis™, and TSQ Fortis™ triple quadrupole mass spectrometry systems. It also describes the modes of operation, hardware components, and how to maintain the instrument.
  • Page 16: Viewing The Help

    Note Highlights information of general interest. Highlights helpful information that can make a task easier. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 17 Risk of eye injury: Eye injury can occur from splattered chemicals, airborne particles, or sharp objects. Wear safety glasses when handling chemicals or servicing the instrument. Sharp object: Avoid handling the tip of the syringe needle. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual xvii...
  • Page 18: Contacting Us

    Note To provide feedback for this document, go to surveymonkey.com/s/PQM6P62 or send an email message to Technical Publications ([email protected]). You can use your smartphone to scan a QR Code, which opens your email application or browser. xviii TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 19: Chapter 1 Introduction

    Introduction The TSQ Altis, TSQ Quantis, and TSQ Fortis MSs are triple quadrupole atmospheric pressure ionization (API) mass spectrometers. Note The Glossary defines some of the terms used in this manual. • Mass Spectrometry Models • MS Mass-To-Charge Ratio Ranges Mass Spectrometry Models The MS models are the TSQ Altis, TSQ Quantis, and TSQ Fortis.
  • Page 20: Tsq Quantis Ms

    The reliable instrument design, intuitive software, and comprehensive workflow solutions of TSQ Fortis MS ensures superior productivity in the quantitation of hundreds of compounds of all types—in any matrix, by any user. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 21: Ms Mass-To-Charge Ratio Ranges

    Introduction MS Mass-To-Charge Ratio Ranges MS Mass-To-Charge Ratio Ranges The TSQ Altis, TSQ Quantis, and TSQ Fortis MSs detect different ranges of mass-to-charge ratios. m/z Range in amu Instrument TSQ Altis 5–2000 TSQ Quantis 5–3000 TSQ Fortis 5–3000 Thermo Scientific...
  • Page 22 Introduction MS Mass-To-Charge Ratio Ranges TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 23: Principles Of Operation

    • Overview of the MS System • Overview of Ion Optics and Mass Analyzer Overview of the MS System Figure 1. Block diagram of MS hardware components Data system Inlet Mass spectrometer Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 24 Instrument control electronic assemblies Control the MS components. Data System Monitor The data system processes the voltage signal and displays it as a graph that can be printed. Computer Printer (optional) TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 25: Overview Of Ion Optics And Mass Analyzer

    Overview of Ion Optics and Mass Analyzer The ion optic assemblies and the mass analyzer assemblies control the path of the ions from the ion source to the detector. Figure 2. Ion optics and mass analyzer assemblies Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 26 Dual-mode, discrete-dynode Ions and electrons strike the electron multiplier and release a cascade of detector electrons. The detector converts the current of the electrons to a voltage that the data system records. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 27: Chapter 3 Vacuum System

    Vacuum System The TSQ Altis, TSQ Quantis, and TSQ Fortis MSs require either one or two external forepumps, depending on the model. The forepumps create the vacuum necessary for the turbomolecular pump to operate. • Vacuum Pumps • Vacuum Manifold •...
  • Page 28: Vacuum Manifold

    Placement of the turbomolecular pump next to the vacuum manifold Description Description Collision cell chamber MP0 ion optics chamber MP00 ion optics chamber RF lens and ion transfer tube chamber API source interface Mass analyzer chambers Turbomolecular pump TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 29 (first inlet [molecular drag]) MP0 ion optics Triple-inlet turbomolecular pump Torr Torr Torr (second inlet [interstage]) Mass analyzer Triple-inlet turbomolecular pump –6 –6 –7 3–7 ×10 2–4 ×10 9 ×10 (third inlet [high vacuum]) Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 30: Vacuum System Block Diagram

    MP0 ion optics region Mass analyzer region Collision cell Collision gas divert valve Collision gas valve Argon gas port Exhaust Forepump Triple-inlet turbomolecular pump Convection vacuum gauge Convection vacuum gauge Ion gauge TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 31: Vacuum Gauges

    The ionization gauge is also involved in vacuum protection. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 32 Vacuum System Vacuum Gauges TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 33: Internal Gas Supply

    The vent valve is closed when the solenoid is energized. The vents opens when the MS no longer receives external power, as with a power failure or when you turn off the main power switch. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 34: Figure 5. Gas Inlets And Vacuum (Foreline) Port (Left Side Of The Ms)

    Internal Gas Supply Figure 5. Gas inlets and vacuum (foreline) port (left side of the MS) Description Description Argon gas inlet Nitrogen gas inlet Drain/Waste Port Vacuum (foreline) port TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 35: Atmospheric Source Interface

