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IBP Crop Research Ontology

Abbreviation: CO_715

General Information

The IBP Crop Research Ontology describes experimental design, environmental conditions and methods associated with the crop study/experiment/trait and their evaluation. It has been adapted from the database management system (DMS) and germplasm management system (GMS) of the International Crop Information System (ICIS) model. This ontology is part of the Crop Ontology (CO) project. The Crop Ontology has been created to compile validated concepts along with their inter-relationships on anatomy, structure and phenotype of Crops, on trait measurement and methods as well as on Germplasm with the multi-crop passport terms.

Homepage http://www.cropontology.org/ontology/CO_715/Crop%20Research

Countries that developed this resource Worldwide

Created in 2010

Taxonomic range

Plantae

Knowledge Domains

Subjects

User-defined Tags

Data standards

Method descriptions

Species-environment interaction

How to cite this record FAIRsharing.org: CO_715; IBP Crop Research Ontology; DOI: https://doi.org/10.25504/FAIRsharing.rbp5wp; Last edited: March 12, 2020, 4:26 p.m.; Last accessed: Sep 23 2020 4:44 a.m.

Record added: Jan. 18, 2018, 3:41 p.m.
Record updated: Feb. 27, 2020, 8:17 a.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 08:17, 27 Feb 2020 (approved):

	'organizations' has been modified:
		Before:
			Biodiversity International, Montpellier, France|https://www.bioversityinternational.org/|Maintains
			International Maize and Wheat Improvement Center (CIMMYT)|http://www.cimmyt.org|Maintains
		After:
			Biodiversity International, Montpellier, France|https://www.bioversityinternational.org/|Maintains
			International Maize and Wheat Improvement Center (CIMMYT)|http://www.cimmyt.org|Maintains
			CGIAR, Montpellier, France|http://www.cgiar.org/|Maintains
		Added:
			CGIAR, Montpellier, France|http://www.cgiar.org/|Maintains
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 08:13, 27 Feb 2020 (approved):

	'onto_disciplines' has been modified:
		Before:
			Agriculture
			Life Science
		After:
			Agriculture
			Life Science
			Ontology and Terminology
		Added:
			Ontology and Terminology
		Removed:

	'contactORCID' has been modified:
		Before: 
		After: 0000-0002-9399-8003

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 11:50, 29 Jan 2020 (approved):

	'supportLinks' has been modified:
		Before:
			email|helpdesk@cropontology-curationtool.org
			forum|http://www.cropontology.org/feedback
			help|http://www.cropontology.org/help
			online documentation|http://agroportal.lirmm.fr/ontologies/CO_715
		After:
			email|helpdesk@cropontology-curationtool.org
			forum|http://www.cropontology.org/feedback
			help|http://www.cropontology.org/help
		Added:
		Removed:
			online documentation|http://agroportal.lirmm.fr/ontologies/CO_715

	'dataProcesses' has been modified:
		Before:
			Download RDF
			Download CSV
			Annotation tool
			Add new terms
			Browse
			Login
		After:
			Download RDF
			Download CSV
			Annotation tool
			Add new terms
			Browse
			Login
			AgroPortal: Browse / Download
		Added:
			AgroPortal: Browse / Download
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 16:45, 04 Sep 2018 (approved):

	'domains' has been modified:
		Before:
			Agriculture
			Life Science
			Method descriptions
			Species-environment interaction
			Study design
		After:
			Agriculture
			Data standards
			Life Science
			Method descriptions
			Species-environment interaction
			Study design
		Added:
			Data standards
		Removed:

	'supportLinks' has been modified:
		Before:
			email|helpdesk@cropontology-curationtool.org
			forum|http://www.cropontology.org/feedback
			online documentation|http://agroportal.lirmm.fr/ontologies/CO_715
		After:
			email|helpdesk@cropontology-curationtool.org
			forum|http://www.cropontology.org/feedback
			help|http://www.cropontology.org/help
			online documentation|http://agroportal.lirmm.fr/ontologies/CO_715
		Added:
			help|http://www.cropontology.org/help
		Removed:

	'dataProcesses' has been modified:
		Before:
			Download RDF
			Download CSV
		After:
			Download RDF
			Download CSV
			Annotation tool
			Add new terms
			Browse
			Login
		Added:
			Annotation tool
			Add new terms
			Browse
			Login
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 12:14, 12 Apr 2018 (approved):

