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ODLS 2013 – Ontologies and Data in Life Sciences

Workshop of the GI/GMDS SIG externer LinkInformatics and Life Sciences
Integrated 5. Workshop Data in Life Sciences and Ontologies in Biomedicine und Life Sciences (OBML)

September 16–17, 2013, Koblenz as part of the externer LinkINFORMATIK 2013 conference.


Call for Participation

Where and When?

  • University of Koblenz-Landau, Campus Koblenz, Universitätsstraße 1, 56070 Koblenz, Germany     cf. externer LinkINFORMATIK 2013 > Venue
  • September 16–17, 2013

Registration & Local Organization

ODLS 2013 is part of INFORMATIK 2013, which handles externer Linkregistration as well as the overall local organization, cf. e.g. pages on externer Linkvenue or on externer Linkaccommodation. Please note that this also leads to a substantially higher participation fee than for OBML workshops in previous years. See the registration page for exact amounts (in several categories).

short link to this page:
externer Link

colocated button
externer Linksupported event of 



  • proceedings of INFORMATIK 2013 appear in the
  • authors of selected contributions will be invited
to submit extended versions to the

(cf. externer LinkVol. 3, Suppl. 2 for OBML 2011; 2012 is in press)

Important Dates (for Participation)

early registration July 15, 2013
late registration September 06, 2013
post and on-site registrationSeptember 17, 2013
workshop September 16–17, 2013


NEW [as of Sep 13, 2013]      PDF DokumentPrintable Program (PDF, ca. 450 KB)

Status: Sep 10, 2013

Mon, Sep 16, 2013 
  • OPTIMAS-DW, Meta Crop and VANTED: A Case Study for Data Integration, Curation and Visualisation in Life Sciences
    Christian Colmsee, Tobias Czauderna, Eva Grafahrend-Belau, Anja Hartmann, Matthias Lange, Martin Mascher, Stephan Weise, Uwe Scholz, Falk Schreiber
  • Towards Biomedical Data Integration for Analyzing the Evolution of Cognition
    Amrapali Zaveri, Jens Lehmann, Katja Nowick
  • DICOM metadata as RDF
    Michael Brunnbauer
  • Encapsulated Models for Reasoning and Decision Support
    Ivana Cace, John-Jules Meyer, Carla Pieterman, Gerlof Valk
  • Using Life Science Data in Share Point
    Michael Erdmann, Daniel Hansch
Tue, Sep 17, 2013 
  • Keynote: After the “Analytic Turn” – Are Ontologists Aware of the Needs of Full-Text Analytics?
    Udo Hahn
  • How fit is OWL to represent realist ontologies? The semantics of representational units in realist ontologies and the Web Ontology Language
    Daniel Kless, Ludger Jansen
  • Bio Top Lite: An Upper Level Ontology for the Life Sciences. Evolution, Design and Application
    Stefan Schulz, Martin Boeker
  • Representation, Realization, and Ascription of Functions for Material Entities
    Patryk Burek, Heinrich Herre
  • Ontological categories for fields and waves
    Johannes Röhl
  • Ontological analysis of controlled vocabularies used in PSI/MSI supported XML standards
    Daniel Schober, Gerhard Mayer, Annick Moing, Martin Eisenacher, Steffen Neumann
  • Measuring the Effect of a Guideline-based Training on Ontology Design with a Competency Questions based Evaluation Approach
    Martin Boeker, Niels Grewe, Johannes Röhl, Daniel Schober, Stefan Schulz, Djamila Seddig-Raufie, Ludger Jansen
  • Discussion


30 minutes are scheduled for all regular talks, which should therefore comprise of 22–25 min presentation, followed by 5–8 minutes of discussion.
The keynote is planned for 60 minutes, including discussion.

Call for Papers

Goals of the Workshop

Medicine, biology and life sciences produce hardly manageable and comprehensible amounts of data, information, and knowledge. Their computer-based processing, integration, as well as their conceptual foundation and application presents ever new challenges to existing methods of knowledge representation, data bases, and data analysis. In the life sciences, enormous data sets are being produced in connection with biological and medical experiments, aiming to unravel biological interconnections for a better understanding in order to offer patients the best possible therapies. Data management and data processing in the life sciences ranges from the best possible integration and usage of distributed, heterogeneous data to the best possible obfuscation of medical data.

This workshop integrates workshops of two series: the workshop series „Data in Life Sciences“ and „Ontologies in Biomedicine and Life Sciences“ (OBML), thereby connecting two important areas of biomedical research. This connection covers the overall spectrum of biomedical information processing, from experimental data acquisition and data management, across analysis, structuring and interpretation of data, up to the development of structures of knowledge in the form of ontologies with their various applications.

The workshop pursues the aim to gather scientists that work in these fields in order to exchange ideas, to discuss new results and to inspire collaboration. The workshop has an interdisciplinary character. It fosters the collaboration between ontologists, computer scientists, bio-informaticians, medical information scientists, applied logicians, as well as cooperations with physicians, bio-chemists, and biometricians.


The following topics are relevant, yet others related to these basic topics are likewise welcome:

for example, formal ontology of time and space, formal ontology of properties, roles and functions
for example, applications in the Semantic Web

Important Dates (for Submission)

Submission of contributions May 12, 2013 * (strict!)April 30, 2013; April 22, 2013
Author notification June 03, 2013May 20, 2013
Registration for ODLS of at least one author June 30, 2012
Submission of camera-ready version July 01, 2013 (strict!)


Program Committee

Submission of papers

Submissions to the workshop should comprise 2–4 pages. Since INFORMATIK actually grants more pages, longer contributions (up to 15 pages) are likewise admitted. Contributions in English are highly recommended, but submissions in German can also be accepted.

The formatting of contributions must make use of the templates for the externer LinkGI-Edition Lecture Notes in Informatics (LNI) and their accompanying guidelines:

The preferred file format for submissions is PDF, other admitted formats are Microsoft Word (DOC and DOCX) and Postscript (PS).

Papers must be submitted via the ConfTool conference system of the INFORMATIK 2013:

Submissions are reviewed and accepted papers will be printed in the proceedings volume of INFORMATIK 2013 in the series externer LinkGI-Edition Lecture Notes in Informatics (LNI). It is a mandatory prerequisite for publication in the proceedings that at least one author registers with the workshop (or INFORMATIK 2013) by June 30, 2013.

After the workshop authors of selected contributions will be invited to submit extended versions to the externer LinkJournal of Biomedical Semantics. These must then be written in English.

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