    Atmospheric Source Interface • API Source Interface Overview • Ion Transfer Tube • RF and Exit Lens Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 36: Api Source Interface Overview

    API source, the API source interface components are located in a vacuum chamber. Figure 6. API source interface for the TSQ Altis MS (cross section) Description Description Ion sweep cone Vent prevent ball...
  • Page 37: Ion Transfer Tube

    (after it has cooled to room temperature), the vent prevent ball drops into place to stop air from entering the vacuum manifold. Therefore, you can remove the ion transfer tube for cleaning or replacement without venting the system. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 38: Rf And Exit Lens

    API source interface region and the lower pressure MP00 RF lens region of the vacuum manifold. Figure 10. Altis RF Lens and exit lens Description Description Exit lens RF lens Figure 11. Quantis RF lens Description Description Exit lens Rf lens TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 39: Figure 12. Fortis Exit Lens

    Atmospheric Source Interface RF and Exit Lens Figure 12. Fortis exit lens Description Description Exit lens Tube lens Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 40 Atmospheric Source Interface RF and Exit Lens TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 41: Ion Optics And Detector Components

    L0 to transmit ions of the selected charge. Lens L0 acts as a baffle between MP00 and MP0 to isolate the lower vacuum region. Figure 13. MP00 lens (left) and lens L0 (right) Description Description MP00 RF lens Array of 8 metal elements L0 lens Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 42: Mp0 Ion Optics And Beam Blocker

    MS mode and 2 × 10 MS/MS mode. The electrometer circuit converts the current that leaves the electron multiplier through the anode to a voltage, and the data system records the voltage. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 43: Controls And Indicators

    Vacuum Green The vacuum is within the allowable operating range. Yellow The vacuum is outside the allowable operating range. The MS is either off or in the process of starting up. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 44: Power Entry Module

    Figure 17. Power entry module Description Description Electronics service switch SV65 Pump Enable connector (forepump on/off control) AC Output receptacle Power In receptacle (230 Vac) (reserved for future use) Main Power switch TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 45: Main Power Switch

    For more information about resetting the MS, see Chapter “Restarting the MS System After a Shutdown.” Figure 18 shows the communication connectors, and Table 3 describes the pin-outs for these connectors. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 46: Figure 18. Communication Connectors (Right Side Of The Ms)

    Controls and Indicators Communications Panel Figure 18. Communication connectors (right side of the MS) Description Description Ethernet port USB ports Analog Input connector Peripheral Control connector Reset button TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 47 Provides a relay-driven programmable output signal to the connected external device, such as a fraction collector. Output: Maximum 24 Vdc, 3 A RO/IH Common (return) connection for the Ready Out and Injection Hold pins Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 48: Cooling Fans

    “Maintaining the Air Filter.” CAUTION To ensure safety and proper cooling, always operate the MS with its covers in place. This is also necessary to comply with product safety and electromagnetic interference regulations. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 49: Chapter 8 Using The Ms Power Options

    2. If your LC/MS system includes LC pumps, turn off the liquid flow to the API source. For instructions, refer to the LC pump manual. 3. In the Tune window, place the MS in Standby mode, Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 50: Shutting Down The Ms System In An Emergency

    If you cannot safely reach the main power switch, unplug the power cord from the outlet. 2. To turn off the LC, autosampler, and data system computer in an emergency, use their respective on/off switch or button. Figure 19. Main power switch on the power module TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 51: Shutting The Ms System Down Completely

    • After approximately 5 seconds, power to the vent valve solenoid shuts off, the vent valve opens, and the vacuum manifold vents with dry nitrogen. This creates a hissing sound. • After about 2 minutes, the vacuum manifold is at atmospheric pressure. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 52: Turning Off The Lc, Gases, Data System, And Autosampler

    2. Turn off the argon and nitrogen gas supplies at their tanks. 3. Shut down the data system computer and turn off the monitor. 4. If an autosampler and printer are included, use their On/Off switches to turn them off. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 53: Chapter 10 Restarting The Ms System After A Shutdown

    2. Choose Restart, and then click OK. Restarting the Data System Using the Power Button 1. Press the power button on the data system computer. 2. Wait at least 20 seconds. 3. Press the power button again. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 54: Resetting The Mass Spectrometer

    MS is complete and that the MS is in standby mode. When you change the mode from standby to on, the System LED turns green to indicate that the MS is functional. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 55: Pumping The Ms Down

    5. Wait at least 15 hours for the pumps to create sufficient vacuum. Figure 22. Electronic service switch and main power switch Description Electronics service switch in service mode Main power switch turned on Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 56: Resetting Calibration Parameters

    • If you reset the instrument to the factory calibration settings, always repeat the calibration of the internal electronic devices as specified in this manual. Otherwise, all instrument calibrations might produce incorrect results. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 57: Starting The Lc, Gases, And Autosampler

