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TSQ Quantis
Hardware manual
Thermo Scientific TSQ Quantis Hardware Manual
Tsq ii series
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Contents
Table of Contents
Bookmarks
Table of Contents
Table of Contents
Preface
Suggesting Changes to the Documentation or to the Help
Accessing Documentation
Viewing the Product Manuals
Viewing the Help
Viewing User Documentation from the Thermo Fisher Scientific Website
Special Notices, Symbols, and Cautions
Contacting Us
Chapter 1 Introduction
Mass Spectrometry Models
TSQ Altis MS
TSQ Quantis MS
TSQ Fortis MS
MS Mass-To-Charge Ratio Ranges
Principles of Operation
Overview of the MS System
Figure 1. Block Diagram of MS Hardware Components
Chapter 2 Principles of Operation
Overview of Ion Optics and Mass Analyzer
Figure 2. Ion Optics and Mass Analyzer Assemblies
Chapter 3 Vacuum System
Vacuum Pumps
Vacuum Manifold
Figure 3. Placement of the Turbomolecular Pump Next to the Vacuum Manifold
Vacuum System Block Diagram
Figure 4. Functional Block Diagram of the Altis Vacuum System
Vacuum Gauges
Chapter 4 Internal Gas Supply
Figure 5. Gas Inlets and Vacuum (Foreline) Port (Left Side of the MS)
Chapter 5 Atmospheric Source Interface
API Source Interface Overview
Figure 6. API Source Interface for the TSQ Altis MS (Cross Section)
Ion Transfer Tube
Figure 7. Altis Ion Transfer Tube
Figure 8. Quantis Ion Transfer Tube
Figure 9. Fortis Ion Transfer Tube
RF and Exit Lens
Figure 10. Altis RF Lens and Exit Lens
Figure 11. Quantis RF Lens
Figure 12. Fortis Exit Lens
Chapter 6 Ion Optics and Detector Components
MP00 Ion Optics
Figure 13. MP00 Lens (Left) and Lens L0 (Right)
MP0 Ion Optics and Beam Blocker
Dual-Mode, Discrete-Dynode Ion Detection System
Figure 14. MP0 Multipole with Neutral Beam Blocker (1)
Figure 15. EL11 (Left) and EL12 (Right) Lenses
Chapter 7 Controls and Indicators
Leds
Figure 16. Leds on the Instrument Front Panel
Power Entry Module
Figure 17. Power Entry Module
Electronics Service Switch
Main Power Switch
SV65 Pump Enable Connector
Communications Panel
Figure 18. Communication Connectors (Right Side of the MS)
Cooling Fans
Chapter 8 Using the MS Power Options
Turning the MS on
Placing the MS in Standby Mode
Shutting down the MS System in an Emergency
Figure 19. Main Power Switch on the Power Module
Chapter 9 Shutting the MS System down Completely
Shutting the MS down Completely
Turning off the LC, Gases, Data System, and Autosampler
Figure 20. Electronic Service Switch and Main Power Switch
Chapter 10 Restarting the MS System after a Shutdown
Restarting the Data System
Restarting the Data System Using Windows
Restarting the Data System Using the Power Button
Resetting the Mass Spectrometer
Figure 21. Reset Button (1) on the Communication Panel
Pumping the MS down
Figure 22. Electronic Service Switch and Main Power Switch
Resetting Calibration Parameters
Starting the LC, Gases, and Autosampler
Chapter 11 MS Components On/Off Status
Chapter 12 Maintaining the MS on a Daily Basis
Before Operating the Mass Spectrometer
Finding and Fixing Air Leaks
Checking the Vacuum Pressure Levels
Checking the Argon and Nitrogen Gas Supplies
After Operating the Mass Spectrometer
Flushing the Inlet Components
Purging the Oil in the Forepump
Emptying the Solvent Waste Container
Placing the System in Standby Mode
