Volume 4 Supplement 1

Proceedings of the Bio-Ontologies Special Interest Group 2012


Edited by Larisa Soldatova, Michel Dumontier, Susanna Sansone and Nigam H Shah

The supplement hasn't received any external sponsorship, full details can be found in the declarations of each individual article

Bio-Ontologies 2012. Go to conference site.

Long Beach, CA, USA

13-14 July 2012

  1. Introduction

    Selected papers from the 15th Annual Bio-Ontologies Special Interest Group Meeting

    Over the 15 years, the Bio-Ontologies SIG at ISMB has provided a forum for discussion of the latest and most innovative research in the bio-ontologies development, its applications to biomedicine and more gene...

    Larisa N Soldatova, Susanna-Assunta Sansone, Michel Dumontier and Nigam H Shah

    Journal of Biomedical Semantics 2013 4(Suppl 1):I1

    Published on: 15 April 2013

  2. Proceedings

    Ontology-Based Querying with Bio2RDF’s Linked Open Data

    A key activity for life scientists in this post “-omics” age involves searching for and integrating biological data from a multitude of independent databases. However, our ability to find relevant data is hamp...

    Alison Callahan, José Cruz-Toledo and Michel Dumontier

    Journal of Biomedical Semantics 2013 4(Suppl 1):S1

    Published on: 15 April 2013

  3. Proceedings

    Representing physiological processes and their participants with PhysioMaps

    As the number and size of biological knowledge resources for physiology grows, researchers need improved tools for searching and integrating knowledge and physiological models. Unfortunately, current resources...

    Daniel L. Cook, Maxwell L. Neal, Robert Hoehndorf, Georgios V. Gkoutos and John H. Gennari

    Journal of Biomedical Semantics 2013 4(Suppl 1):S2

    Published on: 15 April 2013

  4. Proceedings

    Automated Patent Categorization and Guided Patent Search using IPC as Inspired by MeSH and PubMed

    Document search on PubMed, the pre-eminent database for biomedical literature, relies on the annotation of its documents with relevant terms from the Medical Subject Headings ontology (MeSH) for improving reca...

    Daniel Eisinger, George Tsatsaronis, Markus Bundschus, Ulrich Wieneke and Michael Schroeder

    Journal of Biomedical Semantics 2013 4(Suppl 1):S3

    Published on: 15 April 2013

  5. Proceedings

    A task-based approach for Gene Ontology evaluation

    The Gene Ontology and its associated annotations are critical tools for interpreting lists of genes. Here, we introduce a method for evaluating the Gene Ontology annotations and structure based on the impact t...

    Erik L Clarke, Salvatore Loguercio, Benjamin M Good and Andrew I Su

    Journal of Biomedical Semantics 2013 4(Suppl 1):S4

    Published on: 15 April 2013

  6. Commentary

    Query enhancement through the practical application of ontology: the IEDB and OBI

    Ontologies categorize entities, express relationships between them, and provide standardized definitions. Thus, they can be used to present and enforce the specific relationships between database components. T...

    Randi Vita, James A. Overton, Jason A. Greenbaum, Alessandro Sette and Bjoern Peters

    Journal of Biomedical Semantics 2013 4(Suppl 1):S6

    Published on: 15 April 2013

  7. Proceedings

    Representation of probabilistic scientific knowledge

    The theory of probability is widely used in biomedical research for data analysis and modelling. In previous work the probabilities of the research hypotheses have been recorded as experimental metadata. The o...

    Larisa N. Soldatova, Andrey Rzhetsky, Kurt De Grave and Ross D King

    Journal of Biomedical Semantics 2013 4(Suppl 1):S7

    Published on: 15 April 2013

  8. Proceedings

    NCBO Technology: Powering semantically aware applications

    As new biomedical technologies are developed, the amount of publically available biomedical data continues to increase. To help manage these vast and disparate data sources, researchers have turned to the Sema...

    Patricia L Whetzel

    Journal of Biomedical Semantics 2013 4(Suppl 1):S8

    Published on: 15 April 2013