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Table of Contents
Related Manuals for Thermo Scientific Orbitrap Fusion Lumos
Summary of Contents for Thermo Scientific Orbitrap Fusion Lumos
- Page 1 Orbitrap Tribrid Series Getting Started Guide 80000-97026 Revision A June 2018...
- Page 2 Unity is a registered service mark; and Hypersil GOLD, LTQ, Orbitrap, Orbitrap Fusion, Orbitrap Fusion Lumos, Pierce, Thermo Scientific, Tribrid, and Xcalibur are registered trademarks of Thermo Fisher Scientific Inc. in the United States. Fisher Scientific and Optima are registered trademarks of Fisher Scientific Co.
- Page 3 • Order replacement parts (as specified in the instrument manual) and additional components, options, and periph- erals directly from Thermo Fisher Scientific or an authorized representative. Regulatory compliance results for the following Thermo Scientific™ mass spectrometers: • Orbitrap Fusion Lumos •...
- Page 4 Notice on the Proper Use of Thermo Scientific Instruments In compliance with international regulations: This instrument must be used in the manner specified by Thermo Fisher Scientific to ensure protections provided by the instrument are not impaired.
- 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 weee.recycle@thermofisher.com with the following information:...
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Page 7: Table Of Contents
Setting Up the Syringe and Syringe Pump......18 Plumbing Schematics for the Sample Introduction Techniques ... . . 20 Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 8 Checking the Instrument Readback Status ......65 viii Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
- Page 9 Index ..............95 Thermo Scientific...
- Page 10 Contents Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
- Page 11 ..........59 Figure 24. Orbitrap Fusion Lumos Tune window showing the Define Scan pane ..62 Thermo Scientific...
- Page 12 ........... . 69 Figure 27. Example labeling for the Enfuvirtide stock solution ..... 83 Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 13: Preface
Scientific™ mass spectrometer (MS): • Orbitrap Fusion™ (also known as Fusion™) • Orbitrap Fusion Lumos™ (also known as Lumos™) • Orbitrap ID-X™ (also know as ID-X™) This guide describes how to set up and calibrate the MS system. Also, because this guide uses... -
Page 14: Viewing The Product Manuals
4. From the results list, click the title to open the document in your web browser, save it, or print it. To return to the document list, click the browser Back button. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 15: Providing Documentation Feedback
Thank you in advance for your help. License for the 1M Option During the Orbitrap Fusion Lumos MS installation or upgrade process, the Thermo Fisher Scientific field service engineer activates the optional 1M license (with purchase of the 1M option). - Page 16 Wear safety glasses when handling chemicals or servicing the instrument. Risk of laser radiation—Orbitrap Fusion Lumos MS with the optional ultraviolet photodissociation (UVPD) module only: Failure to understand and comply with laser cautions and operating instructions in the UVPD Module User Guide can result in property damage or serious injuries to the user.
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Page 17: Model Differences
Advanced EASY-IC EASY-ETD 1M Orbitrap UVPD peak ion source ion source resolution laser module determination Orbitrap Fusion Lumos Orbitrap Fusion Orbitrap ID-X Thermo Scientific Orbitrap Tribrid Series Getting Started Guide 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 (techpubs-lcms@thermofisher.com). You can use your smartphone to scan a QR Code, which opens your email application or browser. xviii Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 19: Introduction
(Typically preferred for peptides and proteins) Note For instruments with the optional EASY-ETD™ source, refer to the EASY-ETD and EASY-IC Ion Sources User Guide. For an Orbitrap Fusion Lumos MS with the optional UVPD device, refer to the UVPD Module User Guide. -
Page 20: H-Esi Mode
The H-ESI spray insert can generate ions from liquid flows as low as 1 μL/min. For the range of 1–50 μL/min, install the low-flow needle insert (OPTON-30139) into the H-ESI spray insert. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 21: Apci Mode
APCI is a very robust ionization technique. It is not affected by minor changes in most variables, such as changes in buffer type or buffer strength. For the APCI spray insert, flows below 200 μL/min require more care to maintain a stable spray. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 22: Appi Mode
H-ESI (Table 2), APCI (Table 3), and NSI (Table 4) for a range of LC solvent flow rates. For the Orbitrap ID-X MS, use the Orbitrap Fusion MS values. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... - Page 23 Positive and negative polarity modes Table 4. Guidelines for setting operating parameters for LC/NSI/MS Spray voltage (V) Sweep gas (arbitrary units) Ion transfer tube temperature (°C) Positive mode: 1200 Negative mode: –600 Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
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Page 24: Types Of Buffers