Chapter 13 Recommended Inlet and Flow Rates
Guidelines for LC/H-ESI/MS Parameters
Guidelines for LC/APCI/MS Parameters
Guidelines for LC/NSI/MS Parameters
Chapter 14 Connecting the Sample Flow to the Source
Connecting the Sample Flow to the H-ESI Source
Connecting the Sample Flow to the APCI Source
Figure 23. Connection to the H-ESI or the Low-Flow H-ESI Source
Figure 24. Connection to the APCI Spray Insert
Calibrating the MS
Preparing the Syringe Pump for Calibration
Chapter 15 Calibrating the MS
Preparing the MS for Calibration
Determining the Initial API Source Settings
Figure 25. Syringe Pump Settings Box
Evaluating the Spray Stability
Figure 26. Define Scan Parameters
Figure 27. Plot Chromatogram Dialog Box
Calibration Parameters
Calibrating and Tuning the MS
Figure 28. Calibration Pane Options
Figure 29. Report Generation Options
Check Mass Calibration
Figure 30. Error Range for the EMRS Calibrants
EM Gain Calibration
Figure 31. Ion Signal Intensity as a Function of the Lens L0 Offset Voltage
Mass Calibration
Tune and Mass Calibration
Calibration Solution Peak Values
Figure 32. Mass Spectrum of EMRS in Positive Ion Mode
Figure 33. Mass Spectrum of EMRS in Negative Ion Mode
Chapter 16 Optimizing the Compound Signal
Performing Compound Optimization Animation
Setting up for Compound Optimization
Optimizing Parameters in the Optimization Pane
Figure 34. Optimizing the Source Parameters in the Optimization Pane
Figure 35. Example Optimization of the RF Lens (SRIG RF) Tuning for M/Z 997.55
Figure 36. Examples of the Optimization Results Tables
Chapter 17 Scan Types
Quadrupole Capacities
Summary of Scan Types
Full Scan Q1 and Q3 Scan Types
Selected Ion Monitoring Scan Type
Product Scan Type
Figure 37. Illustration of Product Scan Type
Precursor Scan Type
Neutral Loss Scan Type
Figure 38. Illustration of the Precursor Scan Type
Figure 39. Illustration of the Neutral Loss Scan Type
Selected Reaction Monitoring Scan Type
Figure 40. Examples of Compounds with a Common Fragment
Chapter 18 Data Types
Profile and Centroid Data
Figure 41. Examples of Profile (Left) and Centroid (Right) Data
Ion Polarity Modes
Chapter 19 Acquiring Sample Data
Creating an SRM Method Animation
Using Tune to Acquire Sample Data
Figure 42. Data Acquisition Pane in the Tune Window
Using the Xcalibur Data System to Acquire Sample Data
Selecting the External Start Instrument
Figure 43. Run Sequence Dialog Box (Partial) Showing the Selected Start Instrument
Acquiring Data Files with the Xcalibur Data System
Figure 44. Change Instrument in Use Dialog Box
Using Templates in Thermo Xcalibur Instrument Setup
Figure 45. Templates in Method Editor
Chapter 20 Maintenance Schedule and Supplies
MS Parts
Maintenance Schedule
Guidelines
Tools and Supplies
Chapter 21 Maintaining the API Source and Replacing the H-ESI Needle
Cleaning the API Source Housing
Replacing the H-ESI Needle
Chapter 22 Maintaining the RF Lens, Exit Lens, MP00 RF Lens, and Lens L0
Removing the API Source Interface
Figure 46. API Source Interface Removed from the Vacuum Manifold
Removing the RF Lens, Exit Lens, MP00 RF Lens, and Lens L0 (Altis/Quantis)
Figure 47. Removing the Multipole MP00 and Lens L0 Assembly (TSQ Altis MS)
Figure 48. Removing the RF Lens and Exit Lens (TSQ Quantis MS)
Figure 49. Removing the Lens L0 and Multipole MP00 from the MP00-L0 Mount Cage
