Acronym | ONTOBIOTOPE |
Visibility | Public |
Description | OntoBiotope is an ontology of microorganism habitats, phenotypes and use. Its modeling principle and its lexicon reflect the biotope classification used by biologists to describe microorganism isolation sites, phenotypes and uses. OntoBiotope is developed and maintained by the Bibliome group of MaIAGE lab and microbiologists from INRAE (French National Research Institute for Agriculture, Food and Environment) from all fields of applied microbiology. OntoBiotope classes are used in the Bacteria Biotope reference dataset of BioNLP shared task to annotate the habitats and phenotype entities. It is also used to index the data of the Omnicrobe DataBase |
Status | Production |
Format | OBO |
Contact | Claire Nédellec, claire.nedellec@inrae.fr |
Categories | Biodiversity and Ecology, Natural Resources, Earth and Environment |
Groups | GDR SemanDiv, National research institute for agriculture, food and the environment |
copyright Holder | INRA (http://www.inra.fr/) |
deprecated | false |
designed For Ontology Task | http://omv.ontoware.org/2005/05/ontology#AnnotationTask |
endorsed By | INRAE (http://www.inrae.fr/) |
endpoint | ![]() |
example Identifier | http://purl.obolibrary.org/obo/OBT_001929 |
funded By | INRA (http://www.inrae.fr/) |
Creators | Claire Nédellec |
has Domain | http://aims.fao.org/aos/agrovoc/c_925, http://aims.fao.org/aos/agrovoc/c_5776, http://aims.fao.org/aos/agrovoc/c_3456, http://aims.fao.org/aos/agrovoc/c_4807 |
has Formality Level | http://w3id.org/nkos/nkostype#ontology |
has License | ![]() |
Ontology Syntax | http://purl.obolibrary.org/obo/oboformat/spec.html |
has Prior Version | http://data.agroportal.lirmm.fr/ontologies/ONTOBIOTOPE/submissions/7 |
identifier | http://doi.org/10.15454/1.4382640528105164E12 |
is Of Type | http://omv.ontoware.org/2005/05/ontology#DomainOntology |
keywords | information extraction, corpus annotation, ontology building, biology, genetics, ecology, epidemiology, phenotypes, habitats, microorganisms |
known Usage | Used by the BioNLP Shared task (Bacteria Biotope task) in 2011, 2013, 2016 and 2019 for the annotation of textual data. OntoBiotope is the ontology used in the Omnicrobe (previously called Florilege) to index habitats, phenotypes and uses of large collections of data about microbes. |
Metadata vocabulary used | local:local |
modification Date | 2021-10-22T00:00:00+00:00 |
Natural Language | |
notes | OntoBiotope is developed and maintained by MaIAGE lab (INRAE) with the contribution of INRAE microbiologists. |
preferred Namespace Prefix | obt |
publisher | INRA (http://www.inra.fr/) |
Release date | 2019-03-01T00:00:00+00:00 |
URI Lookup Endpoint | http://data.agroportal.lirmm.fr/search?ontologies=ONTOBIOTOPE&require_exact_match=true&q= |
use Imports | local:local |
used Ontology Engineering Tool | http://oboedit.org/ |
version | Oct 2021 |
Version | Downloads | |||
---|---|---|---|---|
Oct 2021 (Parsed, Indexed, Metrics, Annotator) | 03/01/2019 | 10/22/2021 | 12/01/2021 | OBO | CSV | RDF/XML | DIFF |
March 2021 (Archived) | 03/01/2019 | 03/31/2021 | 04/16/2021 | OBO | DIFF |
Fev 2021 (Archived) | 03/01/2019 | 03/10/2021 | OBO | DIFF | |
BioNLP-OST-2019 (Archived) | 03/19/2019 | 09/25/2019 | OBO | DIFF | |
1.2 (Archived) | 07/24/2018 | 07/24/2018 | OBO | DIFF | |
1.2 (Archived) | 07/23/2018 | 07/23/2018 | OBO | DIFF | |
1.2 (Archived) | 06/29/2015 | 06/12/2016 | OBO | DIFF | |
BioNLP-ST 2013 version (Archived) | 06/29/2015 | 06/29/2015 | OBO | |
more... |
No views of ONTOBIOTOPE available
Classes | 4,219 |
Individuals | 0 |
Properties | 1 |
Maximum depth | 13 |
Maximum number of children | 121 |
Average number of children | 3 |
Classes with a single child | 470 |
Classes with more than 25 children | 9 |
Classes with no definition | 4,213 |