Thermo Scientific DSQ Series User Manual
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Thermo Scientific DSQ Series User Manual

Direct probe system
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Xcalibur
Ion Trap and DSQ
Series
Direct Probe System User's Guide
119327-0001 Revision G
April 29, 2008

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  • Page 1 Xcalibur Ion Trap and DSQ Series Direct Probe System User’s Guide 119327-0001 Revision G April 29, 2008...
  • Page 2 SGE product. All other trademarks are the property of Thermo Fisher Scientific and its subsidiaries. Ion Trap series refers to ITQ and PolarisQ instruments. DSQ series refers to all DSQ and DSQ II instruments. Information about the TRACE GC and FOCUS GC instruments is included in this document.

  • Page 3: Reader's Survey

    Reader’s Survey Ion Trap and DSQ Series Direct Probe System User’s Guide, 119327-0001, Revision G Free gift for your returned Reader’s Survey. Please help us improve the quality of our documentation by completing and returning this survey. Circle one number for each statement:...
  • Page 5 Regulatory Compliance Thermo Fisher Scientific performs complete testing and evaluation of its products to ensure full compliance with applicable domestic and international regulations. When the system is delivered to you, it meets all pertinent electromagnetic compatibility (EMC) and safety standards as described below. EMC Directive 89/336/EEC EMC compliance has been evaluated by Professional Testing.
  • Page 6 WARNING Read and understand the various precautionary notes, signs, and symbols contained inside this manual pertaining to the safe use and operation of this product before using the device. WEEE Compliance This product is required to comply with the European Union’s Waste Electrical & Electronic Equipment (WEEE) Directive 2002/96/EC.
  • Page 7 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. This instrument is too heavy and/or bulky for one person alone to handle safely.
  • Page 8 Notice on the Susceptibility to Electromagnetic Transmissions Your instrument is designed to work in a controlled electromagnetic environment. Do not use radio frequency transmitters, such as mobile phones, in close proximity to the instrument. For manufacturing location, see the label on the instrument.

  • Page 9: Table Of Contents

    Step 11: Analyze the Data File........18 Analyzing Cholesterol with the DSQ Series......20 Step 1: Connect the Direct Probe System .
  • Page 10 Step 11: Analyze the Data File........60 Analyzing Cholesterol with the DSQ Series......62 Step 1: Connect the Direct Probe System .
  • Page 11 Index ..............97 Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 12 Contents Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 13: Preface

    This guide is written for users with minimal or no prior experience with the Ion Trap and DSQ Series or mass spectrometry. It also contains instructions on getting your instrument connected to the DPC and the sample probe of choice.

  • Page 14: Safety Symbols And Signal Words

    This damage may not be covered under the standard warranty. LIFTING HAZARD. This symbol indicates two or more people are required to lift the object to prevent a physical injury, which could or may occur. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 15: Contacting Us

    E-mail TechSupport.C+MS@thermofisher.com Knowledge base www.thermokb.com Find software updates and utilities to download at http://mssupport.thermo.com. To contact Customer Service for ordering information Phone 800-532-4752 561-688-8731 Web site http://www.thermo.com/com/cda/resources/resources_ detail/1,,12512,00.html Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 16: To Suggest Changes To Documentation Or To Instrument Help

    • Send an e-mail message to the Technical Publications Editor at techpubsaustin@thermofisher.com. Related Documentation In addition to this guide, Thermo Scientific provides the following documents, which are also available on a “Print-By-Request” basis: DSQ Document Set, PN 120156 • DSQ Preinstallation Guide, PN 120156-0001 •...
  • Page 17 • 120 V ac +6%/-10%, 50/60 Hz, 16 A max • 230 V ac ±10%, 50/60 Hz, 16 A max Detailed instrument specifications are in the Product Specification or Product Brochure. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide xvii...
  • Page 18 Preface xviii Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 19: Using A Direct Insertion Probe (Dip)

    Using a Direct Insertion Probe (DIP) This chapter explains how to use the DIP with either the Ion Trap or the DSQ series instruments. Contents • “How the Direct Probe System Works” page 2 • “Analyzing Cholesterol with the Ion Trap Series”...

