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Conference Highlights

Date: July 13th-14th 2012

Location: Long Beach CA USA

Website: Bio-Ontolgies 2012

In cooperation with:  ISMB 2012 


The Bio-Ontologies SIG provides a forum for discussion of the latest and most innovative research in the application of ontologies and more generally the organization, presentation and dissemination of knowledge in biomedicine and the life sciences. Bio-Ontologies have existed as a SIG at ISMB for 14 years, making it one of the longest running. In addition to our usual focus on reports on newly developed Bio-Ontologies, and the use of ontologies in data sharing standards; this year we will focus on using ontologies for pre-competitive, translational research as well as data-driven approaches to evaluate ontologies.


Topics of Interest

We are interested in innovative approaches to organizing and consuming knowledge in life sciences and biomedicine. We invite papers in traditional areas, such as the biological applications of ontologies, reports on newly developed ones, and the use of ontologies in data sharing standards. In addition, we invite submissions on using ontologies for translational research as well as data-driven approaches to evaluate ontologies. We invite submissions on a range of topics including, but not limited to:

 - Discoveries enabled by Scientific Wikis

 - Semantic Web Enabled Applications

 - Hypothesis Testing Platforms

 - Use of Ontologies in Data Standards

 - Role of Bio-Ontologies in Health 2.0

 - Bio-Curation Platforms

 - Collaborative Ontology Authoring and Peer-Review Mechanisms

 - Automated Ontology Learning

 - Automated Annotation Pipelines

 - Ontology Generation From Natural Language

 - Mapping Between Ontologies 

 - Research in Ontology Evaluation

 - "Flash updates" on Newly Developed or Existing Bio-Ontologies

We are inviting three types of submissions.

 - Short papers, up to 4 pages.

 - Poster abstracts, up to 1 page.

 - Flash updates, up to 1 page.

Following review, successful papers will be presented at the Bio-Ontologies SIG. Poster abstracts will be provided poster space and time will be allocated during the 2 days for at least one poster session. Flash updates are for short talks (5 min) giving the salient new developments on existing public ontologies. Authors of posters can also provide a flash update. Unsuccessful papers will automatically be considered for poster presentation.



Nigam Shah,
Stanford University, USA

Susanna-Assunta Sansone,
University of Oxford, Oxford e-Research Center, UK

Michel Dumontier,
Carleton University, Canada

Larisa Soldatova,
University of Aberswyth, UK


Please submit via easychair

(make sure to use the right template from below)

We are inviting three types of submissions.
 - Short papers, up to 4 pages ... use the template
 - Poster abstracts, up to 1 page ... use the template
 - Flash updates, up to 1 page  ... use the template

Short papers template
Poster abstracts template
Flash updates template

Key Dates



April  13, 2012

Deadline for Submissions

May 11, 2012


May 18, 2012

Final Version Due

July 13-14, 2012

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