Volume 2 Supplement 2

Proceedings of the Bio-Ontologies Special Interest Group Meeting 2010

Proceedings

Edited by Larisa Soldatova, Susanna-Assunta Sansone, Susie Stephens and Nigam H Shah

Bio-Ontologies 2010: Semantic Applications in Life Sciences. Go to conference site.

Boston, MA, USA

9-10 July 2010

  1. Introduction

    Selected papers from the 13th Annual Bio-Ontologies Special Interest Group Meeting

    Over the years, the Bio-Ontologies SIG at ISMB has provided a forum for discussion of the latest and most innovative research in the application of ontologies and more generally the organisation, presentation ...

    Larisa N Soldatova, Susanna-Assunta Sansone, Susie M Stephens and Nigam H Shah

    Journal of Biomedical Semantics 2011 2(Suppl 2):I1

    Published on: 17 May 2011

  2. Proceedings

    The Translational Medicine Ontology and Knowledge Base: driving personalized medicine by bridging the gap between bench and bedside

    Translational medicine requires the integration of knowledge using heterogeneous data from health care to the life sciences. Here, we describe a collaborative effort to produce a prototype Translational Medici...

    Joanne S Luciano, Bosse Andersson, Colin Batchelor, Olivier Bodenreider, Tim Clark, Christine K Denney, Christopher Domarew, Thomas Gambet, Lee Harland, Anja Jentzsch, Vipul Kashyap, Peter Kos, Julia Kozlovsky, Timothy Lebo, Scott M Marshall, James P McCusker…

    Journal of Biomedical Semantics 2011 2(Suppl 2):S1

    Published on: 17 May 2011

  3. Proceedings

    How orthogonal are the OBO Foundry ontologies?

    Ontologies in biomedicine facilitate information integration, data exchange, search and query of biomedical data, and other critical knowledge-intensive tasks. The OBO Foundry is a collaborative effort to esta...

    Amir Ghazvinian, Natalya F Noy and Mark A Musen

    Journal of Biomedical Semantics 2011 2(Suppl 2):S2

    Published on: 17 May 2011

  4. Proceedings

    HyQue: evaluating hypotheses using Semantic Web technologies

    Key to the success of e-Science is the ability to computationally evaluate expert-composed hypotheses for validity against experimental data. Researchers face the challenge of collecting, evaluating and integr...

    Alison Callahan, Michel Dumontier and Nigam H Shah

    Journal of Biomedical Semantics 2011 2(Suppl 2):S3

    Published on: 17 May 2011

  5. Proceedings

    An open annotation ontology for science on web 3.0

    There is currently a gap between the rich and expressive collection of published biomedical ontologies, and the natural language expression of biomedical papers consumed on a daily basis by scientific research...

    Paolo Ciccarese, Marco Ocana, Leyla Jael Garcia Castro, Sudeshna Das and Tim Clark

    Journal of Biomedical Semantics 2011 2(Suppl 2):S4

    Published on: 17 May 2011

  6. Proceedings

    Automating generation of textual class definitions from OWL to English

    Text definitions for entities within bio-ontologies are a cornerstone of the effort to gain a consensus in understanding and usage of those ontologies. Writing these definitions is, however, a considerable eff...

    Robert Stevens, James Malone, Sandra Williams, Richard Power and Allan Third

    Journal of Biomedical Semantics 2011 2(Suppl 2):S5

    Published on: 17 May 2011

  7. Proceedings

    Scalable representations of diseases in biomedical ontologies

    The realm of pathological entities can be subdivided into pathological dispositions, pathological processes, and pathological structures. The latter are the bearer of dispositions, which can then be realized b...

    Stefan Schulz, Kent Spackman, Andrew James, Cristian Cocos and Martin Boeker

    Journal of Biomedical Semantics 2011 2(Suppl 2):S6

    Published on: 17 May 2011

  8. Proceedings

    Developing a kidney and urinary pathway knowledge base

    Chronic renal disease is a global health problem. The identification of suitable biomarkers could facilitate early detection and diagnosis and allow better understanding of the underlying pathology. One of the...

    Simon Jupp, Julie Klein, Joost Schanstra and Robert Stevens

    Journal of Biomedical Semantics 2011 2(Suppl 2):S7

    Published on: 17 May 2011

  9. Proceedings

    Representation of research hypotheses

    Hypotheses are now being automatically produced on an industrial scale by computers in biology, e.g. the annotation of a genome is essentially a large set of hypotheses generated by sequence similarity programs; ...

    Larisa N Soldatova and Andrey Rzhetsky

    Journal of Biomedical Semantics 2011 2(Suppl 2):S9

    Published on: 17 May 2011

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