    If necessary, configure the autosampler. For procedures for placing sample vials, preparing solvent and waste containers, installing syringes, and so on, refer to the autosampler manual. 3. Check that the valves of the argon and nitrogen gases are open. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 58 Restarting the MS System After a Shutdown Starting the LC, Gases, and Autosampler TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 59: Ms Components On/Off Status

    Service Mode position Vent valve Closed Closed Closed Open APCI corona discharge needle Conversion dynode Electron multiplier ESI needle Gas, argon (collision [CID gas]) Power supply, electron multiplier and conversion dynode Vaporizer temperature Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 60 You can control this setting in your method even when the instrument is in standby mode. In standby mode, the Tune application sets the API gases to their standby default settings (2 arbitrary) to keep the API source clean. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 61: Maintaining The Ms On A Daily Basis

    • If you do not hear these sounds, there is no air leak. • If you hear these sounds continue with step 2. 2. Follow “Shutting the MS System Down Completely.” 3. Visually inspect the vacuum system and vacuum lines for leaks. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 62: Checking The Vacuum Pressure Levels

    Table 7 for the TSQ Quantis, and Table 8 for the TSQ Fortis MS. If the values are higher than normal, you might have an air leak. Table 6. TSQ Altis typical pressure readings Pressure (Torr) Conditions Source Pressure Analyzer...
  • Page 63 Remains high • Inspect the vacuum lines and fittings external to the MS for leaks and repair. • If you suspect an air leak within the MS, contact Thermo Fisher Scientific. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 64: Checking The Argon And Nitrogen Gas Supplies

    In addition, if the MS turns off during an analytical run, you might lose data. For more information about gas requirements, refer to the TSQ Altis, TSQ Quantis, and TSQ Fortis Preinstallation Requirements Guide. TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 65: After Operating The Mass Spectrometer

    Load the clean syringe with a solution of 0.1% formic acid in 50:50 methanol/water (or another appropriate solvent). b. Carefully reinsert the syringe needle into the Teflon tube on the syringe adapter assembly. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 66: Purging The Oil In The Forepump

    Placing the System in Standby Mode After you complete the daily maintenance procedures, place the MS in standby mode as described in Chapter “Placing the MS in Standby Mode.” TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 67: Recommended Inlet And Flow Rates

    (arb units) temp (°C) temp (°C) (μL/min) units) current (μA) units) Up to 5 Altis: 300 Quantis: 250 5–199 Fortis: 250 Pos: 4 Neg: –10 200–500 Altis: 325 Quantis: 275 Fortis: 275 Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 68: Guidelines For Lc/Nsi/Ms Parameters

    Recommended Inlet and Flow Rates Guidelines for LC/NSI/MS Parameters Guidelines for LC/NSI/MS Parameters Sweep gas Spray voltage (V) Ion transfer tube temp (°C) (arb units) Positive mode: 1200 Negative mode: -600 TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 69: Connecting The Sample Flow To The Source

    17). -or- • Switch the main power switch to off mode (down position) (5 in Figure 17).This will turn off the power to the source, the MS and the forepumps. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 70: Connecting The Sample Flow To The Apci Source

    H-ESI, you can leave the grounding union in place. You will not use it. • Use tubing (red PEEK or natural PEEK (nano-Viper)) with a fingertight fitting to connect the sample flow to the sample inlet of the APCI spray insert (Figure 24). TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 71: Figure 24. Connection To The Apci Spray Insert

    Connecting the Sample Flow to the Source Connecting the Sample Flow to the APCI Source Figure 24. Connection to the APCI spray insert Description Tubing from sample flow (red PEEK or natural PEEK (nano-Viper)) Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 72 Connecting the Sample Flow to the Source Connecting the Sample Flow to the APCI Source TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 73: Calibrating The Ms

    • Do not store EMRS in a glass syringe. Discard unused EMRS and rinse the syringe with acetonitrile. • If you observe degradation products in the EMRS mass spectrum, rinse the sample line (including the fittings, syringe, tubing, and union) with acetonitrile. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 74: Preparing The Ms For Calibration

    The button name changes to Syringe On. b. Click the arrow next to the Syringe On/Off button to open the syringe pump settings (Figure 25), and then enter the following: Flow Rate (μL/min): 5 Volume (μL): 500 TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 75: Determining The Initial Api Source Settings

    Table 11. Recommended LC flow rates Solution Type Injection Type LC flow rate (μL/min) Calibration Syringe Sample Syringe 3-10 Autosampler 3. Click Apply. The Tune application makes a change in the History pane. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 76: Evaluating The Spray Stability

