Thermo Scientific Orbitrap Fusion Lumos User Manual

Orbitrap Tribrid Series
Getting Started Guide
80000-97026 Revision A June 2018

Thermo Scientific Orbitrap Fusion Lumos Specifications

General

Scan Speed	Up to 20 Hz
Software	Thermo Scientific Xcalibur, Proteome Discoverer, Compound Discoverer
Mass Analyzer	Orbitrap, Ion Trap
Resolution	Up to 500, 000 at m/z 200
Ion Source	Electrospray Ionization (ESI), APCI
Detector	Electron Multiplier, Orbitrap
Data Acquisition Modes	Full Scan, SIM, PRM
MSn	up to MSn
Fragmentation Techniques	HCD, CID
Power Requirements	100-240 V, 50/60 Hz

Summary

Introduction

Ionization Techniques

Overview of H-ESI, APCI, APPI, and NSI ionization modes.

H-ESI Mode

APCI Mode

Setting Up the Ion Source

Preparing the Mass Spectrometer

Steps to prepare the MS before installing the ion source.

Installing the Ion Source

Procedure for installing the ion source into the mass spectrometer.

Preparing the Spray Insert for the Ion Source

Instructions for preparing the spray insert for calibration and experiments.

Removing the Ion Source

Step-by-step guide for removing the ion source from the MS.

Installing the NSI Source

Instructions for installing the NSI source for NSI experiments.

Connecting the Inlet Plumbing

Guidelines for PEEK Fittings and Tubing

Setting Up the Syringe and Syringe Pump

Procedure for setting up the syringe pump for sample infusion.

Setting Up the Inlet Plumbing for the Sample Introduction Techniques

General guidance on setting up inlet plumbing for various sample introduction methods.

Setting Up the Inlet for Direct Infusion

Setting Up the Inlet for HPLC with an Autosampler

Setting Up the Inlet for High-Flow Infusion Without an Autosampler

Setting Up the Inlet for Loop Injections (Flow-Injection Analysis)

Preparing the System for Calibration

Setting Up the Syringe Pump for Direct Infusion

Setting up the syringe pump to infuse calibration solution.

Setting Up the Mass Spectrometer for Calibration

Configuring the MS operational parameters for calibration.

Establishing a Stable Ionization Spray

Evaluating the Spray Stability

How to evaluate the stability of the ion source spray.

Optimizing the Ion Source Parameters

Adjusting ion source parameters for optimal spray performance.

Calibrating the Mass Spectrometer in H-ESI Mode

Calibration Solution Peak Values

Theoretical m/z values for calibration solutions.

Running the Calibration Procedures

Step-by-step guide for performing MS calibration procedures.

Using Tune to Acquire Sample Data

Setting Up the LC/MS System for Analyte Optimization

Setting up the LC/MS system for optimizing analyte analysis.

Setting Up the Inlet

Configuring the Syringe Pump

Configuring the LC Pump

Defining the Scan Parameters for Precursor Optimization

Defining scan parameters for optimizing precursor ion analysis.

Optimizing the Isolation Window

Optimizing the Ion Source Parameters on an Analyte

Optimizing the Fragmentation Parameters

Defining the Scan Parameters for an MS3 Scan

Acquiring a Data File by Using the Tune Application

Steps for acquiring a data file using the Tune application.

Using the Xcalibur Data System to Acquire Data

Selecting the External Start Instrument

Acquiring a Data File by Using the Xcalibur Data System

Procedure for acquiring data files using the Xcalibur data system.

Using Basic Tune Functions

Setting the Instrument System Controls

Checking the Instrument Readback Status

Using the MSn Setting Table in the Define Scan Pane