Topic outline

  • General

    Advanced Mass-Spectrometry based Proteomics: quantification and post-translational modifications

    Lausanne, 27 April 2012

    Following up on the course "Introduction to Mass Spectrometry-based Proteomics" the goal of this course is to give more advanced theoretical and practical knowledge on the mass spectrometry (MS) techniques used in proteomics, in particular for the characterization of post-translational modifications (PTMs) and the quantitation of protein in complex mixtures. The course will cover the following main subjects:

    • Strategies for PTM identification in proteins by MS: theory & concepts
    • PTM data analysis practical examples and exercises: phosphorylation
    • Quantitation of proteins by MS: labeled and unlabeled strategies
    • Quantitative workflows and examples of applications.

    The course will be structured with alternating theory and exercise periods. Participants will analyze mass spectrometry data with the data processing software Scaffold used to filter, validate, compare and export complex proteomics results.


    Manfredo Quadroni (UNIL, PAFL)
    Patrice Waridel (UNIL, PAFL)


    Participants should bring a pocket calculator. A laptop (Win or Mac) with wireless connectivity is mandatory.
    The software Scaffold 3 must be installed and can be downloaded from
    (Note: no key is required to use Scaffold as a viewer).

    Practical organization - Location

    Sessions runs from 9:00 to 17:00 approximately, with a lunch break.
    This one-day course is held at the GĂ©nopode building - University of Lausanne.


    The course is currently full and the registration is closed.
    You are welcome to register to the SIB courses mailing-list to be informed of all future courses and workshops, as well as all important deadlines using the form here.

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