  • Page 20: How The Direct Probe System Works

    Description DIP or DEP 119300-ODIP or DPC Keypad Sample Probe 119300-ODEP DPC External 119303-0001 DPC Remote 119378-0032 Cable to Probe Start Cable to mass spectrometer ACCESSORY START, DB9F-DIN Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 21 (GC) column separation. Another advantage to using a DIP or a DEP is to have a wide range of samples to volatilize directly into the ion source. Figure 3 shows the DIP tip and sample cup. Figure 3. DIP Tip and Sample Cup Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 22: Analyzing Cholesterol With The Ion Trap Series

    18 Steps 1 through 3 are considered the initial setup. After the initial setup you may skip steps 1 through 3 and proceed to steps 4 through 11. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 23: Step 1: Connect The Direct Probe System

    Always plug the DIP cable into the DPC probe connector when performing EI or CI experiments, even if the probe is not heated. The DIP cable connection to the DPC provides electrical ground. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 24 Turn the DPC ON by switching the Power Switch to |. Xcalibur automatically detects the probe and activates the Insert/Probe settings on the Home page, Tune window, and Sequence Editor. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 25: Step 2: Change The Ion Volume

    Samples can be analyzed in either EI or CI mode. Standard ion volumes are used using the probe ion volume holder included with your probe. The probe ion volume holder has a hole Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 26 Status tabs) to display the Insert Remove Probe screen. b. Select the Insert Probe tab. c. Attach the probe ion volume holder on the I/R tool. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 27: Step 3: Deselect As And Gc Devices

    GC equilibration time before every run. However, it is not necessary. 1. Start Xcalibur Instrument Configuration. From the Windows desktop, select the Instrument Configuration shortcut to display the Instrument Configuration screen. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 28: Step 4: Tune And Calibrate The Mass Spectrometer

    Instrument Configuration: Ion Trap Series Select the item to be removed from the Configured Devices section and click the Remove button. We recommend using the Ion Trap and DSQ Series configuration only when analyzing samples with the probe. 3. Click Done to return to the Windows desktop.

  • Page 29: To Retrieve Methods

    DPC as method 1, and may be recalled by loading method 1. To retrieve methods 1. Press the Prog key to display Load Method: X 2. Press Up or Down to locate the desired method number. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 30: Step 6: Prepare The Sample

    Select Instrument Setup to display the Instrument Setup window. 2. Enter the instrument method parameters. a. Select File | New to create a new method. X refers to methods numbered 1 - 9. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 31: Step 8: Create A Sequence File

    1. From the Xcalibur Home Page select Sequence Setup to display the Sequence Setup window. 2. Set up a sequence file. a. Select File | New to display a blank sequence file. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 32 Select File | Save to display the Save As screen. b. Enter CholDIP as the new sequence file and click Save to return to the Sequence Setup. Xcalibur automatically adds the *.sld extension to the sequence filename. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 33: Step 9: Insert The Probe Using Xcalibur

    Wait to see the Inlet Valve Message prompt you to insert the probe further into the chamber. e. Open the inlet valve by lifting the inlet valve lever up. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 34 Select Actions | Run This Sample to display the Run Sequence screen. Figure 14. Run Sequence Screen: Ion Trap Series c. Click OK to return to the Sequence Setup window. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 35: Step 10: Remove The Probe Using Xcalibur

    1st stop in the guide bar. Do not completely withdraw the probe until the ball valve has been closed. Otherwise, the system vents to the atmosphere. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 36: Step 11: Analyze The Data File

    Select Qual Browser to open the Qual Browser window. Refer to the Qual Browser manual to learn how to use Qual Browser techniques. 2. Select File | Open and select the CholDIP.raw data file you just ran. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 37 For information on how to load samples see “Loading DIP Samples” page 35, clean the probe tip see “Cleaning the DIP” page 37, and terms to know see “Top Terms To Know” page Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 38: Analyzing Cholesterol With The Dsq Series

    Analyzing Cholesterol with the DSQ Series Analyzing Cholesterol with the DSQ Series Note DSQ Series refers to both the DSQ II and DSQ mass spectrometers. Using a DSQ, analyzing sample involves these steps: “Step 1: Connect the Direct Probe System”...

