Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 423507
Title Contributions to an animal trait ontology
Author(s) Hulsegge, B.; Smits, M.A.; Pas, M.F.W. te; Woelders, H.
Source Journal of Animal Science 90 (2012)6. - ISSN 0021-8812 - p. 2061 - 2066.
DOI https://doi.org/10.2527/jas.2011-4251
Department(s) LR - Backoffice
Livestock Research
LR - Animal Breeding & Genomics
Publication type Refereed Article in a scientific journal
Publication year 2012
Keyword(s) database - gene - leptin - tool
Abstract Improved understanding of the biology of traits of livestock species necessitates the use and combination of information that is stored in a variety of different sources such as databases and literature. The ability to effectively combine information from different sources, however, depends on a high level of standardization within and between various resources, at least with respect to the used terminology. Ontologies represent a set of concepts that facilitate standardization of terminology within specific domains of interest. The biological mechanisms underlying quantitative traits of farm animal species related to reproduction and host pathogen interactions are complex and not well understood. This knowledge could be improved through the availability of domain specific ontologies that provide enhanced possibilities for data annotation, data retrieval, data integration, data exchange, data analysis, and ontology-based searches. Here we describe a framework for domain specific ontologies and the development of two first-generation ontologies: the Reproductive Trait and Phenotype Ontology (REPO) and the Host Pathogen Interactions Ontology (HPIO). In these first-generation ontologies, we focused on 'female fertility in cattle' and 'interactions between pigs and Salmonella'. Through this, we contribute to the global initiative towards the development of an Animal Trait Ontology (ATO) for livestock species. To demonstrate its usefulness, we show how REPO can be used to select candidate genes for fertility. Availability: The Reproductive Trait and Phenotype Ontology (REPO) is at NCBO BioPortal: http://bioportal.bioontology.org/ontologies/1552. The Host Pathogen Interaction Ontology (HPIO) is at NCBO BioPortal: http://bioportal.bioontology.org/ontologies/1569.
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