AgroPortal: a vocabulary and ontology repository for agronomy
Many vocabularies and ontologies are produced to represent and annotate agronomic data. However, those ontologies are spread out, in different formats, of different size, with different structures and from overlapping domains. Therefore, there is need for a common platform to receive and host them,...
| Main Authors: | , , , , , , , , , , |
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| Format: | Journal Article |
| Language: | Inglés |
| Published: |
Elsevier
2018
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| Subjects: | |
| Online Access: | https://hdl.handle.net/10568/89904 |
| _version_ | 1855541943757438976 |
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| author | Jonquet, C. Toulet, A. Arnaud, Elizabeth Aubin, S. Dzale-Yeumo, E. Emonet, V. Graybeal, J. Laporte, Marie-Angélique Musen, M.A. Pesce, V. Larmande, Pierre |
| author_browse | Arnaud, Elizabeth Aubin, S. Dzale-Yeumo, E. Emonet, V. Graybeal, J. Jonquet, C. Laporte, Marie-Angélique Larmande, Pierre Musen, M.A. Pesce, V. Toulet, A. |
| author_facet | Jonquet, C. Toulet, A. Arnaud, Elizabeth Aubin, S. Dzale-Yeumo, E. Emonet, V. Graybeal, J. Laporte, Marie-Angélique Musen, M.A. Pesce, V. Larmande, Pierre |
| author_sort | Jonquet, C. |
| collection | Repository of Agricultural Research Outputs (CGSpace) |
| description | Many vocabularies and ontologies are produced to represent and annotate agronomic data. However, those ontologies are spread out, in different formats, of different size, with different structures and from overlapping domains. Therefore, there is need for a common platform to receive and host them, align them, and enabling their use in agro-informatics applications. By reusing the National Center for Biomedical Ontologies (NCBO) BioPortal technology, we have designed AgroPortal, an ontology repository for the agronomy domain. The AgroPortal project re-uses the biomedical domain’s semantic tools and insights to serve agronomy, but also food, plant, and biodiversity sciences. We offer a portal that features ontology hosting, search, versioning, visualization, comment, and recommendation; enables semantic annotation; stores and exploits ontology alignments; and enables interoperation with the semantic web. The AgroPortal specifically satisfies requirements of the agronomy community in terms of ontology formats (e.g., SKOS vocabularies and trait dictionaries) and supported features (offering detailed metadata and advanced annotation capabilities). In this paper, we present our platform’s content and features, including the additions to the original technology, as well as preliminary outputs of five driving agronomic use cases that participated in the design and orientation of the project to anchor it in the community. By building on the experience and existing technology acquired from the biomedical domain, we can present in AgroPortal a robust and feature-rich repository of great value for the agronomic domain.
Keywords |
| format | Journal Article |
| id | CGSpace89904 |
| institution | CGIAR Consortium |
| language | Inglés |
| publishDate | 2018 |
| publishDateRange | 2018 |
| publishDateSort | 2018 |
| publisher | Elsevier |
| publisherStr | Elsevier |
| record_format | dspace |
| spelling | CGSpace899042025-12-08T09:54:28Z AgroPortal: a vocabulary and ontology repository for agronomy Jonquet, C. Toulet, A. Arnaud, Elizabeth Aubin, S. Dzale-Yeumo, E. Emonet, V. Graybeal, J. Laporte, Marie-Angélique Musen, M.A. Pesce, V. Larmande, Pierre openn data ontology vocabulary knowledge organization system standards interoperability metadata agronomy Many vocabularies and ontologies are produced to represent and annotate agronomic data. However, those ontologies are spread out, in different formats, of different size, with different structures and from overlapping domains. Therefore, there is need for a common platform to receive and host them, align them, and enabling their use in agro-informatics applications. By reusing the National Center for Biomedical Ontologies (NCBO) BioPortal technology, we have designed AgroPortal, an ontology repository for the agronomy domain. The AgroPortal project re-uses the biomedical domain’s semantic tools and insights to serve agronomy, but also food, plant, and biodiversity sciences. We offer a portal that features ontology hosting, search, versioning, visualization, comment, and recommendation; enables semantic annotation; stores and exploits ontology alignments; and enables interoperation with the semantic web. The AgroPortal specifically satisfies requirements of the agronomy community in terms of ontology formats (e.g., SKOS vocabularies and trait dictionaries) and supported features (offering detailed metadata and advanced annotation capabilities). In this paper, we present our platform’s content and features, including the additions to the original technology, as well as preliminary outputs of five driving agronomic use cases that participated in the design and orientation of the project to anchor it in the community. By building on the experience and existing technology acquired from the biomedical domain, we can present in AgroPortal a robust and feature-rich repository of great value for the agronomic domain. Keywords 2018-01 2017-12-31T15:47:20Z 2017-12-31T15:47:20Z Journal Article https://hdl.handle.net/10568/89904 en Open Access application/pdf Elsevier Jonquet, C.; Toulet, A.; Arnaud, E.; Aubin, S.; Dzale Yeumo, E.; Emonet, V.; Graybeal, J.; Laporte, M-A.; Musen, M.A.; Pesce, V.; Larmande, P. (2017) AgroPortal: A vocabulary and ontology repository for agronomy. Computers and Electronics in Agriculture, Online first paper (06DEC17) ISSN: 0168-1699. |
| spellingShingle | openn data ontology vocabulary knowledge organization system standards interoperability metadata agronomy Jonquet, C. Toulet, A. Arnaud, Elizabeth Aubin, S. Dzale-Yeumo, E. Emonet, V. Graybeal, J. Laporte, Marie-Angélique Musen, M.A. Pesce, V. Larmande, Pierre AgroPortal: a vocabulary and ontology repository for agronomy |
| title | AgroPortal: a vocabulary and ontology repository for agronomy |
| title_full | AgroPortal: a vocabulary and ontology repository for agronomy |
| title_fullStr | AgroPortal: a vocabulary and ontology repository for agronomy |
| title_full_unstemmed | AgroPortal: a vocabulary and ontology repository for agronomy |
| title_short | AgroPortal: a vocabulary and ontology repository for agronomy |
| title_sort | agroportal a vocabulary and ontology repository for agronomy |
| topic | openn data ontology vocabulary knowledge organization system standards interoperability metadata agronomy |
| url | https://hdl.handle.net/10568/89904 |
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