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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, USA9-10 July 2010

  1. 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 ...

    Authors: Larisa N Soldatova, Susanna-Assunta Sansone, Susie M Stephens and Nigam H Shah
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):I1
  2. 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...

    Authors: 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, Jamie P McCusker…
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S1
  3. 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...

    Authors: Amir Ghazvinian, Natalya F Noy and Mark A Musen
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S2
  4. 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...

    Authors: Alison Callahan, Michel Dumontier and Nigam H Shah
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S3
  5. 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...

    Authors: Paolo Ciccarese, Marco Ocana, Leyla Jael Garcia Castro, Sudeshna Das and Tim Clark
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S4
  6. 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...

    Authors: Robert Stevens, James Malone, Sandra Williams, Richard Power and Allan Third
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S5
  7. 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...

    Authors: Stefan Schulz, Kent Spackman, Andrew James, Cristian Cocos and Martin Boeker
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S6
  8. 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...

    Authors: Simon Jupp, Julie Klein, Joost Schanstra and Robert Stevens
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S7
  9. Interferon-gamma (IFN-γ) is vital in vaccine-induced immune defense against bacterial and viral infections and tumor. Our recent study demonstrated the power of a literature-based discovery method in extractio...

    Authors: Arzucan Özgür, Zuoshuang Xiang, Dragomir R Radev and Yongqun He
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S8
  10. 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; ...

    Authors: Larisa N Soldatova and Andrey Rzhetsky
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S9
  11. Advances in Natural Language Processing (NLP) techniques enable the extraction of fine-grained relationships mentioned in biomedical text. The variability and the complexity of natural language in expressing s...

    Authors: Adrien Coulet, Yael Garten, Michel Dumontier, Russ B Altman, Mark A Musen and Nigam H Shah
    Citation: Journal of Biomedical Semantics 2011 2(Suppl 2):S10

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