  • Page 39: Step 1: Connect The Direct Probe System

    Always plug the DIP cable into the DPC probe connector when performing EI or CI experiments, even if the probe is not heated. The DIP cable connection to the DPC provides electrical ground. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 40 Turn the DPC on by switching the Power Switch to |. Xcalibur automatically detect the probe and activates the Insert/Probe settings on the Home page, Tune window, and Sequence Editor. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 41: Step 2: Change The Ion Volume

    GC ion volume holder, which allows sample to enter through the mass spectrometer transfer line (see Figure 20). Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 42 Status tabs) to display the Insert Remove Probe screen. b. Select the Insert Probe tab. c. Attach the probe ion volume holder on the I/R tool. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 43: Step 3: Deselect As And Gc Devices

    GC equilibration time before every run. However, it is not necessary. 1. Start Xcalibur Instrument Configuration. From the Windows desktop, select the Instrument Configuration shortcut to display the Instrument Configuration screen. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 44: Step 4: Tune And Calibrate The Mass Spectrometer

    Figure 21. Instrument Configuration: DSQ Series Select the item to be removed from the Configured Devices section and click the Remove button. We recommend using the Ion Trap and DSQ Series configuration only when analyzing samples with the probe. 3. Click Done to return to the windows desktop.
  • Page 45 Listen for the DPC to beep three times to indicate that your current method configuration is saved and stored in the DPC as method 1, and may be recalled by loading method 1. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 46: To Retrieve Methods

    Select the instrument setup icon to display the Instrument Setup window. 2. Enter the instrument method parameters. a. Select File | New to create a new method. X refers to methods numbered 1-9. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 47: Step 8: Create A Sequence File

    1. From the Xcalibur Home Page select Sequence Setup to display the Sequence Setup window. 2. Set up a sequence file. a. Select File | New to display a blank sequence file. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 48 Select File | Save to display the Save As screen. b. Enter CholDIP as the new sequence file and click Save to return to the Sequence Setup. Xcalibur automatically adds the *.sld extension to the sequence filename. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 49: Step 9: Insert The Probe Using Xcalibur

    Wait to see the Inlet Valve Message prompt you to insert the probe further into the chamber. e. Open the inlet valve by lifting the inlet valve lever up. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 50 Select Actions | Run This Sample to display the Run Sequence screen. Figure 28. Run Sequence Screen: DSQ Series c. Click OK to return to the Sequence Setup window. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 51: Step 10: Remove The Probe Using Xcalibur

    Do not completely withdraw the probe until the ball valve has been closed. Otherwise, the system vents to the atmosphere. 1. Wait until the DPC display panel indicates that the probe has cooled down below 100 °C. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 52: Step 11: Analyze The Data File

    Select Qual Browser to open the Qual Browser window. Refer to the Qual Browser manual to learn how to use Qual Browser techniques. 2. Select File | Open and select the CholDIP.raw data file you just ran. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 53: Loading Dip Samples

    For more detailed instructions, “Cleaning the DIP” page 2. Handle sample cups with clean forceps. a. Use one sample cup for each sample to avoid cross-contamination. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 54: Loading Liquid Samples

    If you are using the sample in its original form, proceed to the next step otherwise, dilute the sample in a small quantity of solvent. 2. Use a 10 μL syringe to draw 1 or 2 μL of sample. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 55: Loading Solid Samples

    Examine and clean your DIP and sample cups often to ensure the integrity of your experiments. 2. Clean the probe. a. Use only a soft cloth to wipe the probe handle and probe shaft. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 56: Top Terms To Know

    • Checking the evaporation behavior of unknown samples • Looking for the spectrum or the main peaks of an unknown sample • Determining the evaporation parameters for the temperature-programmed mode of operation • Temperature-Programmed Mode Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 57: Probe Shaft

    The DIP is inserted through the inlet valve and into the ion source. The DIP uses 9-mm (0.35-in.) one-piece Pyrex sample cups for standard DIP operations. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 58: Top Safeguards To Know

    “Step 10: Remove the Probe Using Xcalibur” page Hints • To keep sample cool for volatile samples, keep the probe outside the ion source until ready to press the DPC Go button. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 59 • [DSQ only] High Mass may require a higher ion offset and resolution for high scan rates. • [DSQ only] Get the best resolution by scanning slowly over a narrow mass range. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 60 Using a Direct Insertion Probe (DIP) Hints Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 61: Using A Direct Exposure Probe (Dep)

    Using a Direct Exposure Probe (DEP) This chapter explains how to use the DEP with either the Ion Trap or the DSQ series instruments. Contents “How the Direct Probe System Works” page 44 “Analyzing Cholesterol with the Ion Trap Series”...