• Install the MS’s optional ion sweep cone. • Reduce the concentration of buffers to an absolute minimum. Note You might need to increase the frequency of ion source maintenance when you use nonvolatile buffers. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 25: Templates In Thermo Xcalibur Instrument Setup (Method Editor)
Xcalibur instrument method (.meth file name extension). For additional information, refer to the Help. Method Editor provides default system templates for several types of experiments: metabolomics, proteomics, and small molecules. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 26 Introduction Templates in Thermo Xcalibur Instrument Setup (Method Editor) Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 27: Setting Up The Ion Source
Setting Up the Ion Source This chapter provides information about setting up the H-ESI source for H-ESI, APCI, and APPI experiments. For NSI experiments, use one of the compatible Thermo Scientific nanospray sources. Shipment of the ion source includes the H-ESI spray insert. For APCI experiments, order the APCI Installation Kit (P/N 80000-62060), which includes the APCI spray insert. - Page 28 • For H-ESI, APCI, or APPI mode, install the ion sweep cone over the MS’s spray cone (Figure • For NSI mode, loosen the screws on the ion sweep cone, and then remove the cone by grasping its outer ridges and pulling it off. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 29: Installing The Ion Source
Drain/Waste port. Make sure that the solvent waste system is connected as described in the Getting Connected Guide. APCI and APPI modes require that you purchase and install the applicable kits. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 30: Preparing The Spray Insert For The Ion Source
IMPORTANT For calibrations in negative ion polarity mode and experiments with flow rates that are less than 50 μL/min, install the low-flow metal needle insert into the H-ESI spray insert. For part numbers, refer to “Replaceable Parts” in the Hardware Manual. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 31: Spray Insert Positions
In position 3, the spray is farthest from the entrance of the MS. Rotational position Left, center, right (marks) Use the center mark to position the spray closest to the entrance of the MS. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 32: Adjusting The Spray Direction
(see Table Using your fingers, loosen the top two retainer knobs. Using your fingers, tighten the retainer knobs. Turn the side rotational knob to rotate the heater to the desired position. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 33: Removing The Ion Source
Installing the NSI Source For NSI experiments, remove the MS ion sweep cone (page 10) before you install the NSI source. To install the NSI source Refer to the NSI source manual. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 34 Setting Up the Ion Source Installing the NSI Source Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 35: Connecting The Inlet Plumbing
1/16 in. OD tubing. To connect the high-pressure tubing to the valve, use the one-piece fingertight fittings provided in the Calibration Kit (see page 86). IMPORTANT To help ensure spray stability, make sure that all PEEK tubing is not crimped, kinked, or otherwise damaged. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 36: Setting Up The Syringe And Syringe Pump
• Use a dedicated syringe and length of PEEK tubing for each type of solution. • Wipe off the needle tip with a clean, lint-free tissue before reinserting the syringe into the syringe adapter assembly. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... - Page 37 Note If necessary, use the syringe needle tip to enlarge the opening slightly in the end of the Teflon tubing. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
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Page 38: Plumbing Schematics For The Sample Introduction Techniques
High-flow infusion without an LC pump autosampler Ion source (divert valve) Syringe pump Waste Manual loop injection (loop injector) Ion source Legend Waste Red PEEK tubing Teflon FEP tubing LC pump Sample loop Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 39: Setting Up The Inlet Plumbing For The Sample Introduction Techniques
LC union to the grounding union. Sample inlet Grounding (Optional sample tube for APCI mode) union Using natural PEEK tubing and nanoViper™ fittings, connect the source’s sample inlet to the grounding union. Grounding union holder Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 40: Setting Up The Inlet For Hplc With An Autosampler
Note For APCI mode, you do not need to remove the grounding bar if you choose not to use the H-ESI plumbing path. APCI mode Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 41: Setting Up The Inlet For High-Flow Infusion Without An Autosampler
• Using red PEEK tubing, connect port 1 (with a one-piece fingertight fitting) to the ion source (with a two-piece fingertight fitting). • 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 Orbitrap Tribrid Series Getting Started Guide... -
Page 42: Setting Up The Inlet For Loop Injections (Flow-Injection Analysis)
