02. – 07. März 2008, Dagstuhl-Seminar 08101

Computational Proteomics


Christian Huber (Universität Salzburg, AT)
Oliver Kohlbacher (Universität Tübingen, DE)
Michal Linial (The Hebrew University of Jerusalem, IL)
Katrin Marcus (Ruhr-Universität Bochum, DE)
Knut Reinert (FU Berlin, DE)

Auskunft zu diesem Dagstuhl-Seminar erteilt

Dagstuhl Service Team


Dagstuhl Seminar Proceedings DROPS


The field of Computational Proteomics has grown rapidly and gained a lot of momentum over the last years. Computational Proteomics was previously a field with a small and specialized community. Over the last few years, however, it has been recognized by experimental groups, that the analysis of the increasingly complex proteomics studies has become intractable without efficient algorithms implemented in easy-to-use tools. Conversely, the computer science and bioinformatics communities started to realize the wealth of interesting problems in this area. Both sides are thus eager to come together and work on these problems. To initiate this close collaboration of researchers from different fields (biology, medical sciences, biochemistry, analytical chemistry, bioinformatics, and computer science), we need opportunities to bring both communities together in an inspiring and relaxed atmosphere. Past experience from our 2005 seminar has shown that Dagstuhl is an ideal place for this.

Currently, computational proteomics faces a number of challenges. The increasing speed and accuracy of the new instrument generation yields datasets that are up to an order of magnitude larger than datasets seen a few years ago. This implies new algorithmic techniques and data analysis capabilities. The computer science problems to be tackled range from data management, over optimization problems, to machine learning. On the experimental side, the development of high mass accuracy and better separation techniques pose new challenges.

The seminar brought together a mixed audience from proteomics and bioinformatics: At the beginning we took a pool showing that there were 10 people who declared themselves as “wet lab” and 26 as “computer science”. Moreover, there were 21 people “holding a PhD degree” and 15 “working on it”. We are happy to see that the communities really grow together.

The talks and discussions were arranged on a daily basis featuring related topics:

  • Systems Biology and novel experimental techniques.
  • Quantitative analysis.
  • Identification.
  • Pathway analysis and biomarkers.

In conclusion, the workshop was very successful. It sparked interesting discussions, research collaborations, several joint grant proposals (e.g. for the BMBF program QuantPro), and joint publications. Other publications sparked by the seminar will certainly follow in the near future. The seminar also initiated the implementation of a webpage for interchanging proteomics data ( The success of the seminar and the positive feedback of the participants encourage us to organize a follow-up for this style of meeting.

Dagstuhl-Seminar Series


  • Interdisciplinary With Non-informatics-topic Bioinformatics


  • Bioinformatics
  • Biomedicine
  • Proteomics
  • Analytical chemistry


In der Reihe Dagstuhl Reports werden alle Dagstuhl-Seminare und Dagstuhl-Perspektiven-Workshops dokumentiert. Die Organisatoren stellen zusammen mit dem Collector des Seminars einen Bericht zusammen, der die Beiträge der Autoren zusammenfasst und um eine Zusammenfassung ergänzt.


Download Übersichtsflyer (PDF).

Dagstuhl's Impact

Bitte informieren Sie uns, wenn eine Veröffentlichung ausgehend von Ihrem Seminar entsteht. Derartige Veröffentlichungen werden von uns in der Rubrik Dagstuhl's Impact separat aufgelistet  und im Erdgeschoss der Bibliothek präsentiert.


Es besteht weiterhin die Möglichkeit, eine umfassende Kollektion begutachteter Arbeiten in der Reihe Dagstuhl Follow-Ups zu publizieren.