    2. Check the H-ESI probe position is as follows: • Depth: low to medium • Front-to-back position: closest to the MS entrance • Side-to-side position: center (closest to the MS entrance) 3. Place the MS in On mode. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 77: Figure 27. Plot Chromatogram Dialog Box

    7. If the signal stability rating is poor or the %RSD value is above the threshold, optimize the API source parameters. a. Adjust the sheath gas plus or minus 1 unit. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 78: Calibration Parameters

    1. Set the syringe pump to infuse the EMRS at 5 μL/min into the API source. 2. Place the MS in On mode. 3. In the Define Scan pane, select Full Scan (Q1) or Full Scan (Q3). 4. Set the scan range to 50-1650. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 79: Figure 28. Calibration Pane Options

    IMPORTANT Check the spray and reevaluate it when it becomes unstable. If the spray is not stable, then data quality might be compromised, which can result in a poor calibration or diagnostic result. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 80: Check Mass Calibration

    • Positive Ion Mode: m/z 69, 622, and 1522 • Negative Ion Mode: m/z 69, 602, and 1634 This evaluation repeats for FWHM peak widths of 0.2 Da (TSQ Altis MS only), 0.4 Da, and 0.7 Da, and for quadrupoles Q1 and Q3.
  • Page 81: Mass Calibration

    EMRS calibrant ions. This procedure repeats for FWHM peak widths of 0.2 Da (TSQ Altis MS only), 0.4 Da, and 0.7 Da; for three different scan rates (250, 500, and 1000 Da/sec); and for quadrupoles Q1 and Q3.
  • Page 82: Calibration Solution Peak Values

    “Flushing the Inlet Components,” page 47. Ensure that the interfering masses show less than 25 percent of the intensity of the calibrant ions. Figure 32. Mass spectrum of EMRS in positive ion mode TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 83: Figure 33. Mass Spectrum Of Emrs In Negative Ion Mode

    Calibrating the MS Calibrating and Tuning the MS Figure 33. Mass spectrum of EMRS in negative ion mode Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 84 Calibrating the MS Calibrating and Tuning the MS TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 85: Optimizing The Compound Signal

    1. Go to thermofisher.com. 2. In the search field, type TSQ Altis, TSQ Quantis, or TSQ Fortis. 3. Click the Catalog tab and then the instrument name. 4. Scroll down until you see the Product overview, Videos, and Documents tab.
  • Page 86: Optimizing Parameters In The Optimization Pane

    Otherwise, the MS applies the parameter setting to all compounds. When selected, the icon changes color, from , and the parameter appears in the Optimization Table (not shown here). TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 87: Figure 34. Optimizing The Source Parameters In The Optimization Pane

    After the compound optimization is complete, you can view and save the generated report for each compound. Figure 35 shows an example of “in progress” graphs and spectra. Figure 36 shows the Optimization Results table. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 88: Figure 35. Example Optimization Of The Rf Lens (Srig Rf) Tuning For M/Z 997.55

    The Optimization Results and Source Optimization Results tables also appear, displaying the optimized parameter values, (Figure 36). Figure 36. Examples of the optimization results tables TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 89: Chapter 17 Scan Types

    Scan Types The TSQ Altis, TSQ Quantis, and TSQ Fortis MSs operate in a variety of scan types. The most common can be divided into two categories: single mass spectrometry (MS) scan types and MS/MS scan types. The scan types in each category are as follows: •...
  • Page 90: Quadrupole Capacities

    Full scan or transmission of selected ions. Pass ions or fragments within a wide range of m/z values. A rod assembly is a regular array of metal rods. See Mass Analyzers. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 91: Full Scan Q1 And Q3 Scan Types

    SIM can improve the detection limit and decrease analysis time, but it can also reduce specificity. Because SIM monitors only specific ions, any compound that fragments to produce those ions will appear to be the target compound, which can result in a false positive. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 92: Product Scan Type

    These can be used to identify unknowns or as the basis for developing an SRM experiment. Figure 37. Illustration of product scan type RF Only + Ar Q1 Set Q3 Scanning Q3 m/z TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 93: Precursor Scan Type

    However, the respective mass ranges, are offset by a selected mass so that the product mass analyzer scans a selected number of mass units lower than the precursor mass analyzer. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 94: Figure 39. Illustration Of The Neutral Loss Scan Type

    O from alcohols). Figure 40 shows a common fragment ion. Figure 39. Illustration of the neutral loss scan type RF Only + Ar Q3 = Q1 - Δ Q1 Scanning Q1 m/z TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 95: Selected Reaction Monitoring Scan Type

    Furthermore, that precursor ion would have to fragment to form a product ion of the same m/z as the selected product ion from the target compound. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 96 Scan Types Selected Reaction Monitoring Scan Type TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 97: Chapter 18 Data Types

