An open-source framework for mass spectrometry and TOPP – The OpenMS Proteomics Pipeline

5th OpenMS User Meeting – High-­performance software for high-­throughput proteomics and metabolomics

Dear friends of OpenMS,

we are happy to announce the 5th OpenMS User Meeting on October 8th and 9th at the in the beautiful city Salzburg.

Salzburg (c) Tourismus Salzburg

Salzburg (c) Tourismus Salzburg

During the meeting at the Department of Molecular Biology of the University of Salzburg we will present the capabilities of OpenMS, discuss your needs, and future directions in mass spectrometry. This year’s meeting will again include an OpenMS tutorial session. Traditionally the schedule of our meetings is very flexible, allowing contributions from the participants and discussions.

You can bring your data, an OpenMS wish list and ideas for collaboration projects, and also give a talk about your project where available software solutions were unsatisfactory. We would be very happy to welcome you in Salzburg this year.


We will charge a fee of 80 € for regular participants and 60 € for students. The fee covers coffee breaks and the social event. We can accept cash payment only.


Please keep in mind that the following schedule is preliminary and can easily be adjusted to the needs of the participants.

Monday, 8th October

  • 10:30 Welcome and Opening (Christian Huber, University Salzburg)
  • 10:45 Overview on the upcoming OpenMS 1.10 including a look behind the curtain of OpenMS 2.0 (Oliver Kohlbacher, University Tübingen)
  • 11:00 Large Scale Proteomics and Metabolomics (Sven Nahnsen, QBiC Tübingen)
  • 11:30 Developer talks
    • Metabolite Feature Finder (Erhan Kenar, University Tübingen)
    • KNIME and OpenMS (Stephan Aiche, Freie Universität Berlin)
    • R integration (Marc Rurik, University Tübingen)
    • Quality Control for LC-MS data (Mathias Walzer, University Tübingen)
  • 13:00 Lunch
  • 14:15 OpenMS tutorials
  • 17:15 Keynote Lecture (Christian Huber, University Salzburg)
  • 19:00 Social event, Knight’s dinner at Hohensalzburg Castle

Tuesday, 9th October

  • 9:00 Keynote Lecture (Lars Malmström, ETH Zürich)
  • 10:15 Developer talks
    • Metaproteomics (Timo Sachsenberg, University Tübingen)
    • Phosphoproteomics (Johannes Junker, University Tübingen)
    • Statistics for AP-MS Data (Martina Fischer, RKI Berlin)
    • SRM/SWATH (Hannes Röst & George Rosenberg, ETH Zürich)
  • 13:15 Contributed talks
    • De Novo Search/Differential Proteomics (Lisa Weilnböck, University Salzburg)
    • Comparison of iTRAQ and TMT (Theresa Kristl, University Salzburg)
    • Direct infusion metabolomics (Christina Ranninger, University Salzburg)
    • Toward a Human Proteome Atlas (Giulia Gonnelli, Gent University)
    • Protein-RNA Crosslinking (Uzma Zaman, MPI Göttingen)
    • SRM Quantification (Verena Dullnig, University Salzburg)
    • Top-Down Proteomics (Martin Samonig, University Salzburg)
  • 17:15 Closing Remarks


There are several accommodation options close by, for example:

All of these information can also be found on the Flyer for this year’s user meeting. For questions and registration please contact Marc Rurik rurikatinformatikdotuni-tuebingendotde

See you in Salzburg

The OpenMS team