• Use a manual loop injection with chromatographic separation for qualitative or quantitative analysis when there is a limited amount of a sample mixture. Requires an LC column between the injection valve and the ion source. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... - Page 43 APCI mode (Not shown) Load a clean syringe with the sample solution, carefully insert it into the needle port that is installed in port 2, and then slowly press the syringe plunger. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
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Page 44: Connecting The Grounding Union To The H-Esi Spray Insert
For APCI mode, the grounding union and this plumbing path (sample tube) are not H-ESI spray insert required. Sample input Stainless steel grounding union installed in the grounding union holder (bar) Ion source housing Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 45: Preparing The System For Calibration
To set up the syringe pump for direct infusion of the calibration solution 1. Load a clean, 500 μL syringe with 500 μL of the ESI positive calibration solution. For a list of provided solutions, see Orbitrap Tribrid Series Chemicals Kit. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 46: Setting Up The Mass Spectrometer For Calibration
2. Click Profile (Centroid) and select the profile data type. 3. Click Positive (Negative) and select the positive ion polarity mode. 4. (Orbitrap Fusion and Orbitrap Fusion Lumos MSs) Select Standard Pressure mode, 5. Set the syringe pump parameters as follows: a. -
Page 47: Figure 5. Syringe Pump Settings Box
The preset priming flow rate is 100 μL/min. 8. Verify that the system readback is normal (see Checking the Instrument Readback Status). This completes the setup for calibrating the MS. Go to Chapter 5, “Establishing a Stable Ionization Spray.” Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 48 Preparing the System for Calibration Setting Up the Mass Spectrometer for Calibration Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 49: Chapter 5 Establishing A Stable Ionization Spray
In the Tune window, verify the following syringe and instrument settings: Current LC Flow (μL/min): 3 Syringe pump settings: 3 μL/min flow rate and 500 μL syringe volume Ion polarity mode: Positive Data type: Profile Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 50: Figure 6. Plot Chromatogram Dialog Box With The Tic Option Selected
, to open the Plot Chromatogram dialog (Figure Figure 6. Plot Chromatogram dialog box with the TIC option selected b. Select the Spray Stability check box to monitor the relative standard deviation (RSD) of the target ion current. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 51: Optimizing The Ion Source Parameters
1. Verify that the syringe has a sufficient amount of the calibration solution. 2. In the Tune window, click Syringe Off to turn on the syringe pump. For an analyte solution, turn on the flow from the syringe pump or the LC device. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 52: Figure 7. Optimization Page Of The Ion Source Pane
The status area displays the message “Optimization In Progress.” After Tune completes the optimization, the optimized value and the Accept and Reject buttons appear. d. Click Accept. The Report Generation Options dialog box opens (Figure Figure 8. Report Generation Options dialog box Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... - Page 53 Appendix A. 4. Optimize the remaining source parameters. 5. (Optional) Save the parameters’ state in the Favorites pane (see page 70). For additional information about the Favorites pane, refer to the Tune Help. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
- Page 54 Establishing a Stable Ionization Spray Optimizing the Ion Source Parameters Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 55: Calibrating The Mass Spectrometer In H-Esi Mode
Calibration (IC) options. If the optional EASY-ETD or EASY-IC ion source is installed in your MS, refer to the EASY-ETD and EASY-IC Ion Sources User Guide for the applicable figures. Contents • Calibration Solution Peak Values • Running the Calibration Procedures Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 56: Calibration Solution Peak Values
• Negative mode peaks m/z 265.1479 m/z 1333.9694 m/z 1533.9569 m/z 1733.9438 m/z 514.2849 m/z 1379.9916 m/z 1579.9787 m/z 1786.1122 m/z 1233.9760 m/z 1433.9635 m/z 1633.9498 m/z 1886.1056 m/z 1279.9980 m/z 1479.9853 m/z 1679.9726 Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 57: Figure 9. Traditional N-Butylamine Calibration Solution's Normal Mass-Range Spectrum
Calibration Solution Peak Values Figure 9. Traditional n-Butylamine calibration solution’s normal mass-range spectrum in positive ion polarity mode Figure 10. Traditional Ultramark 1621 calibration solution’s normal mass-range spectrum in negative ion polarity mode Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 58: Peak Values For The Pierce Flexmix Calibration Solution
1333.9688 m/z 1733.9432 m/z 2833.8728 m/z 601.9789 Note The Pierce FlexMix calibration solution (P/N A39239) is available for purchase Summer 2018. To check the availability status, visit this web page: www.thermofisher.com/search/browse/category/us/en/600654/Instrument+Calibration+ Kits%2C+Standards+%26+Reagents%2FMass+Spectrometry+Controls+%26+Standards Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 59: Figure 11. Flexmix Calibration Solution's Low-Mass Range Spectrum In Positive Ion