    When you do SRM methods, the data is automatically collected in centroid mode. Figure 41. Examples of Profile (left) and Centroid (right) Data Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 98: Ion Polarity Modes

    Ion Polarity Modes Ion Polarity Modes The TSQ Altis, TSQ Quantis, and TSQ Fortis MSs can operate in either positive or negative ion polarity mode. You can obtain positive ion or negative ion or positive/negative ion mass spectra.The MS controls whether positive ions or negative ions are transmitted to the mass analyzer for mass analysis by changing the polarity of the voltage potentials applied to the API source, ion optics, and ion detection system.
  • Page 99: Acquiring Sample Data

    • In the Calibration pane, ensure that all calibrations are up to date. • Connect the Ready Out cable (not provided) and the contact closure cable to help prevent sample loss. Refer to the TSQ Altis, TSQ Quantis, and TSQ Fortis Getting Connected Guide.
  • Page 100: Using Tune To Acquire Sample Data

    To open this application, choose Start > All Programs > Thermo Xcalibur > XReport. e. Under Timed Acquisition, select the Continuous Acquisition option from the drop down list (acquires data until you stop the acquisition)(1) in (Figure 42). TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 101: Figure 42. Data Acquisition Pane In The Tune Window

    5. When you are ready, click Record again to stop the acquisition. The small circle on the Record button turns gray (not recording). For more information about reviewing the acquired data, refer to the Thermo FreeStyle or the FreeStyle Help. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 102: Using The Xcalibur Data System To Acquire Sample Data

    Using the Xcalibur Data System to Acquire Sample Data Using the Xcalibur Data System to Acquire Sample Data Thermo Scientific mass spectrometry applications, such as the Xcalibur data system, can control a connected external device. • If it can control an external device, it selects the autosampler as the default start (trigger) instrument for a sequence run.
  • Page 103: Acquiring Data Files With The Xcalibur Data System

    5. Click OK. This completes the start instrument setup. Acquiring Data Files with the Xcalibur Data System For instructions, refer to the Instrument Setup and Sequence Setup topics in the Xcalibur Help. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 104: Using Templates In Thermo Xcalibur Instrument Setup

    3. Save the entries as part of an Xcalibur instrument method (.meth file name extension). For additional information, refer to the Help. Figure 45. Templates in Method Editor Description Description Click this icon to display the templates Click this icon to display scan types TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 105: Maintenance Schedule And Supplies

    MS Parts While the procedures may be similar for all three systems; the TSQ Altis, TSQ Quantis, and TSQ Fortis may use different parts. The required parts for each MS system are noted in each procedure.
  • Page 106: Maintenance Schedule

    Every 12 months of typical use, or if the oil is cloudy or discolored Cooling fans Clean the air filter. Every 4 months page 111 For instructions about maintaining the LC modules, refer to that instrument’s manual. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 107: Guidelines

    (One of the tools is in the TSQ Source Installation Kit.) In addition, you can use the contents of the PM Cleaning Kit (P/N 70111-62112). Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 108 Screwdriver, Phillips #2 (M3) – (Optional) Toothbrush, soft (or similar tool) – (Optional) Tweezers, plastic (or similar tool) – Equipment Beaker or graduated cylinder (for use with – methanol) Chamois-tipped swabs 00725-01-00028 TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 109 Unity Lab Services: • 23827-0008 (size medium) • 23827-0009 (size large) Industrial tissues, lint-free – Magnification device – MICRO-MESH™ polishing swabs, 6000 grit 00725-01-00027 (light purple color), 2.25 in. long Sonicator – Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 110 Maintenance Schedule and Supplies Tools and Supplies TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 111: Maintaining The Api Source And Replacing The H-Esi Needle

    4. Allow the housing to dry before you install it on the MS. Replacing the H-ESI Needle Refer to the OptaMax NG Ion Source User Guide or view the video on the Thermo Fisher Scientific website. Go to thermofisher.com. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 112 Maintaining the API Source and Replacing the H-ESI Needle Replacing the H-ESI Needle TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 113: Maintaining The Rf Lens, Exit Lens, Mp00 Rf Lens, And Lens L0

    Before you touch or remove heated parts, allow the part to cool to room temperature (approximately 20 minutes) before you touch it. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 114: Figure 46. Api Source Interface Removed From The Vacuum Manifold

    5. Grasp the API source interface with your fingers, and then carefully pull it out of the vacuum manifold (Figure 46). Figure 46. API source interface removed from the vacuum manifold Description Vacuum manifold Release latch on the API source interface TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 115: Removing The Rf Lens, Exit Lens, Mp00 Rf Lens, And Lens L0 (Altis/Quantis)