'description' has been modified:
Before: Describes experimental design, environmental conditions and methods associated with the crop study/experiment/trait and their evaluation. The IBP Crop Research Ontology is part of the Crop Ontology (CO) project. The Crop Ontology has been created to compile validated concepts along with their inter-relationships on anatomy, structure and phenotype of Crops, on trait measurement and methods as well as on Germplasm with the multi-crop passport terms. The concepts of the CO are being used to curate agronomic databases and describe the data. The use of ontology terms to describe agronomic phenotypes and the accurate mapping of these descriptions into databases is important in comparative phenotypic and genotypic studies across species and gene-discovery experiments as it provides harmonized description of the data and therefore facilitates the retrieval of information.
After: The IBP Crop Research Ontology describes experimental design, environmental conditions and methods associated with the crop study/experiment/trait and their evaluation. It has been adapted from the database management system (DMS) and germplasm management system (GMS) of the International Crop Information System (ICIS) model. This ontology is part of the Crop Ontology (CO) project. The Crop Ontology has been created to compile validated concepts along with their inter-relationships on anatomy, structure and phenotype of Crops, on trait measurement and methods as well as on Germplasm with the multi-crop passport terms.

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 19:24, 25 Jan 2018 (approved):

	'homepage' has been modified:
		Before: http://www.cropontology.org/ontology/CO_715
		After: http://www.cropontology.org/ontology/CO_715/Crop%20Research

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 20:02, 24 Jan 2018 (approved):

	'accessPoints' has been modified:
		Before:
		After:
			REST|http://www.cropontology.org/api|Crop Ontology API
		Added:
			REST|http://www.cropontology.org/api|Crop Ontology API
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 19:37, 23 Jan 2018 (approved):

	'description' has been modified:
		Before: Describes experimental design, environmental conditions and methods associated with the crop study/experiment/trait and their evaluation.
		After: Describes experimental design, environmental conditions and methods associated with the crop study/experiment/trait and their evaluation. The IBP Crop Research Ontology is part of the Crop Ontology (CO) project. The Crop Ontology has been created to compile validated concepts along with their inter-relationships on anatomy, structure and phenotype of Crops, on trait measurement and methods as well as on Germplasm with the multi-crop passport terms. The concepts of the CO are being used to curate agronomic databases and describe the data. The use of ontology terms to describe agronomic phenotypes and the accurate mapping of these descriptions into databases is important in comparative phenotypic and genotypic studies across species and gene-discovery experiments as it provides harmonized description of the data and therefore facilitates the retrieval of information.

Edits to 'https://fairsharing.org/FAIRsharing.rbp5wp' by 'The FAIRsharing Team' at 19:34, 23 Jan 2018 (approved):

	'homepage' has been modified:
		Before: http://www.cropontology.org/rdf/
		After: http://www.cropontology.org/ontology/CO_715

Support

General

support email	Crop Ontology Helpdesk
forum	Crop Ontology Forum
help	Video Tutorials

Additional Information

Contact

Rosemary Shrestha ORCID

Tools

No tools defined

Schemas

No XSD schemas defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Creative Commons Attribution 4.0 International (CC BY 4.0)

Data Curation

Annotation tool	http://www.cropontology.org/annotation-tool
Add new terms	http://www.cropontology.org/add-ontology

Data Access

Download RDF	http://www.cropontology.org/ontology/CO_715/Crop%20Research/nt
Download CSV	http://www.cropontology.org/report?ontology_id=CO_715
Browse	http://www.cropontology.org/ontology/CO_715/Crop%20Research
Login	http://www.cropontology.org/ontology/CO_715/Crop%20Research
AgroPortal: Browse / Download	http://agroportal.lirmm.fr/ontologies/CO_715

REST Web Services

Crop Ontology API

http://www.cropontology.org/api

Publications

No publications available

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

Crop Ontology

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases (3)

Planteome
A resource providing data on bioentities and their associated ontology terms for Plant Biology. The database provides access to ontology-based annotations of genes, phenotypes and germplasms from about 90 plant species. A number of internal and external ontologies are used to annotate the biological data available from this resource.

AgroPortal
The AgroPortal project reuses the biomedical domain’s semantic tools and insights to serve agronomy, but also food, plant, agriculture 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). The AgroPortal content is automatically retrieved by FAIRsharing.org (https://fairsharing.org/) and the Agrisemantics Map of Data Standards (http://vest.agrisemantics.org/).

Brassica Information Portal
The Brassica Information Portal is a web repository for population and trait scoring information related to the Brassica breeding community. It provides information about quantitative trait loci and links curated Brassica phenotype experimental data with genotype information stored in external data sources. Advanced data submission capabilities and APIs enable users to store and publish their own study results in BIP. The repository can be easily browsed thanks to a set of user-friendly query interfaces.

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

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Maintains

Biodiversity International, Montpellier, France (Research institute)
International Maize and Wheat Improvement Center (CIMMYT) (Consortium)
CGIAR, Montpellier, France (Government body)

IBP Crop Research Ontology

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