Calibrating the Mass Spectrometer in H-ESI Mode Calibration Solution Peak Values Figure 11. FlexMix calibration solution’s low-mass range spectrum in positive ion polarity mode Figure 12. FlexMix calibration solution’s low-mass range spectrum in negative ion polarity mode Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 60: Figure 13. Flexmix Solution's Normal-Mass Range Spectrum In Positive Ion Polarity
Calibrating the Mass Spectrometer in H-ESI Mode Calibration Solution Peak Values Figure 13. FlexMix solution’s normal-mass range spectrum in positive ion polarity mode Figure 14. FlexMix solution’s normal-mass range spectrum in negative ion polarity mode Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 61: Figure 15. Flexmix Solution's High-Mass Range Spectrum In Positive Ion Polarity
Calibrating the Mass Spectrometer in H-ESI Mode Calibration Solution Peak Values Figure 15. FlexMix solution’s high-mass range spectrum in positive ion polarity mode Figure 16. FlexMix solution’s high-mass range spectrum in negative ion polarity mode Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 62: Running The Calibration Procedures
3. In the Calibration pane, select the Perform Calmix Evaluation and Perform Spray Stability Evaluation check boxes (Figure 17). Figure 17. Calibration pane (example for Orbitrap Fusion and Orbitrap Fusion Lumos MSs) 4. (Optional) Select the Set System to Standby on Completion check box. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... - Page 63 9. If using the FlexMix calibration solution, run the Negative calibrations one at a time and in the order specified in the Tune window. IMPORTANT Before you start using your analyte, follow the procedure in Flushing the Inlet Components After Calibration. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
- Page 64 Calibrating the Mass Spectrometer in H-ESI Mode Running the Calibration Procedures Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 65: Using Tune To Acquire Sample Data
See these topics: • Setting Up the Inlet • Configuring the Syringe Pump • Configuring the LC Pump • Configuring the Ion Source for Reserpine (Example) • Setting the Instrument’s Optimal Pressure Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 66: Setting Up The Inlet
Volume (μL): 500 Figure 18. Syringe pump settings box b. Click Apply. c. Click Syringe Off to turn on the syringe pump. 3. Verify that the inlet plumbing connections do not leak. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 67: Configuring The Lc Pump
On the Ion Source - Ion Source page, set the parameters as listed in the following table. Parameter Setting Positive Ion Spray Voltage (V) 3500 Sheath Gas (Arb) Aux Gas (Arb) Sweep Gas (Arb) Ion Transfer Tube Temp (°C) Vaporizer Temp (°C) Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 68: Setting The Instrument's Optimal Pressure
Defining the Scan Parameters for Precursor Optimization Setting the Instrument’s Optimal Pressure For the Orbitrap Fusion and Orbitrap Fusion Lumos MSs only, use Standard Pressure mode for the reserpine example. (The Orbitrap ID-X MS does not have this button because it is always set to standard pressure mode.) -
Page 69: Optimizing The Isolation Window
NL reading. A significant drop in sensitivity indicates that the ions are not effectively isolated. 3. Enter successively smaller values for the isolation window, until the intensity of the chromatogram is acceptable for your needs. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 70: Figure 19. Cid-Ms/Ms Scan Spectrum With Fragmentation (Reserpine Example)
CID-MS/MS scan with fragmentation. For descriptions of the spectrum header information and controls, refer to the Spectrum View topic in the Tune Help. Figure 19. CID-MS/MS scan spectrum with fragmentation (reserpine example) 33% CID collision energy Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 71: Optimizing The Ion Source Parameters On An Analyte
4, entering new values in 5% increments until you are satisfied with the spectrum. The normal range for CID collision energy is 20–40 percent. The normal range for HCD collision energy is 10–50 percent. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 72: Defining The Scan Parameters For An Ms 3 Scan
Collision Energy (%) AGC Target 1.0e4 m/z (setting table) Type is the selected activation type. 3. Click Apply (or press ENTER). Figure 20 shows a spectrum example of a CID-MS scan with fragmentation. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 73: Acquiring A Data File By Using The Tune Application
If the base file name already exists in the save location, the Tune application adds a time-stamp suffix that consists of the year (YYYY), month (MM), day (DD), and time (HHMMSS). c. In the Sample Name box, type the name of the analyte (or other suitable label). Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 74: Figure 21. Data Acquisition Pane In The Tune Window
3. 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 Qual Browser manual or Help. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 75: Using The Xcalibur Data System To Acquire Data
Using the Xcalibur Data System to Acquire 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. If it cannot control an... -