    MP00 from the MP00-L0 mount cage (Figure 49.) Place the components on a clean surface. Figure 47. Removing the multipole MP00 and lens L0 assembly (TSQ Altis MS) Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 116: Figure 48. Removing The Rf Lens And Exit Lens (Tsq Quantis Ms)

    Description Description Rf lens and exit lens assembly Exit lens Figure 49. Removing the lens L0 and multipole MP00 from the MP00-L0 mount cage Lens L0 MP00 RF lens Multiple MP00 TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 117: Removing The Exit Lens, Mp00, And Lens L0 (Fortis)

    Allen screws loosened and extended Lens L0 Multipole MP00 and Lens L0 assembly 5. Grasp the two Allen screws and carefully pull the exit lens straight out of the API source interface cage. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 118: Cleaning The Rf Lens, Exit Lens, Mp00, And Lens L0

    1. Using a magnification device, inspect the components for any lint, particulates, and sample buildup or coatings. 2. For 10 minutes, sonicate the components in either a 50:50 solution of methanol/water or a 1% solution of Liquinox in water. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 119: Reinstalling The Api Source Interface

    2. Carefully insert the API source interface into the vacuum manifold. 3. Reinstall the API source housing. 4. Start up the system as described in Chapter 10, “Restarting the MS System After a Shutdown.” Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 120 Maintaining the RF Lens, Exit Lens, MP00 RF Lens, and Lens L0 Reinstalling the API Source Interface TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 121: Maintaining The Api Source Interface

    1. Go to thermofisher.com. 2. In the search field, type TSQ Altis, TSQ Quantis, or TSQ Fortis. 3. Click the Catalog tab and then the instrument name. 4. Scroll down until you see the Product overview, Videos, and Documents tab.
  • Page 122: Removing The Ion Sweep Cone And The Ion Transfer Tube

    If pressure in the ion transfer tube and RF lens region (Source Pressure gauge) drops below 2 Torr (TSQ Altis) or 1 Torr (TSQ Quantis or TSQ Fortis), a blocked ion transfer tube is probably the cause.
  • Page 123: Figure 54. Ion Transfer Tube Removal Tool (Tsq Altis Ms)

    (flat edges) on the tool (2) to slowly pull it out of the API source interface. Figure 54. Ion transfer tube removal tool (TSQ Altis MS) Description Use this end of the tool to rotate the tube.
  • Page 124: Figure 55. Ion Transfer Tube Removal Tool (Tsq Quantis Ms)

    Tip If necessary, insert a hex key through a side hole for leverage. Figure 56. Ion transfer tube removal tool (TSQ Fortis MS) Description API source interface Fit this end of the tool around the exposed ion transfer tube. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 125: Cleaning The Spray Cone And O-Ring

    Cleaning the Spray Cone and O-ring Cleaning the Spray Cone and O-ring Note The TSQ Altis does not have an O-ring behind its ion transfer tube. 1. Soak the lint-free tissues or chamois-tipped swabs in a 50:50 solution of methanol/water, and then clean the exterior surface of the spray cone.
  • Page 126: Cleaning The Ion Transfer Tube

    3. Rinse the component thoroughly with water. 4. Sonicate the component in water for 10 minutes. 5. Sonicate the component in methanol for 10 minutes. 6. Rinse the component with methanol. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 127 TSQ Altis TSQ Quantis TSQ Fortis Source Pressure less than 3.8 Torr less than 2.0 Torr less than 2.0 Torr 10. If the ion transfer tube is still blocked, replace it. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 128 Maintaining the API Source Interface Cleaning the Ion Sweep Cone TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 129: Maintaining The Forepumps And The Air Filter

    Remove the filter from the filter bracket (Figure 58). 2. Wash the air filter in a solution of soap and water. 3. Rinse the filter with tap water, and then allow it to air dry. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 130: Figure 58. Air Filter Location In The Ms With The Front Cover Removed

    4. Reinstall the air filter and front cover. 5. Reconnect the plumbing tubing. Figure 58. Air filter location in the MS with the front cover removed Description Description Air filter Spring catches TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 131: Appendix A Using Basic Tune Functions

    1. Go to thermofisher.com. 2. In the search field, type TSQ Altis, TSQ Quantis, or TSQ Fortis. 3. Click the Catalog tab and then the instrument name. 4. Scroll down until you see the Product overview, Videos, and Documents tab.
  • Page 132: Opening The Tune Window

    Spectrum view Description Description Three power mode icons (on/standby/off ) Manual data acquisition Instrument readback status Define Scan pane Plot Chromatogram tool Controls for the graphs Panes: Status, History, and Favorites TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 133: Setting The Instrument System Controls

    To turn the scan averaging on or off averaging Click the button to switch between on and off.  To set the scan averaging value Click the down arrow to enter the value, and then click Apply. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 134: Setting The Instrument Power Mode

