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<<apologies for cross-posting>>
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The Bio-Ontologies SIG (www.bio-ontologies.org.uk
<http://www.bio-ontologies.org.uk>) provides a forum for discussion of
the latest and most innovative research in 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. We invite you to join us on July
15th-16th, 2011 (Fri, Sat) at ISMB/ECCB 2011 in Vienna, Austria.
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)
Keynote speakers: Andrew Su and Ian Dix
Submissions: http://www.bio-ontologies.org.uk/submissions
We are interested in innovative approaches to organizing, 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.
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. Unsuccessful paper
submissions will automatically be considered for poster presentation;
there is no need to submit both on the same topic.
Please submit at: http://www.bio-ontologies.org.uk/submissions
Selected papers from the 2010 SIG are now in press at the Journal of
Biomedical Semantics, the special issue will be out soon! The papers are:
1. Luciano, J.S., Andersson, B., Batchelor, C. et al. The
Translational Medicine Ontology and Knowledge Base: Driving
personalized medicine by bridging the gap between bench and bedside.
2. Ghazvinian, A., Noy, N.F., Musen,M.A. How Orthogonal are the OBO
Foundry Ontologies?
3. Callahan, A., Dumontier, M., Shah, N. HyQue: Evaluating hypotheses
using Semantic Web technologies.
4. Ciccarese, P., Ocana, M., Castro, L.J.G. et al. An Open Annotation
Ontology for Science on Web 3.0.
5. Stevens, R., Malone, J., Williams, S. et al. Automating Generation
of Textual Class Defnitions from OWL to English.
6. Schulz, S., Spackman, K., James, A. et al. Scalable
Representations of Diseases in Biomedical Ontologies.
7. Jupp, S., Klein, J., Schanstra, J. et al. Developing a Kidney and
Urinary Pathway Knowledge Base.
8. Özgür, A., Xiang, Z., Radev, D.R. et al. Mining of
vaccine-associated IFN-gamma gene interaction networks using the
Vaccine Ontology.
9. Soldatova, L.N., Rzhetsky, A., King, R.D. Representation of
research hypotheses.
10. Coulet, A., Garten, Y., Dumontier, M. et al. Integration and
publication of heterogeneous text-mined relationships on the
Semantic Web.
The organisers:
Nigam Shah, Stanford University
Larisa Soldatova, University of Wales, Aberystwyth
Susanna-Assunta Sansone, University of Oxford
Susie Stephens, Johnson & Johnson
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