OntoBiotope

General Information

OntoBiotope is an ontology of microorganism habitats. Its modeling principle and its lexicon reflect the biotope classification used by biologists to describe microorganism isolation sites (e.g. GenBank, GOLD, ATCC). OntoBiotope is developed and maintained by the Meta-omics of Microbial Ecosystems (MEM) network in which 30 microbiologists from INRA (French National Institute for Agricultural Research) from all fields of applied microbiology participate. The relevance of OntoBiotope terms is evaluated through the PubMedBiotope semantic search engine. It identifies and categorizes microbial biotopes in all PubMed abstracts by applying the ToMap method (Text to Ontology Mapping) to the OntoBiotope ontology. It also indexes 3,35 millions relations between taxa and their habitats.

Homepage http://dx.doi.org/10.15454/1.4382640528105164E12

Countries that developed this resource France

Created in 2012

Taxonomic range

Bacteria

Knowledge Domains

Subjects

User-defined Tags

Natural Resources, Earth and Environment

How to cite this record FAIRsharing.org: OntoBiotope; OntoBiotope; DOI: https://doi.org/10.25504/FAIRsharing.e45arr; Last edited: April 15, 2021, 3:43 p.m.; Last accessed: Jun 19 2021 4:56 a.m.

This record is maintained by VO@INRAE (lovinra)

Record added: Jan. 18, 2018, 3:41 p.m.
Record updated: April 15, 2021, 2:06 p.m. by The FAIRsharing Team.

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Edits to 'https://fairsharing.org/FAIRsharing.e45arr' by 'The FAIRsharing Team' at 14:07, 15 Apr 2021 (approved):

	'organizations' has been modified:
		Before:
			Mtaprogramme Mta-omiques des cosystmes microbiens (MEM), France|http://maiage.jouy.inra.fr/?q=fr/bibliome/|Maintains
			Micalis Institute, Paris, France|http://www.micalis.fr/micalis_eng/Micalis-Institute|Maintains
			Institut national de la recherche agronomique (INRA), Paris, France|http://www.inra.fr/|Maintains
		After:
			Mtaprogramme Mta-omiques des cosystmes microbiens (MEM), France|http://maiage.jouy.inra.fr/?q=fr/bibliome/|Maintains
			Micalis Institute, Paris, France|http://www.micalis.fr/micalis_eng/Micalis-Institute|Maintains
			National Research Institute for Agriculture, Food and Environment (INRAE), France|http://www.inrae.fr/|Maintains
		Added:
			National Research Institute for Agriculture, Food and Environment (INRAE), France|http://www.inrae.fr/|Maintains
		Removed:
			Institut national de la recherche agronomique (INRA), Paris, France|http://www.inra.fr/|Maintains

Edits to 'https://fairsharing.org/FAIRsharing.e45arr' by 'The FAIRsharing Team' at 20:22, 08 Jan 2020 (approved):

	'supportLinks' has been modified:
		Before:
			online documentation|http://agroportal.lirmm.fr/ontologies/ONTOBIOTOPE
			online documentation|http://bibliome.jouy.inra.fr/MEM-OntoBiotope/about.html
		After:
			online documentation|http://bibliome.jouy.inra.fr/MEM-OntoBiotope/about.html
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		Removed:
			online documentation|http://agroportal.lirmm.fr/ontologies/ONTOBIOTOPE

	'miriam_id' has been modified:
		Before: None
		After: 

	'dataProcesses' has been modified:
		Before:
			Download OBO Format
		After:
			Download OBO Format
			AgroPortal: Browse / Download
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			AgroPortal: Browse / Download
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Edits to 'https://fairsharing.org/FAIRsharing.e45arr' by 'lovinra' at 15:51, 23 May 2018 (approved):

	'homepage' has been modified:
		Before: http://bibliome.jouy.inra.fr/MEM-OntoBiotope/index.html
		After: http://dx.doi.org/10.15454/1.4382640528105164E12

Edits to 'https://fairsharing.org/FAIRsharing.e45arr' by 'The FAIRsharing Team' at 10:29, 23 Jan 2018 (approved):

	'homepage' has been modified:
		Before: http://agroportal.lirmm.fr/ontologies/ONTOBIOTOPE
		After: http://bibliome.jouy.inra.fr/MEM-OntoBiotope/index.html

In Collections

RDA Covid-19 WG Resources

Support

General

online documentation

About OntoBiotope

Additional Information

Contact

Claire Nédellec 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 Access

Download OBO Format	http://dx.doi.org/10.15454/1.4382640528105164E12
AgroPortal: Browse / Download	http://agroportal.lirmm.fr/ontologies/ONTOBIOTOPE

Publications

No publications available

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

OBO Format Syntax and Semantics

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases (0)

No Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by VO@INRAE (lovinra)

Maintains

Mtaprogramme Mta-omiques des cosystmes microbiens (MEM), France
Micalis Institute, Paris, France (Research institute)
National Research Institute for Agriculture, Food and Environment (INRAE), France (Research institute)

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