Fiches de cours

Caution, these contents corresponds to the coursebooks of last year

Mass spectrometry, principles and applications


Lecturer(s) :

Boyarkine Oleg
Gasilova Natalia
Menin Laure
Ortiz Trujillo Daniel
Patiny Luc




Every year


Pre-enrolment = send a short motivation email why you are interested in this course to


The goal is to provide students with a complete overview of the principles and key applications of modern mass spectrometry and meet the current practical demand of EPFL researchers to improve structural analsis of molecules. Numerous instrumental aspects of mass spectrometry are described.


The course program includes:


Week 1
1.    Lectures
1.1 General introduction to MS: Definitions/Instrumentation
1.2 MS/MS:fragmentation methods and mechanisms; Ion Mobility MS
1.3 LC-MS and other hyphenated techniques
1.4 ICP-MS
1.5 Summary of all concepts and fundamental MS aspects seen during the week.


2.    Exercises:
Ms.cheminfo org tools for advanced MS
3.    Pratical work:
3.1 Fragmentation of small molecules (sugars, small peptides) using QTOF and FT-Orbitrap-     MS,  fragmentation by   EI; interpretation of mass spectra using different tools and softwares.
3.2 Individual work for each doctorant topics.


Week 2
1.    Lectures
1.1 High Resolution Mass spectrometry
1.2 Photo-dissociation spectroscopy mass spectrometry
1.3 Peptidomics/Proteomics: top-down and bottom-up approaches
1.4 MALDI-TOF: principles and applications
1.5 Ion Mobility MS


2.    Exercises
Exercices on all topics covered by the MS course


3.    Final exam
15'presentation of each PhD student of its individual Practical Work


The course includes practical work in mass spectrometry that will be given in the Mass Spectrometry Service Facility of ISIC (SSMI, SB, EPFL).


1 week late February or early March and 2nd week early September 2019 (block)


mass spectrometry, tandem mass spectrometry, High-resolution mass spectrometry (HRMS), liquid chromatography, Gas chromatography, quantification, proteomics, lipidomics, metabolomics, proteomics

Assessment methods


In the programs

Reference week

      Exercise, TP
      Project, other


  • Autumn semester
  • Winter sessions
  • Spring semester
  • Summer sessions
  • Lecture in French
  • Lecture in English
  • Lecture in German