    RF voltages. The auxiliary, sheath, and sweep gas flows remain on and return to their standby default settings (2 arbitrary). See Chapter 8, “Using the MS Power Options.” TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 135: Checking The Instrument Readback Status

    The system is initializing. Amber One or more settings are changing. An error has occurred. Gray The API source is off. Gray There is no communication between the MS and the data system. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 136: Setting The Tune Preferences

    , and then choose Preferences to open the Tune Preferences dialog box (Figure 60). Figure 60. Tune Preferences dialog box 2. Select all check boxes that apply. 3. Under Report Options, select one of the options, and then click OK. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 137: Using The Mass List Table In The Define Scan Pane

    3. Do one of the following: • Click the Delete Selected Rows icon, • Right-click the selected row, and then choose Delete Selected Rows. • Press the DELETE key on your keyboard. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 138: Adding Or Removing Scan Parameters From The Table

    1. Click Import to open the Open dialog box. 2. Browse to a CSV (Microsoft Excel™), a TXT, or an XML file, and then click Open. The list of m/z values appears in the table. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 139: Exporting A Mass List To A File

    You can manually save the current settings for the API source and scan parameters in the Favorites pane. • To create a favorite state • To load settings only or apply a favorite state • To rename a favorite state • To delete a favorite state Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 140: Figure 62. Favorites Pane

    • Load to only display the key parameters in the applicable parameter boxes. • Apply to submit the key parameters to the MS. You can click Apply without first loading the parameters. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 141 1. Under User Settings, right-click the state name, and then choose Rename. 2. Type a different name and press ENTER.  To delete a favorite state Under User Settings, right-click the state name, and then choose Delete. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 142 Using Basic Tune Functions Using the Favorites Pane to Save System Settings TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 143: Appendix B Setting Up The Syringe With The Syringe Pump

    4. Tighten the PEEK fittings by only using your fingers. If you overtighten the PEEK fittings, they can cause leaks. Figure 64. PEEK tubing connection to syringe union Description Description Red PEEK tubing Syringe Union (cross-sectional view) 10-32 coned-bottom receiving port PEEK fingertight fitting Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 144: Setting Up The Syringe Pump

    Note If necessary, use the syringe needle tip to slightly enlarge the opening in the end of the Teflon tubing. 4. Squeeze the syringe pump’s release button and slowly move the pusher block until it contacts the flange on the end of the syringe plunger (4). TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 145: Figure 65. Syringe Pump With Syringe

    Figure 65. Syringe pump with syringe Description Syringe with sample solution Teflon tubing connection to the union (cross-sectional view) Syringe connection to the Teflon tube Syringe pump release button on the pusher bar Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 146 Setting Up the Syringe with the Syringe Pump Setting Up the Syringe Pump TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 147: Appendix C Divert/Inject Valve

    6, port 2 connects to port 3, and port 4 connects to port 5. The Method Editor application identifies the valve’s two positions as “1–2” (port 1 to 2) and “1–6” (port 1 to 6). Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 148: Divert/Inject Valve Configurations

    Inject (position 1–6)—The sample loop is open to the solvent stream. The solvent flow from the LC pump flushes sample out of the sample loop, and then exits through port 6 into the API source. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 149: Divert Valve

    For instructions, refer to the manufacturer’s manual. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 150: Figure 68. Divert/Inject Valve (Front View)

    Divert/Inject Valve Divert/Inject Valve Controls Figure 68. Divert/inject valve (front view) Description Valve position indicator Six-port, two-position valve Valve control buttons TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 151: Appendix D Setting Up Sample Introduction Techniques

    CAUTION Do not wear nitrile gloves when you are working with EMRS. Nitrile gloves are made with diphenylguanidine, which is soluble in EMRS. If diphenylguanidine contaminates the EMRS, a peak at m/z 212 will be in the spectrum. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 152: Figure 69. H-Esi Direct Infusion

    (1). 5. Use a PEEK fighertight (not shown) fitting to connect the other end of the red PEEK tubing (6) to the grounding union (3). Figure 69. H-ESI direct infusion TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 153: Setting Up Low Flow H-Esi Direct Infusion

    (2) and to the H-ESI spray insert (4). 4. Use PEEK fingertight fittings to connect a length of red PEEK tubing (7) to the syringe union adapter (1) and the grounding union (2). Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 154: Figure 70. Low-Flow H-Esi Direct Infusion Set Up

    Figure 70. Low-flow H-ESI direct infusion set up Description Syringe and syringe adapter Grounding union Grounding union holder Low flow H-ESI needle in H-ESI spray insert Natural PEEK tubing (nano-Viper capillary) Viper fitting Red PEEK tubing TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 155: Setting Up High-Flow Infusion Without An Autosampler

