The DOI matches its Crossref record; 39 of the 43 references it cites were found in a registry or an index.
The Ontologies Community of Practice: A CGIAR Initiative for Big Data in Agrifood Systems
Open accessAbstract
Heterogeneous and multidisciplinary data generated by research on sustainable global agriculture and agrifood systems requires quality data labeling or annotation in order to be interoperable. As recommended by the FAIR principles, data, labels, and metadata must use controlled vocabularies and ontologies that are popular in the knowledge domain and commonly used by the community. Despite the existence of robust ontologies in the Life Sciences, there is currently no comprehensive full set of ontologies recommended for data annotation across agricultural research disciplines. In this paper, we discuss the added value of the Ontologies Community of Practice (CoP) of the CGIAR Platform for Big Data in Agriculture for harnessing relevant expertise in ontology development and identifying innovative solutions that support quality data annotation. The Ontologies CoP stimulates knowledge sharing among stakeholders, such as researchers, data managers, domain experts, experts in ontology design, and platform development teams.
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“Since their 2016 publication, numerous disciplines are striving to apply FAIR Principles, including genomics, agriculture (Arnaud et al., 2020; David et al., 2020), climate science, and medicine.”
From Sysrev: A FAIR Platform for Data Curation and Systematic Evidence Review (2021) · cites this paper as Arnaud et al., 2020
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The FAIR Guiding Principles for scientific data management and stewardship
Wilkinson, M. D., Dumontier, M., Aalbersberg, I. J., Appleton, G., Axton, M., Baak, A., Blomberg, N., Boiten, J.-W., da Silva Santos, L. B., Bourne, P. E., et al. (2016) · Scientific Data · doi:10.1038/sdata.2016.18 · Cited by 18,423
The Gene Ontology Resource: 20 years and still GOing strong
The Gene Ontology Consortium (2019) · Nucleic Acids Research · doi:10.1093/nar/gky1055 · Cited by 4,747
The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration
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Expansion of the Gene Ontology knowledgebase and resources
The Gene Ontology Consortium (2017) · Nucleic Acids Research · doi:10.1093/nar/gkw1108 · Cited by 1,850
Encyclopedia of Database Systems
LIU, L., & ÖZSU, M. T. (2009) · Springer eBooks · doi:10.1007/978-0-387-39940-9 · Cited by 1,826
Federhen, S. (2012) · Nucleic Acids Research · doi:10.1093/nar/gkr1178 · Cited by 1,436
Dooley, D., Griffiths, E., Gosal, G., Buttigieg, P. L., Hoehndorf, R., Lange, M. C., Schriml, L. M., Brinkman, F. S. L., & Hsiao, W. (2018) · npj Science of Food · doi:10.1038/s41538-018-0032-6 · Cited by 410
The environment ontology: contextualising biological and biomedical entities
Buttigieg, P. L., Morrison, N., Smith, B., Mungall, C., & Lewis, S. (2013) · Journal of Biomedical Semantics · doi:10.1186/2041-1480-4-43 · Cited by 376
Ontology Engineering in a Networked World
Suárez-Figueroa, M. C., Gómez-Pérez, A., Motta, E., & Aldo Gangemi, A. (2012) · Springer eBooks · doi:10.1007/978-3-642-24794-1 · Cited by 350
Buttigieg, P. L., Pafilis, E., Lewis, S., Schildhauer, M. P., Walls, R., & Mungall, C. (2016) · Journal of Biomedical Semantics · doi:10.1186/s13326-016-0097-6 · Cited by 270
Cited by
Leonelli, S. (2023) · Cambridge University Press eBooks · doi:10.1017/9781009416368 · Cited by 206
Sysrev: A FAIR Platform for Data Curation and Systematic Evidence Review
Bozada, T., Borden, J., Workman, J., Del Cid, M., Malinowski, J., & Luechtefeld, T. (2021) · Frontiers in Artificial Intelligence · doi:10.3389/frai.2021.685298 · Cited by 118
Applications of knowledge graphs for food science and industry
Min, W., Liu, C., Xu, L., & Jiang, S. (2022) · Patterns · doi:10.1016/j.patter.2022.100484 · Cited by 115
Breedbase: a digital ecosystem for modern plant breeding
Morales, N., Ogbonna, A. C., Ellerbrock, B. J., Bauchet, G. J., Tantikanjana, T., Tecle, I., Powell, A. F., Lyon, D., Menda, N., Simoes, C. C., et al. (2022) · G3 Genes Genomes Genetics · doi:10.1093/g3journal/jkac078 · Cited by 81
A meta-analysis of the adoption of agricultural technology in Sub-Saharan Africa
Arslan, A., Floress, K. M., Lamanna, C. A., Lipper, L., & Rosenstock, T. S. (2022) · PLOS Sustainability and Transformation · doi:10.1371/journal.pstr.0000018 · Cited by 91
Metadata
- Authors
- Arnaud, E., Laporte, M.-A., Kim, S., Aubert, C., Leonelli, S., Miro, B., Cooper, L., Jaiswal, P., Kruseman, G., Shrestha, R., Buttigieg, P. L., Mungall, C. J., Pietragalla, J., Agbona, A., Muliro, J., Detras, J., Hualla, V., Rathore, A., Das, R. R., Dieng, I., Bauchet, G., Menda, N., Pommier, C., Shaw, F., Lyon, D., Mwanzia, L., Juarez, H., Bonaiuti, E., Chiputwa, B., Obileye, O., Auzoux, S., Yeumo, E. D., Mueller, L. A., Silverstein, K., Lafargue, A., Antezana, E., Devare, M., & King, B.
