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MS500
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Agilent 500 Ion Trap LC/MS with the Agilent 1200 Infinity Series Quick Start Guide Step 1. Set up and learn about the system 3 Step 2. Create method and Sequence Sample List 4 Step 3. Start the Sample List in MS Workstation and Sequence in ChemStation 5 Troubleshooting 10 Use this guide to learn how to set up the Agilent 1200 Infinity Series to automatically inject samples for analysis on Agilent 500 Ion Trap LC/MS and MS Workstation software. See Figure 1 for an overview of the workflow. Agilent Technologies

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500 Ion Trap LC/MS: How to Acquire MS Data Workflow In MS Workstation check that 500-MS is NOT in the AutoStart Module box. Create MS acquisition method in MS Workstation. Create HPLC method in ChemStation. Create Sample List in MS mple Workstation. Create Sequence Table que in ChemStation. Make sure runtimes i MS Workstation and Ch St ti are synchronized. ti in W k t ti ti d ChemStation h (Allow extra time in LC method for Post Run Events in MS Workstation method.) Make sure number of vials/injections are synchronized. Begin MS Workstation S Wo Sample List. Start Sequence in ChemStation. i...

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Step 1. Set up and learn about the system Step 1. Set up and learn about the system • Refer to the Agilent 1200 Infinity Series and ChemStation user guides, the Agilent 500 Ion Trap LC/MS operator manuals, and online Help to become familiar with the two systems. • Refer to the Agilent 500 Ion Trap LC/MS with the Agilent 1200 Infinity Series Set-Up Guide for an overview of how the two systems are physically integrated. • Open the MS Workstation Configuration Window and make sure that the 500-MS icon is not in the AutoStart Module box. See for Figure 2. MS Workstation Configuration Window...

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Step 2. Create method and Sequence Sample List Step 2. Create method and Sequence Sample List 1 Make sure the Sample List (MS Workstation) and the Sequence entries (ChemStation) are synchronized, including number of injections per vial. Refer to these documents: • 500-MS LC/MS Quick Reference Guide and 500-MS Software Operation Manual for method development guidelines • 500-MS Software Operation Manual for MS method and Sample List creation • Agilent 1200 Infinity Series user guides and ChemStation online Help for LC method and Sequence creation 2 Make sure the LC program run time is equal...

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Step 3. Start the Sample List in MS Workstation and Sequence in ChemStation Step 3. Start the Sample List in MS Workstation and Sequence in ChemStation 1 In MS Workstation, in the Sample List window, click Begin to start the Sample List in MS Workstation MS Workstation Begin button in Sample List window Agilent 1200 Infinity Series LC to Agilent 500 Ion Trap LC/MS Set-Up Guide

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Step 3. Start the Sample List in MS Workstation and Sequence in ChemStation When the yellow Waiting indicator flashes, the LC/MS has achieved equilibration. The LC/MS is now waiting for sample injections. See Figure 4. MS Workstation System Control window with yellow flashing Waiting indicator Agilent 1200 Infinity Series LC to Agilent 500 Ion Trap LC/MS Set-Up Guide

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Step 3. Start the Sample List in MS Workstation and Sequence in ChemStation 2 In the ChemStation program, in the Instrument Control tab, click Start to start the Sequence. ChemStation Start button in the Instrument Control tab Agilent 1200 Infinity Series LC to Agilent 500 Ion Trap LC/MS Set-Up Guide

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The Automated Liquid Sampler (ALS) prepares to inject the sample as specified by the ChemStation method. See Figure 6. ^ Instrument 1 (online): Method and Run Control File RunContrdl Instrument Method 5equence View Abort Help lfa| H I Methods-tj -O ' | Sequences jjj l^[j ’ I "S *0 [S\\ D E Sequence Running/Data Acquisition U-J Method; ERA 538 SELECTEMP.M Sequence; DEF_LC.S lejiJf Instrument Contiol | Easy Sequence || Sequence Queue || Easy Sequence Setup, Thermostat Statu ChemStation Statu Left Right Valve n/a Sequence Running a System Control - Varian LC/MS #1 - Waiting for...

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When the sample is injected, the LC method (specified by ChemStation) and the LC/MS method (specified by MS Workstation) is started. See Figure 7. 1 (online): Method and Run Control I Instrument File RunContrdl Instrument Method 5eq ig/Data Acquisition Instrument Contiol ] Easy Sequence || Sequence Queue || Easy Sequence Setup] Binary Pump Status Thermostat Statu ChemStation Statu temp SOOppb a System Control - Varian LC/MS #1 - Running File Edit Inject Automation Recalculate Instrument Windows Help Injector Status I:' |ag| IH=l5Q0MS ESI 538cmpds low tempopt3.mth ► jft | B|H|| gf| j[q|...

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Troubleshooting If you have problems with the injection automation, please refer to this chart. 500 Ion Trap LC/MS: Troubleshooting ChemStation/MS Workstation Control Workflow MS Workstation does not wait for ChemStation MS Workstation data file is truncated Particular sample injections missing Check 500-MS k 500 configuration in MS Workstation Check synchronization of runtimes Check synchronization of MS and LC Sample List/Sequence table Make su ake sure 500-MS module is NOT in the AutoStart Module box in the configuration window Too many MS data files generated #Vials/injections in MS...

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Agilent 1200 Infinity Series LC to Agilent 500 Ion Trap LC/MS Set-Up Guide

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In This Book This guide describes how to set up the Agilent 1200 Infinity Series to be used with the Agilent 500 Ion Trap LC/MS and the MS Workstation software. © Agilent Technologies, Inc. 2010 Revision A0, November 2010 Agilent Technologies

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