    API source at Port 6. This brings the flow to the MS. 5. (Not Shown) Using a Rheodyne fitting, connect one end of the Teflon tubing to Port 3. Place the other end into an appropriate waste container. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 156: Setting Up Loop Injections For Flow-Injection Analysis

    API source. 1. Connect a sample loop (1) across Ports 1 and 4 of the valve. 2. Connect a loop filler (needle port) (2) to Port 2. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 157: Setting Up Injections Using The Autosampler

    73, and a Rheodyne fitting to connect Port 2 of the divert/inject valve to one of the following: • The outlet of the autosampler (not shown) • The outlet of a column that is attached to the autosampler (not shown). Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 158: Figure 73. Divert/Inject Valve Plumbed As A Divert Valve

    Figure 73. Divert/Inject valve plumbed as a divert valve Description Port 6 tubing connected to the API Source Port 5 tubing connected from the LC Pumps Port 4 Teflon tubing connected to Waste TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 159: Appendix E Replaceable Parts

    Replaceable Parts The TSQ Altis MS and TSQ Quantis MS arrive with the following kits and replaceable parts. The exception is the Chemical Kit, which arrives separately as part of the preinstallation kit. Use the provided part numbers when ordering replacement parts.
  • Page 160: Calibration Kit

    (Upchurch Scientific 1535XL) Tubing, Teflon FEP, 1/16 in. OD, 0.030 in. ID, 3 cm (1.2 in.) 00301-22915 long (Upchurch Scientific 1522) Union, HPLC, black PEEK, 10-32, 0.01 in. thru-hole 00101-18202 (Upchurch Scientific P-742) TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 161: Ms Setup Kit

    (Upchurch Scientific P-727) ....... 00101-18204 Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 162: Single Mechanical Pump Kit

    80100-60049 Fitting Tee, barbed, nylon, for 0.5 in. (12.7 mm) ID tubing 00103-01-00012 Tubing, Tygon, 3/4 in. (19.1 mm) OD, 0.5 in. (12.7 mm) ID, 6 m 00301-22920 (20 ft) long TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 163: Tsq Source Installation Kit

    TSQ Source Installation Kit Ion transfer tube removal tool, TSQ Altis ......70111-20258 Ion transfer tube removal tool, TSQ Quantis ..... . 70005-20972 L0 lens removal tool .
  • Page 164 2.5 m (8 ft) long ........80000-63186 TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 165: Glossary

    The outer-coaxial gas (nitrogen) that assists the evaporation of the sample solution as it exits the ESI, APCI (optional), or APPI (optional) spray insert. The mass spectrometer heats this gas to the user-specified vaporizer temperature. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 166 The syringe pump injection flow rate in milliliters per minute (mL/min) or microliters per minute (μL/min) for the current sample, as defined in the current experiment method. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 167 A metal disk with a circular hole in the center that allows the ion beam to pass. mass analysis A process that produces a mixture of ionic species that is then separated according to the mass-to-charge ratios (m/z) of the ions to produce a mass spectrum. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 168 However, the respective mass ranges are offset by a selected mass so that the MS/MS scan is a selected number of mass units lower than the MS scan. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 169 S is the standard deviation and is the sample mean. retention time (RT) The time after injection at which a compound elutes. The total time that the compound is retained on the chromatograph column. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 170 A vacuum pump that provides a high vacuum for the mass spectrometer and detector system. vacuum manifold A thick-walled, aluminum chamber, with various electrical feedthroughs and gas inlets, which encloses the API stack, ion optics, mass analyzers, and ion detection system. TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 171 Components associated with lowering the pressure within the mass spectrometer. A vacuum system includes the vacuum manifold, pumps, pressure gauges, and associated electronics. Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 172 TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 173: Index

    FCC compliance contacting us xviii figures, list of xiii contamination, preventing 89, 105, forepump convection gauge, description control connector, MS See also vacuum system, gauges functional block diagrams Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 174 Single Mechanical Pump TSQ Source Installation on/off status for MS components optimization special notice LC/MS operational guidelines optimization graphs (example) H-ESI mode 49–50 optimization results (table examples) LEDs lenses cleaning panes TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...
  • Page 175 Run Sequence dialog box (acquisition options) vacuum LED safety standards description note about pressure sample data, acquire by using Tune vacuum manifold sample loss, preventing description sample transfer line, flushing pressures sample tube, flushing vacuum regions Thermo Scientific TSQ Altis, Quantis, and Fortis Hardware Manual...
  • Page 176 WEEE directive Xcalibur file type, raw data (.raw) Xcalibur file type, sequence (.sld) TSQ Altis, Quantis, and Fortis Hardware Manual Thermo Scientific...

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