2011 Meeting

The Bio-Ontologies SIG provides a forum for discussion of the latest and most innovative research in the appplication of ontologies and more generally the organisation, presentation and dissemination of knowledge in biomedicine and the life sciences. Bio-Ontologies has existed as a SIG at ISMB for 13 years, making it one of the longest running.


The SIG will be held Friday, July 15 and Saturday, July 16, 2011, co-located with ISMB/ECCB 2011 in Vienna, Austria.


The final programme is now available



SIG proceedings are also published as a knowledge blog. Check it out at: http://bio-ontologies.knowledgeblog.org/table-of-contents


Find us on: Facebook and Twitter

Call for Participation


We are interested in innovative approaches to organising, presenting 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 Bio-Ontologies, and the use of ontologies in data sharing standards. In addition, we invite submissions on methods, applications and workflows that "bridge the gaps" in the acquisition, dissemination and consumption of scientific content in biomedical informatics research.


For example, the importance and utility of collaborative content acquisition platforms (such as Wikis) is now widely accepted; however success stories about informatics workflows and discoveries that are specifically enabled by the proliferation of bio-wikis are not yet common. Similarly, there is tremendous excitement around sharing and mining of data for both basic as well as clinical research but real life solutions which bridge that divide are still scarce. We are looking for submissions on solutions that demonstrate the use of ontologies for "bridging the gaps" across research areas in the life sciences.


We invite submissions on a range of topics including, but not limited to:

- Discoveries enabled by Scientific Wikis.

- Semantic Web enabled applications (such as for enhanced publishing and for capturing scientific discourse)

- Use of Ontologies in Data Standards (e.g. Pistoia Alliance)

- Role of Bio-ontologies in Health 2.0

- Collaborative Curation Platforms

- Collaborative Ontology Authoring and Peer-Review Mechanisms

- Automated ontology learning

- Automated Annotation Pipelines

- Mapping between ontologies

- Research in Ontology Languages and its Effect on Bio-Ontologies

- "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


Key dates:

  • Submissions Due: April 22th, 2011 (Fri)

  • Notifications: May 13th, 2011 (Fri)

  • Final Version Due: May 20th, 2011 (Fri)

  • Workshop: July 15th-16th, 2011 (Fri, Sat)


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 indicate a desire to provide a flash update.

Organizers


  • Nigam Shah, Stanford University, USA

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

  • Susie M Stephens, Johnson & Johnson Pharmaceutical Research & Development, USA

  • Larisa Soldatova, University of Aberswyth, UK

Day 1, July 15 (link to presentations)

Day 2, July 16 (link to presentations)

Registration


Register for the Bio-Ontologies SIG at the ISMB/ECCB 2011 website at: http://www.iscb.org/ismbeccb2011-registration

Reviewers

Submissions


Please submit via easychair


Templates

  • Short paper bio-ontologies-2011.dot

  • Poster bio-ontologies-poster-2011.dot

  • Flash update bio-ontologies-flash-update-2011.dot