  • Page 62: How The Direct Probe System Works

    Part Number DIP or DEP 119300-ODIP or DPC Keypad Sample Probe 119300-ODEP DPC External 119303-0001 DPC Remote Start Cable to Probe Cable to mass 119378-0032 spectrometer ACCESSORY START, DB9F-DIN Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 63 Volatilization of the sample from the DEP filament occurs very rapidly in comparison to the heated sample cup of the DIP. As a result, less thermal degradation of the sample occurs. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 64: Analyzing Cholesterol With The Ion Trap Series

    • DEP Kit (PN 119300-ODEP), includes the following: •(1 pkg) DEP Filaments (5), PN 119322-0001 •(1) DIP/DEP Test Mix-10 mg/mL, PN 119343-0001 •(2) Probe Ion Volume Holders, PN 119324-0001 Frequency As Needed Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 65: Step 1: Connect The Direct Probe System

    DPC REMOTE READY connection and the other end to the mass spectrometer ACCESSORY START connection. b. Connect the power cord to the DPC power plug connection and the other end to the power source. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 66: Step 2: Change The Ion Volume

    GC ion volume holder, which allows sample to enter through the mass spectrometer transfer line. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 67 Status tabs) to display the Insert Remove Probe screen. b. Select the Insert Probe tab. c. Attach the probe ion volume holder on the I/R tool. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 68: Step 3: Deselect As And Gc Devices

    Deselecting the AS and GC simplifies the methods and avoids waiting on GC equilibration time before every run. However, it is not necessary. 1. Start Xcalibur Instrument Configuration. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 69: Step 4: Tune And Calibrate The Mass Spectrometer

    2. Remove the AS and GC devices from Configured Devices. Select the item to be removed from the Configured Devices section and click the Remove button. We recommend using the Ion Trap and DSQ Series configuration only when analyzing samples with the probe.

  • Page 70: To Retrieve Methods

    DPC as Method 1, and may be recalled by loading Method 1. To retrieve methods 1. Press the Prog key to display Load Method: X X refers to methods numbered 1 - 9. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 71: Step 6: Prepare The Sample

    If the filament does not recess into the end of the probe, check to be sure the two pins inside the end of the probe are not extending beyond the end of the white insulator that holds the pins in place. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 72: Step 7: Create A Method File

    From the Windows desktop, click the Xcalibur icon to display the Xcalibur Home Page. b. Select Instrument Setup to display the Instrument Setup window. 2. Enter the instrument method parameters. a. Select File | New to create a new method. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 73: Step 8: Create A Sequence File

    1. Got to the Sequence Setup window, by selecting Sequence Setup from the Xcalibur Home Page. 2. Set up a sequence file. a. Select File | New to display a blank sequence file. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 74 Select File | Save to display the Save As screen. b. Enter CholDEP as the new sequence file and click Save to return to Sequence Setup. Xcalibur automatically adds the *.sld extension to the sequence filename. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 75: Step 9: Insert The Probe Using Xcalibur

    Wait to see the Inlet Valve Message prompt you to insert the probe further into the chamber. e. Open the inlet valve by lifting the inlet valve lever up. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 76 Select Actions | Run This Sample to display the Run Sequence screen. Figure 49. Run Sequence Screen: Ion Trap Series c. Click OK to return to the Sequence Setup window. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 77: Step 10: Remove The Probe Using Xcalibur

    Step 10: Remove the Probe Using Xcalibur You should still be at the Sequence Setup window. In this step you remove the probe to prepare for the next analysis. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 78: Step 11: Analyze The Data File

