PhD course: Mass spectrometry (MS)-based proteomics and its application in biology

A 5-day course featuring talks and discussions around proteomics

Language

English 

Form

A mixture of lectures, data analysis exercises, presentations by the participating students, and scientific seminars by invited, international speakers. Technical lectures about modern proteomics technologies used to study cellular signaling pathways, protein-protein interactions, and global proteome changes.

Learning objectives

A student who has met the objectives of the course will be able to: 

1. Gain insights into major high-end proteomics technologies and workflows
2. Design quantitative proteomics experiments to address questions in biology
3. Analyze mass spectrometric data of peptides and proteins
4. Understand in which biological applications that quantitative proteomics can be applied
5. Gain insights into computational proteomics tools

Content

This course will take you through the basics about proteomics including MS technologies (orbitrap instrumentation and fragmentation mechanisms for peptide sequencing), quantitative proteomics (SILAC, TMT, and label free), proteomics sample preparation methods, computational proteomics (software and analysis strategies). Furthermore the course will give an overview of applications of quantitative proteomics in biology including large-scale proteome mapping of model organisms, epigenetics and proteomics, in vivo-SILAC, PTMs, paleoproteomics, organellar proteomics, and protein-protein interactions.

Course directors

Jesper Velgaard Olsen, Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), jesper.olsen@cpr.ku.dk

Sara Charlotte Buch-Larsen, Assistant Professor, Novo Nordisk Foundation Center for Protein Research (CPR), Faculty of Health and Medical Sciences (SUND), University of Copenhagen (UCPH), sara.larsen@cpr.ku.dk

Teachers and invited speakers (preliminary list)

Boris Macek, Professor, University of Tuebingen

Janne Lethiö, Professor, Karolinska Institutet

Jürgen Cox, Group Leader, Max Planck Institute of Biochemistry

Marcus Krüger, Professor, Center for Molecular Medicine Cologne

Matthias Selbach, Professor, Max Delbrück Center

Michiel Vermeulen, Professor, Radbout Universiteit

Richard Scheltema, Professor, University of Liverpool

Shabaz Mohammed, Associate Professor, University of Oxford

Tiziana Bonaldi, Group Leader, European Institute of Oncology, Milan

Blagoy Blagoev, Professor, University of Southern Denmark

Enrico Cappellini, Associate Professor, Globe Institute, University of Copenhagen

Frank Kjeldsen, Professor, University of Southern Denmark

Jens Andersen, Professor, University of Southern Denmark

Michael L. Nielsen, Head of Biolabs and Scientific Projects, Evosep (former Group Leader)

Jesper V. Olsen, Professor, Professor, NNF CPR, University of Copenhagen

Sara C. Buch-Larsen, Assistant Professor, NNF CPR, University of Copenhagen