Page 76: Selecting The External Start Instrument
(Figure 23). a. In the Start Instrument column, click the blank field to the right of the appropriate triggering device (typically an autosampler) to move “Yes” to that field. b. Click OK. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 77: Acquiring A Data File By Using The Xcalibur Data System
Acquiring a Data File by Using the Xcalibur Data System To acquire a data file by using the Xcalibur data system For instructions, refer to the Method Editor Help and the Xcalibur Help (Instrument Setup and Sequence Setup topics). Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 78 Using the Xcalibur Data System to Acquire Data Acquiring a Data File by Using the Xcalibur Data System Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 79: Appendix A Using Basic Tune Functions
• Checking the Instrument Readback Status • Setting the Tune Preferences • Using the MS Setting Table in the Define Scan Pane • Using the History Pane • Using the Favorites Pane to Save System Settings Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 80: Opening The Tune Window
24). For information about the buttons and icons in the Tune application and what they control, refer to the Tune Help. Figure 24. Orbitrap Fusion Lumos Tune window showing the Define Scan pane Three power mode icons Manual data Instrument... -
Page 81: Setting The Instrument System Controls
Click the down arrow to enter the value, and then click Apply. Divert/inject valve To set the divert/inject valve module and position Click the down arrow to select the valve, and then click Valve to set the position. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 82: Setting The Instrument Power Mode
100 μL/min. 3. Click the down arrow again or click elsewhere to close the box. Pressure mode (Orbitrap Fusion and Orbitrap Fusion Lumos MSs only) To set the instrument pressure mode Click Standard Pressure (Low Pressure [Intact Protein]) and select the instrument pressure mode. -
Page 83: Checking The Instrument Readback Status
The system is initializing. Amber One or more settings are changing. An error has occurred. Gray The ion source is off. Gray There is no communication between the MS and the data system. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 84: Setting The Tune Preferences
25). Figure 25. Tune Preferences dialog box 2. Select all check boxes that apply. 3. Under both Report Options and Current Calibration Mix, select one of the options, and then click OK. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 85: Using The Ms N Setting Table In The Define Scan Pane
2. Click Export to open the Save As dialog box. 3. Browse to a location, enter a file name, and then select a file type (CSV, TXT Only, or XML Data). 4. Click Save. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 86: Modifying Rows In The Ms N Setting Table
Rows. • Press the DELETE key on your keyboard. Add one row Do one of the following: • Click the Add Row icon, • Right-click the table, and then choose Add Row. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 87: Adding Or Removing Scan Parameters From The Ms Setting Table
Figure 26. Activation Type selected and added to the MS Setting Table (CID example) Activation Type is These two selected (appears parameters gray). appear when you select Activation Type. Activation Type is added. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 88: Using The History Pane
To save a favorite state 1. Modify parameters in one of the Ion Source or Define Scan panes. 2. Click Apply. 3. Click the Favorites tab to display the Favorites pane (Figure Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 89: Loading A Favorite State
You can rename a saved favorites entry by using the Favorites pane. To rename a favorite state 1. Right-click the name in the Favorites list and choose Rename. 2. Type a different name in the box that appears. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 90 Using Basic Tune Functions Using the Favorites Pane to Save System Settings Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 91: Appendix B Flushing The Inlet Components
CAUTION When the ion transfer tube is installed, do not flush it with cleaning solution, which flushes the residue into the instrument. Contents • Supplies • Flushing the Inlet Components After Calibration Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 92: Supplies
Part number Gloves, nitrile Fisher Scientific™19-120-2947 Unity Lab Services: • 23827-0008 (medium size) • 23827-0009 (large size) Methanol, Optima™ LC/MS-grade Fisher Scientific: A456-1 Water, Optima LC/MS-grade Fisher Scientific: W6-1 Multiple sizes are available. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 93: Flushing The Inlet Components After Calibration
Remove the syringe needle from the syringe adapter assembly. This completes the procedure to flush the inlet components. Repeat this procedure after you complete the negative polarity calibrations. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 94 Flushing the Inlet Components Flushing the Inlet Components After Calibration Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 95: Appendix C Preparing The Reserpine Sample Solution
