BMC Bioinformatics

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Relations as patterns: bridging the gap between OBO and OWL

Robert Hoehndorf*, Anika Oellrich, Michel Dumontier, Janet Kelso, Dietrich Rebholz-Schuhmann and Heinrich Herre

BMC Bioinformatics 2010, 11:441 doi:10.1186/1471-2105-11-441

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Research article   Open Access Highly Accessed

Unintended consequences of existential quantifications in biomedical ontologies

Martin Boeker, Ilinca Tudose, Janna Hastings, Daniel Schober, Stefan Schulz BMC Bioinformatics 2011, 12:456 (24 November 2011)

Almost a quarter of all existential restrictions in the Open Biomedical Ontologies (OBO) Foundry contain assertions that do not properly describe the underlying biological reality, suggesting that a restriction to fewer, well-defined, relation types is needed.

Research   Open Access

Ontology design patterns to disambiguate relations between genes and gene products in GENIA

Robert Hoehndorf, Axel-Cyrille Ngonga Ngomo, Sampo Pyysalo, Tomoko Ohta, Anika Oellrich, Dietrich Rebholz-Schuhmann Journal of Biomedical Semantics 2011, 2(Suppl 5):S1 (6 October 2011)

Methodology article   Open Access Highly Accessed

Integrating systems biology models and biomedical ontologies

Robert Hoehndorf, Michel Dumontier, John H Gennari, Sarala Wimalaratne, Bernard de Bono, Daniel L Cook, Georgios V Gkoutos BMC Systems Biology 2011, 5:124 (11 August 2011)

Introduction   Open Access

OBML – Ontologies in Biomedicine and Life Sciences

Heinrich Herre, Robert Hoehndorf, Janet Kelso, Frank Loebe, Stefan Schulz Journal of Biomedical Semantics 2011, 2(Suppl 4):I1 (9 August 2011)

Research   Open Access

Biomedical semantics in the Semantic Web

Andrea Splendiani, Albert Burger, Adrian Paschke, Paolo Romano, M Marshall Journal of Biomedical Semantics 2011, 2(Suppl 1):S1 (7 March 2011)