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[protege-discussion] OBML 2012: Accepted Papers / Call for Participation (4th Workshop on Ontologies in Biomedicine and Life Sciences, Sep 27-28, Dresden, Germany)
frank.loebe at informatik.uni-leipzig.de
Fri Aug 31 20:51:22 PDT 2012
(apologies for cross-posting) ... (please distribute)
Call for Participation (incl. list of accepted papers)
>> OBML 2012 << Sep 27-28, Dresden, Germany
Fourth Workshop of
Ontologies in Biomedicine and Life Sciences (OBML 2012)
Goals of OBML
The workshop series on "Ontologies in Biomedicine and Life Sciences"
(OBML workshop) was initiated by the working group for OBML of the
German Society for Computer Science in 2009. The OBML workshop aims to
bring together scientists who are working on all areas of ontologies
applied to biomedicine and the life sciences to exchange ideas,
discuss new results, start collaborations and to initiate new
projects. The OBML workshop is held annually and deals with all
aspects of biomedical ontologies as well as additional "hot" topics.
This year's "hot" topic is the representation of physiology.
Physiology is the science of the functions and functionings of
biological systems, and significant resources have been invested in
biology and medicine to describe and simulate physiological processes.
In particular, researchers in systems biology and systems medicine
have generated a large number of computational models to predict the
outcome of physiological processes on a sub-cellular, cellular, tissue
and organ-level scale, and projects such as the Virtual Physiological
Human aim to extend this work further and create a computational model
of human physiology. While ontologies are now widely applied to
integrate biomedical data in many domains, the complexity of the
physiology domain has limited the success of ontologies so far.
Francisco Couto (Universidade de Lisboa)
"Semantic Similarity in Biomedical Ontologies: measurement, assessment
Michael Schroeder (Technical University Dresden)
George Gkoutos (University of Cambridge)
[titles to be announced]
List of Accepted Papers
* Tissue Motifs and Multi-scale Transport Physiology
Bernard De Bono, Paul Kasteleyn, Dome Potikanond, Natallia Kokash,
Fons Verbeek and Pierre Grenon.
* Developing an Ontology for Sharing Biobank Data based on the BBMRI
Minimum Data Set MIABIS
Mathias Brochhausen, Martin N. Fransson, Mikael Eriksson,
Roxana Merino-Martinez, Loreana Norlin, Sanela Kjellqvist,
Maria Anderberg, William R. Hogan and Jan-Eric Litton.
* PhysioMaps of Physiological Processes and their Participants
Daniel Cook, Maxwell Neal, Robert Hoehndorf, Georgios Gkoutos and
* OWL Representation of the Anatomical Therapeutic Chemical
Classification System and Mapping to DrugBank
Samuel Croset, Robert Hoehndorf and Dietrich Rebholz-Schuhmann.
* Comparing closely related, semantically rich ontologies:
The GoodOD Similarity Evaluator
Niels Grewe, Daniel Schober and Martin Boeker.
* Using Ontologies to Study Cell Transitions
Ludger Jansen, Georg Fuellen, Ulf Leser and Andreas Kurtz.
* Function of Bio-Models: Linking Structure to Behaviour
Christian Knuepfer and Clemens Beckstein.
* Enrichment analysis applied to disease prognosis
Catia M. Machado, Ana T. Freitas and Francisco M. Couto.
* Automatically transforming pre- to post-composed phenotypes:
EQ-lising HPO and MP
Anika Oellrich, Christoph Grabmueller and
* Functions, roles and dispositions revisited
Johannes Roehl and Ludger Jansen.
* ZooAnimals.owl: A didactically sound example-ontology for
teaching description logics in OWL 2
Daniel Schober, Niels Grewe, Johannes Röhl and Martin Boeker.
* The mouse pathology ontology: MPATH
Paul Schofield, John Sundberg, Beth Sundberg, Colin McKerlie and
Detailed registration information is provided on ,
The registration deadline is September 20, 2012,
the workshop dates are September 27-28, 2012.
Every participant is charged a contribution towards expenses of 25,- EUR
for catering during the breaks of both days, excluding lunch and dinner,
and for printing costs of the workshop proceedings.
The OBML Workshop 2012 will take place in Dresden, Germany,
at the Biotechnology Center of the Technical University .
Robert Hoehndorf (chair)
Martin Boeker (program chair)
Heinrich Herre (program chair)
Frank Loebe (co-organizer)
(Biotechnology Center, Technical University Dresden)
For the program committee, please see .
 Workshop website
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