Representing default knowledge in biomedical ontologies: application to the integration of anatomy and phenotype ontologies
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* Corresponding author: Robert Hoehndorf hoehndorf@eva.mpg.de
BMC Bioinformatics 2007, 8:377 doi:10.1186/1471-2105-8-377
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BioMed Central: 7 citations
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Research article
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.
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Methodology article
Relations as patterns: bridging the gap between OBO and OWL Robert Hoehndorf, Anika Oellrich, Michel Dumontier, Janet Kelso, Dietrich Rebholz-Schuhmann, Heinrich Herre BMC Bioinformatics 2010, 11:441 (31 August 2010) |
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Research
Applying the functional abnormality ontology pattern to anatomical functions Robert Hoehndorf, Axel-Cyrille Ngonga Ngomo, Janet Kelso Journal of Biomedical Semantics 2010, 1:4 (31 March 2010) |
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Method
Integrating phenotype ontologies across multiple species Christopher J Mungall, Georgios V Gkoutos, Cynthia L Smith, Melissa A Haendel, Suzanna E Lewis, Michael Ashburner Genome Biology 2010, 11:R2 (8 January 2010) A phenotypic ontology that can be used for the analysis of phenotype-genotype data across multiple species, paving the way for truly cross species translational research. |
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Research
Structuring and extracting knowledge for the support of hypothesis generation in molecular biology Marco Roos, M Scott Marshall, Andrew P Gibson, Martijn Schuemie, Edgar Meij, Sophia Katrenko, Willem van Hage, Konstantinos Krommydas, Pieter W Adriaans BMC Bioinformatics 2009, 10(Suppl 10):S9 (1 October 2009) |
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Proceedings
BOWiki: an ontology-based wiki for annotation of data and integration of knowledge in biology Robert Hoehndorf, Joshua Bacher, Michael Backhaus, Sergio E Gregorio, Frank Loebe, Kay Prüfer, Alexandr Uciteli, Johann Visagie, Heinrich Herre, Janet Kelso BMC Bioinformatics 2009, 10(Suppl 5):S5 (6 May 2009) |
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Research
Terminologies for text-mining; an experiment in the lipoprotein metabolism domain Dimitra Alexopoulou, Thomas Wächter, Laura Pickersgill, Cecilia Eyre, Michael Schroeder BMC Bioinformatics 2008, 9(Suppl 4):S2 (25 April 2008) |