MSDS or SDS. Ideally, prepare the reserpine sample solution just before using it. If you must store the solutions, keep them in a light-resistant container in the refrigerator until needed. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 96 7. Transfer 50 μL of the 1 pg/μL solution into a clean, minimum 1.5 mL polypropylene tube. 8. Add 950 μL of 1% acetic acid in 50:50 methanol/water to the tube. 9. Mix the solution thoroughly. 10. Label the tube Reserpine Sample Solution (50 fg/μL). Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 97: Appendix D Preparing The High Mass Range Calibration Solution
Always wear protective gloves and safety glasses when you use solvents or corrosives. Also, contain waste streams, use proper ventilation, and dispose of all laboratory reagents according to the directions in the MSDS or SDS. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 98 Unity Lab Services 23827) Pipet tips, 100 μL Pipetter, 100–1000 μL Sonicator Spatula, stainless steel Syringes, glass, 500 μL Vial, scintillation, glass, 20 mL Vortex mixer Weighing container Weight scale Multiple sizes are available. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 99: Guidelines
2. Use a syringe to transfer 500 μL of the ammonium hydroxide to the bottle. 3. Put on the lid and vortex the bottle of the ammonium hydroxide (28–30%) solution for 2 minutes. 4. Label the bottle 0.15% Ammonium Hydroxide Solution. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 100: Preparing The 0.15% Ammonium Hydroxide/Acn-50:50 Solution
• Freeze the stock solution at –20 °C (–4 °F) or colder for up to 6 months. • (Optional) To store the stock solution up to 1 year, make 1 mL aliquots. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 101: Preparing The 0.1% Acetic Acid/Acn-50:50 Solution
4. Loosen the lid slightly and sonicate the bottle for 5 minutes. 5. Label the bottle Enfuvirtide Final Solution and include the prepared and expiration dates. Note Refrigerate the final solution at 4 °C (39 °F) for up to 4 weeks. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 102 Preparing the High Mass Range Calibration Solution Preparing the Enfuvirtide Calibration Solution Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 103: Appendix E Installation Kits
HAZMAT-01-00062 (Pierce LTQ ESI Negative Ion Calibration Solution, P/N 88324) Enfuvirtide, 100 mg HAZMAT-01-00083 Reserpine standard solution, 100 pg/μL, 1 mL HAZMAT-01-00081 LCMS Functionality Test Kit (for service engineer use only) HAZMAT-01-00044 Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... -
Page 104: Calibration Kit
Note Use this tubing for flow rates equal to or greater than 50 μL/min. — Tubing, Teflon fluorinated ethylene propylene (FEP), 00301-22915 1/16 in. OD, 0.03 in. ID, 3 cm (1.2 in.) long Orbitrap Tribrid Series Getting Started Guide Thermo Scientific... -
Page 105: Performance Specification Kit
Tubing, red PEEK, 1/16 in. OD, 0.005 in. ID, 3 m 00301-22912 (10 ft) long Union Tee, HPLC, PEEK, 1/16 in. orifice, 0.020 in. 00101-18204 (0.5 mm) thru-hole, 10-32 (provided with fingertight fittings) Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 106 Installation Kits Performance Specification Kit Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
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Page 107: Glossary
The energy used when ions collide heated-electrospray (H-ESI), or nanospray ionization with the collision gas. (NSI). collision gas A neutral gas used in the collision cell to undergo collisions with ions. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 108 A solution of the analyte passes through a small capillary such that the fluid sprays through an electric field, generating very fine droplets. The droplets evaporate until all ions are in the gas phase. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
- Page 109 (m/z) of the ions to produce a mass spectrum. mass analyzer A device that determines the mass-to- charge ratios (m/z) of ions by one of a variety of techniques. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
- Page 110 = 1 corresponds to an MS (or MS) qualitative analysis Chemical analysis designed to scan with one stage of mass analysis. A scan power of determine the identity of the components of a substance. Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
- Page 111 UVPD produces abundant fragments and is applicable to peptides, proteins, and many other compound classes. Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
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Page 113: Index
LC flow rate grounding (ZDV) union regulatory grounding union (figure) contacting us xviii contamination, preventing Thermo Scientific Orbitrap Tribrid Series Getting Started Guide... - Page 114 MS, preparing for the API source plumbing connections setting table, using power modes, setting NSI source, installing optimization, API source parameters Orbitrap Tribrid Series Getting Started Guide Thermo Scientific...
- Page 115 2–3 sequence run, start instrument in Xcalibur solvents description waste spray stability, evaluating start instrument, configuring with Xcalibur stock solution, enfuvirtide symbols, meaning syringe adapter assembly avoid contamination cleaning Thermo Scientific Orbitrap Tribrid Series Getting Started Guide...
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