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Practical LC-MS/MS practical course
2 Day Course | LC-MS/MS Level 3

This course is not only designed to bolster your theoretical understanding of LC-MS as a technique, but to give you the practical skills needed to gain maximum benefit from your LC-MS, LC-MS/MS or LC-MSn detector.

The subject theory is practically reinforced through a range of specifically designed experiments that highlight the capabilities and limitations of mass analysers including singe quadrupole, triple or tandem quadrupole and ion trap Instruments using a range of samples.

Both theoretical and practical time is devoted to ensuring that LC methods and interface parameters are sufficiently optimised to achieve the greatest benefit from your mass spectrometric detector.

  • We limit numbers to 6 per course so that each delegate gets the opportunity to ask questions and fully participate in practical exercises
  • When delivered on-site we can design the course material to suit your specific training needs
  • Customisable written assessments are available if required
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Run at our laboratory facilities or in your own laboratory, these hands-on courses are designed to introduce both theory and practical concepts of instrumental analysis. Modern equipment is used in conjunction with interactive teaching techniques and well established practical exercises to ensure maximum return on your training investment.

Who is this course for
These courses are invaluable for anyone wishing to have the most comprehensive grounding in instrumental analysis techniques or those wishing to increase their knowledge and practical ability with our advanced training programs.

Previous knowledge
Some experience of operating LC-MS equipment and analysing LC-MS data is beneficial in order to fully participate in this course.

What you will learn

  • How ions are produced in each API mode and how to optimise LC mobile phase and interface parameters to achieve highest sensitivity
  • The anatomy and working principles of quadrupoles, ion traps, magnetic sector, time-of-flight detectors and more
  • The essentials of tuning and mass calibration, and how they affect the quality of data generated by your instrument
  • The sample information that can be acquired in MS, MS-MS and MSn modes, and how to optimise instrument settings for high data quality

Introduction – Fundamentals Review

  • Commonly used terms and concepts
  • Atmospheric Pressure Ionisation mechanisms of ESI/APCI/APPI
  • API source design
  • LC-MS eluent design – solvents, buffers and additives
  • API (ESI) interface optimisation

Scan Functions

  • LC-MS data acquisition modes (sensitivity vs. specificity)
  • Scanning vs. SIM
  • Singly and multiply charged species
  • Cone Voltage fragmentation (up-front CID)

Mass Analysers

  • Quadrupole mass analysers
  • Time of Flight mass analysers
  • Ion Trap mass analysers

LC-MS/MS Data Acquisition Modes

  • Product Ion Scanning
  • Constant Neutral Loss
  • Data-Dependent Scanning
  • Precursor Ion Scanning
  • Choosing precursor ions
  • Establishing MRM method parameters
  • Introduction to MS interpretation

Mass Accuracy and Resolution

  • Calibration of mass axis
  • Mass accuracy and resolution
  • Advantages of various analyser types
  • Tuning the mass analyser (sensitivity vs. resolution)


Training Calendar

Click on a title below to download a detailed course description or click a date and book your course.

Can't find a suitable training course? Call 01357 522 961 or email us.

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Practical Implication of the Skimmer Position

In practice pumps and nozzle orifice diameters are chosen to give highest transfer efficiency with reasonably priced and low maintenance pumping systems.

In most modern LC-MS systems the skimmer entrance is positioned so that the Mach disk is in front of the sampling orifice. This approach has several advantages:

  • Intermolecular collisions in the Mach disk and the associated shock waves leads to an increase in the gas temperature, which aids with the dissociation of ion-solvent clusters.
  • Applying a voltage to the skimmer allows ions to be sampled in preference to neutral species that are off-axially diverted in the Mach disk.
  • Altering the skimmer voltage can give rise to highly accelerated ions that undergo higher energy collisions causing fragmentation of the analyte ions to gain analyte structural information.

To aid in the transmission of ions through the nozzle-skimmer region relative to neutral species, manufacturers often include a ring electrode or transfer capillary to keep ions focused onto the nozzle axis and stop them from diffusing from the expansion core.

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