    Select Qual Browser to open the Qual Browser window. Refer to the Qual Browser manual to learn how to use Qual Browser techniques. 2. Select File | Open and select the CholDEP.raw data file you just ran. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 79 For information on how to load samples see “Loading DEP Samples” page 76, clean the probe tip see “Cleaning the DEP” page 78, and terms to know see “Top Terms to Know” page Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 80: Analyzing Cholesterol With The Dsq Series

    Analyzing Cholesterol with the DSQ Series Analyzing Cholesterol with the DSQ Series Note DSQ Series refers to both the DSQ II and DSQ mass spectrometers. Using a DSQ, analyzing sample involves these steps: “Step 1: Connect the Direct Probe System”...

  • Page 81: Step 1: Connect The Direct Probe System

    Turn the DPC ON by switching the Power Switch |. Xcalibur automatically detect the probe and activates the Insert/Probe settings on the Home page, Tune window, and Sequence Editor. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 82: Step 2: Change The Ion Volume

    GC ion volume holder, which allows sample to enter through the mass spectrometer transfer line. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 83 Status tabs) to display the Insert Remove Probe screen. b. Select the Insert Probe tab. c. Attach the Probe ion volume holder on the I/R tool. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 84: Step 3: Deselect As And Gc Devices

    GC equilibration time before every run. However, it is not necessary. 1. Start Xcalibur Instrument Configuration. From the Windows desktop, select the Instrument Configuration shortcut to display the Instrument Configuration screen. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 85: Step 4: Tune And Calibrate The Mass Spectrometer

    Figure 56. Instrument Configuration: DSQ Series Select the item to be removed from the Configured Devices section and click the Remove button. We recommend using the Ion Trap and DSQ Series configuration only when analyzing samples with the probe. 3. Click Done to return to the Windows desktop.

  • Page 86: To Retrieve Methods

    DPC as Method 1, and may be recalled by loading Method 1. To retrieve methods 1. Press the Prog key to display Load Method: X X refers to the methods numbered 1 - 9. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 87: Step 6: Prepare The Sample

    If the filament does not recess into the end of the probe, check to be sure the two pins inside the end of the probe are not extending beyond the end of the white insulator that holds the pins in place. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 88: Step 7: Create A Method File

    Enter the method settings shown in Figure Figure 60. Instrument Setup: DSQ Series CholDEP Method 3. Save the method. a. Select File | Save to display the Save As screen. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 89: Step 8: Create A Sequence File

    Select File | Save to display the Save As screen. b. Enter CholDEP as the new sequence file and click Save to return to Sequence Setup. Xcalibur automatically adds the *.sld extension to the sequence filename. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 90: Step 9: Insert The Probe Using Xcalibur

    Wait to see the Inlet Valve Message prompt you to insert the probe further into the chamber. e. Open the inlet valve by lifting the inlet valve lever up. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 91 Select Actions | Run This Sample to display the Run Sequence screen. Figure 65. Run Sequence Screen: DSQ Series c. Click OK to return to the Sequence Setup window. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 92: Step 10: Remove The Probe Using Xcalibur

    Do not completely withdraw the probe until the ball valve has been closed. Otherwise, the system vents to the atmosphere. 1. Select the Insert/Remove Probe button again from the Status tab. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 93: Step 11: Analyze The Data File

    2. Select Qual Browser to open the Qual Browser window. Refer to the Qual Browser manual to learn how to use Qual Browser techniques. 3. Select File | Open and select the CholDEP.raw data file you just ran. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 94: Loading Dep Samples

    2. Inspect the filament to make sure the filament wire is not short-circuited across the support posts. 3. Check the filament wire to be sure that it is straight with a smooth uniform loop. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 95: Loading Liquid Samples

    However, be careful not to warm the sample droplet too quickly, or the solvent could sputter and cause sample loss. [[Optional] Dilute the sample in a small quantity of solvent. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 96: Loading Solid Samples

