Mass-Spectrometry based Proteomics II: Quantification and Post-Translational Modifications

Date 9 February 2018
Speaker(s) Manfredo Quadroni, Patrice Waridel, Roman Mylonas
Fees 50 CHF
Cancellation deadline 7 Feb 2018
Application Closed
City Lausanne


Following up on the course Mass Spectrometry-based Proteomics I: Protein Identification, the goal of this second part 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 subjects:

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


This course is addressed to all students/scientists interested in the subjects of proteomics and mass spectrometry. The level is intermediate, meaning that there are some prerequisites (see below).

Learning objectives

The participants will be introduced to:

  • post-translational modifications identification by mass spectrometry
  • quantification workflows in proteomics

At the end of the course, the participants are expected to be able to:

  • identify PTMs from mass spectrometry data
  • process quantification data from MaxQuant with Perseus


Knowledge / competencies

This course is designed for intermediate users and there are the following requirements: basic knowledge of proteomics based on mass spectrometry and basic computer skills (program install, but no programming) are required. Previous participation to the course "Mass Spectrometry-based Proteomics I" or a similar one is a plus.


You are required to bring your own laptop and to install Scaffold and Perseus software (more information later).


The registration fees for academics are 50 CHF. This includes course content material and coffee breaks. Participants from non-academic institutions should contact us before application.

Deadline for registration and free-of-charge cancellation is set is set to [31/01/2018]. Cancellation after this date will not be reimbursed. Please note that participation to SIB courses is subject to our general conditions.

You will be informed by email of your registration confirmation.

Venue and time

University of Lausanne, Génopode building, classroom 2020 (Metro M1 line, Sorge station).

The course will start at 9:00 and end around 17:00. Precise information will be provided to the participants on due time.

Additional information

Coordination: SIB Training Group

We will recommend 0.25 ECTS credits for this course (given a passed exam at the end of the course).

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.

For more information, please contact