- Affiliations
- Alliance Bioversity International - CIAT (IT)
- International Food Policy Research Institute (US)
- University of Exeter (GB)
- Oregon State University (US)
- Centro Internacional de Mejoramiento de Maíz Y Trigo (MX)
- GEOMAR Helmholtz Centre for Ocean Research Kiel (DE)
- International Institute of Tropical Agriculture (UG)
- WorldFish (MY)
- International Rice Research Institute (PH)
- International Potato Center (PE)
- International Crops Research Institute for the Semi-Arid Tropics (IN)
- Cornell University (US)
- Université Paris-Saclay (FR)
- Norwich Research Park (GB)
- International Center for Tropical Agriculture (KE)
- International Center for Agricultural Research in the Dry Areas (LB)
- World Agroforestry Centre (KE)
- Centre de Coopération Internationale en Recherche Agronomique pour le Développement (FR)
- University of Minnesota (US)
- Syngenta (France) (FR)
- Norwegian University of Science and Technology (NO)
- Bioversity International (CO)
- Corresponding author
- Arnaud, Elizabeth
- ORCID
- Arnaud, Elizabeth
- Laporte, Marie-Angélique
- Aubert, Céline
- Leonelli, Sabina
- Miro, Berta
- Cooper, Laurel
- Jaiswal, Pankaj
- Kruseman, Gideon
- Shrestha, Rosemary
- Buttigieg, Pier Luigi
- Pietragalla, Julian
- Agbona, Afolabi
- Muliro, Jacqueline
- Detras, Jeffrey
- Hualla, Vilma
- Rathore, Abhishek
- Das, Roma Rani
- Dieng, Ibnou
- Bauchet, Guillaume
- Menda, Naama
- Pommier, Cyril
- Shaw, Felix
- Mwanzia, Leroy
- Bonaiuti, Enrico
- Chiputwa, Brian
- Obileye, Olatunbosun
- Auzoux, Sandrine
- Mueller, Lukas A.
- Silverstein, Kevin
- Antezana, Erick
- Devare, Medha
- King, Brian
- Venue
- Patterns
- Publisher
- Elsevier BV
- Published
- 2020-10
- Volume
- 1
- Issue
- 7
- Pages
- 100105
- ISSN
- 2666-3899 (ISSN-L)
- PMC
- PMC7660444
- OpenAlex
- W3089193614
- Cited by
- 78
- References
- 43
- Citations by year
- 2026: 5 · 2025: 10 · 2024: 12 · 2023: 16 · 2022: 23 · 2021: 12
- FWCI
- 4.97
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- Locations
- Patterns (publishedVersion, cc-by-nc-nd)
- PubMed Central (publishedVersion, cc-by-nc-nd)
- PubMed (publishedVersion)
- Open Access Repository of ICRISAT (International Crops Research Institute for the Semi-Arid Tropics) (acceptedVersion)
- Helmholtz Centre for Ocean Research Kiel (GEOMAR) (acceptedVersion)
- HAL (submittedVersion, cc-by-nc-nd)
- HAL (submittedVersion)
- Agritrop (Cirad) (submittedVersion, cc-by-nc-nd)
- IFPRI E-brary (International Food Policy Research Institute) (submittedVersion, other-oa)
- CGSPace A Repository of Agricultural Research Outputs (Consultative Group for International Agricultural Research) (submittedVersion, cc-by-nc-nd)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- International Food Policy Research Institute (International Food Policy Research Institute) (submittedVersion, other-oa)
- Helmholtz-Zentrum für Polar-und Meeresforschung (Alfred-Wegener-Institut) (submittedVersion)
- eScholarship (California Digital Library) (submittedVersion)
- eScholarship (California Digital Library) (submittedVersion, cc-by-nc-nd)
- Figshare (submittedVersion, cc-by-nc-nd)
- Open Research Exeter (University of Exeter) (submittedVersion, cc-by-nc-nd)
- OSTI OAI (U.S. Department of Energy Office of Scientific and Technical Information) (submittedVersion)
- Funders
- Bailey Family Foundation (11-BTBR-0002, 11-BTBR-0004, 11-BTBR-0006)
- Consortium of International Agricultural Research Centers
- Oregon State University
- Horizon 2020 Framework Programme
- European Commission (676559, ANR-10-BTBR-03)
- Agence Nationale de la Recherche (ANR-11-INBS-0012)
- National Science Foundation
- Alfred Wegener Institute Helmholtz Centre for Polar and Marine Research
- Engineering and Physical Sciences Research Council (EP/N510129/1)
- Biotechnology and Biological Sciences Research Council
- Seventh Framework Programme (283496)
- Alan Turing Institute
- Animal Welfare Institute
- Topics
- Physical Sciences › Computer Science › Artificial Intelligence › Semantic Web and Ontologies
- Physical Sciences › Computer Science › Information Systems › Research Data Management Practices
- Health Sciences › Medicine › Health Informatics › Biomedical Text Mining and Ontologies
- Keywords
- ontology (information science), communities of practice, data annotation, controlled vocabulary, FAIR principles, interoperability, agri-food systems, knowledge sharing, ontology construction, agricultural research data
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Contains information from the Semantic Scholar Academic Graph Datasets, made available under the ODC Attribution License (ODC-BY 1.0).
Semantic Scholar’s data is described in: Kinney, R., et al. (2023). The Semantic Scholar Open Data Platform. arXiv:2301.10140.