    Select the Insert Remove Probe button from the Xcalibur Home Page to display the Insert Remove Probe screen. [[Optional] Dilute the sample in a small quantity of solvent to convert it to liquid. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 97 Probe screen. e. Wait to see the Inlet Valve Message prompt you to insert the probe further into the chamber. Open the inlet valve by lifting the lever up. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 98 Otherwise, the system vents to the atmosphere. a. Select the Insert / Remove Probe button from the Tune window to display the Insert/Remove Probe screen. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 99: Top Terms To Know

    The filament is a wire made of rhenium with a loop at the end. The filament wire is set in a ceramic base, which is inserted into the probe tip. Samples are placed on the filament wire and Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 100: Probe Shaft

    5. Avoid contaminating the DEP filament and probe shaft. Remember that both are inserted into the Ion Trap and DSQ Series. Handle them with care. CAUTION INSTRUMENT DAMAGE. Supplying a current greater than 100 mA to the filament in the presence of oxygen can burn out the filament.

  • Page 101: Hints

    • [DSQ only] High Mass may require a higher ion offset and resolution for high scan rates. • [DSQ only] Get the best resolution by scanning slow over a narrow mass range. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 102 Using a Direct Exposure Probe (DEP) Hints Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 103: Chapter 3 Getting Help

    Getting Help This chapter contains additional information for getting help. Contents • “Who to Call” page 86 • “Detuning the Instrument” page 87 • “Getting Spare Parts” page 89 Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...

  • Page 104: Who To Call

    1400 North Pointe Parkway, Suite 10 West Palm Beach, FL 33407 Phone: 1 (800) 532-4752 Technical Publications Editor Thermo Fisher Scientific Corporation 2215 Grand Ave. Pkwy Austin, TX 78728 USA (512)-251-1400 Email: techpubsaustin@thermo.com Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 105: Detuning The Instrument

    6. Select File | Save As to save the tune file with a different name other than the one you just adjusted. a. Name the file Probe.tune or Probe.dsqtune for your current tune configuration and future probe experiments. Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 106 Getting Help Detuning the Instrument b. Choose this tune file when setting up your method. 7. Begin your probe experiment. Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 107: Getting Spare Parts

    76433-0107 DPC External Cable to Probe 119303-0001 Direct Probe System’s User’s Guide 119327-0001 Sample Cup/Filament Holder 119342-0001 DPC Remote Start Cable to mass spectrometer 119378-0032 ACCESSORY START, DB9F-DIN Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 108 DPC Remote Start Cable to mass spectrometer 119378-0032 ACCESSORY START, DB9F-DIN 3CFM Pump Assembly Kit (7 items) 119317-0001 Hose Adapter Fitting 119178-0001 Hose Barb 1/8 Fitting 76256-0040 Vacuum Pump 76505-3007 Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 109 GC Ion Volume Holders 70001-20532 EI Ion Volumes 119650-0220 CI Ion Volumes 119650-0230 Probe Ion Volume Holders 119324-0001 Ion Volume I/R Tool 96000-60057 Guide Bar, Ion Trap Series/DSQ Series 119687-0010 Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 110 Getting Help Getting Spare Parts Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 111: Abbreviations

    Mandatory european marking for certain product groups to indicate conformity with essential eV electron volt health and safety requirements set out in european directives. EN european conformity cfm cubic feet per minute Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 112 ™ ICIS IEC international electrotechnical commission n nano (10 IEEE institute of electrical and electronics engineers in. inch p pico (10 I/O input/output Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...
  • Page 113 RS-232 industry standard for serial communications s second SCSI small computer system interface SIM selected ion monitoring SI international system of units S/N signal to noise ratio TIC total ion current Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 114 Abbreviation: Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

  • Page 115: Index

    Solid Lens 2 DEP Kit Liquid detune Liquid samples detuning Loading Samples 35, 36, Loading samples Modes DIP Kit direct chemical ionization Direct Probe Controller (DPC) Maximum rate Thermo Scientific Ion Trap and DSQ Series Direct Probe System User’s Guide...
  • Page 116 Remove Probe tab 34, 60, 75, Resolution Safeguards Sample cups Samples 43, 46, 76, 1, 4, 7, 23, 35, 37, 48, Forensic Tissue Sequence list DEP Ion Trap Series Solid Ion Trap and DSQ Series Direct Probe System User’s Guide Thermo Scientific...

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