Removing the Exit Lens, MP00, and Lens L0 (Fortis)
Figure 50. Removing the Multipole MP00 and Lens L0 Assembly (TSQ Fortis)
Cleaning the RF Lens, Exit Lens, MP00, and Lens L0
Figure 51. Removing the Exit Lens (TSQ Fortis)
Figure 52. Removing the Lens L0 and Multipole MP00 from the MP00-L0 Mount Cage
Reinstalling the API Source Interface
Chapter 23 Maintaining the API Source Interface
Performing Source Maintenance Animation
Removing the Ion Sweep Cone and the Ion Transfer Tube
Figure 53. Ion Sweep Cone Removed from the MS Mount Assembly
Figure 54. Ion Transfer Tube Removal Tool (TSQ Altis MS)
Figure 55. Ion Transfer Tube Removal Tool (TSQ Quantis MS)
Figure 56. Ion Transfer Tube Removal Tool (TSQ Fortis MS)
Cleaning the Spray Cone and O-Ring
Figure 57. Spray Cone, O-Ring, Ion Transfer Tube, and Ion Sweep Cone
Cleaning the Ion Transfer Tube
Cleaning the Ion Sweep Cone
Chapter 24 Maintaining the Forepumps and the Air Filter
Maintaining the Forepumps
Maintaining the Air Filter
Figure 58. Air Filter Location in the MS with the Front Cover Removed
Appendix A Using Basic Tune Functions
Performing Compound Optimization Animation
Opening the Tune Window
Figure 59. Tune Window Showing the Define Scan Pane
Setting the Instrument System Controls
Setting the Instrument Power Mode
Checking the Instrument Readback Status
Setting the Tune Preferences
Figure 60. Tune Preferences Dialog Box
Using the Mass List Table in the Define Scan Pane
Adding a Row to the Table
Deleting a Row from the Table
Deleting Multiple Rows from the Table
Adding or Removing Scan Parameters from the Table
Importing a Mass List from a File
Figure 61. Q3 Resolution Selected and Added to the SRM Table
Exporting a Mass List to a File
Using the History Pane
Using the Favorites Pane to Save System Settings
Figure 62. Favorites Pane
Figure 63. State Name Box
Appendix B Setting up the Syringe with the Syringe Pump
Connecting the Syringe Union to the Syringe
Figure 64. PEEK Tubing Connection to Syringe Union
Setting up the Syringe Pump
Figure 65. Syringe Pump with Syringe
Appendix C Divert/Inject Valve
About the Divert/Inject Valve
Divert/Inject Valve Configurations
Loop Injection
Figure 66. Divert/Inject Valve Positions
Divert Valve
Divert/Inject Valve Controls
Figure 67. Divert/Inject Valve Plumbed as a Divert Valve
Figure 68. Divert/Inject Valve (Front View)
Appendix D Setting up Sample Introduction Techniques
Setting up H-ESI or Low Flow H-ESI Direct Infusion
Setting up H-ESI Direct Infusion
Figure 69. H-ESI Direct Infusion
Setting up Low Flow H-ESI Direct Infusion
Figure 70. Low-Flow H-ESI Direct Infusion Set up
Setting up High-Flow Infusion Without an Autosampler
Setting up Loop Injections for Flow-Injection Analysis
Figure 71. HPLC Infusion Tee Valve
Setting up Injections Using the Autosampler
Figure 72. Injector Valve Set up
Figure 73. Divert/Inject Valve Plumbed as a Divert Valve
Appendix E Replaceable Parts
Chemical Kit
Calibration Kit
MS Setup Kit
Performance Specification Kit
Single Mechanical Pump Kit
Dual Mechanical Pumps Kit
TSQ Source Installation Kit
API Source Interface
Miscellaneous Parts
Glossary
Index
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TSQ Series II
TSQ Altis, TSQ Quantis,
and TSQ Fortis
Hardware Manual
80111-97047 Revision A
June 2018
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