standards > terminology artifact > DOI:10.25504/FAIRsharing.azqskx

ready Environment Ontology

Abbreviation: ENVO

General Information
The Environment Ontology (EnvO) provides a controlled, structured vocabulary that is designed to support the annotation of any organism or biological sample with environment descriptors. EnvO contains terms ranging from astronomical objects, through planetary scale biomes, to nanomaterials. Further, these terms are interlinked with logical axioms describing their composition, colocalisation, and relationships to environmental and biological processes. Using ENVO terms for an environmental description allows a comprehensive description of environment that is key to machine-assisted integration, archiving and federated searching of environmental data.

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How to cite this record ENVO; Environment Ontology; DOI:; Last edited: July 5, 2019, 5:22 p.m.; Last accessed: Oct 22 2019 10:41 a.m.

This record is maintained by plbuttigieg  ORCID

Record updated: July 2, 2019, 12:54 p.m. by The FAIRsharing Team.

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The environment ontology: contextualising biological and biomedical entities.

Buttigieg PL,Morrison N,Smith B,Mungall CJ,Lewis SE
J Biomed Semantics 2013

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The environment ontology in 2016: bridging domains with increased scope, semantic density, and interoperation.

Buttigieg PL,Pafilis E,Lewis SE,Schildhauer MP,Walls RL,Mungall CJ
J Biomed Semantics 2016

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Emerging semantics to link phenotype and environment.

Thessen AE,Bunker DE,Buttigieg PL,Cooper LD,Dahdul WM,Domisch S,Franz NM,Jaiswal P,Lawrence-Dill CJ,Midford PE,Mungall CJ,Ramirez MJ,Specht CD,Vogt L,Vos RA,Walls RL,White JW,Zhang G,Deans AR,Huala E,Lewis SE,Mabee PM
PeerJ 2015

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EXTRACT: interactive extraction of environment metadata and term suggestion for metagenomic sample annotation.

Pafilis E,Buttigieg PL,Ferrell B,Pereira E,Schnetzer J,Arvanitidis C,Jensen LJ
Database (Oxford) 2016

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ENVO Ontology Display

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Implementing Databases (6)
Genomes OnLine Database
Genomes online database: a listing of completed and ongoing genome projects.

Gramene: A curated, open-source, integrated data resource for comparative functional genomics in plants
Gramene's purpose is to provide added value to plant genomics data sets available within the public sector, which will facilitate researchers' ability to understand the plant genomes and take advantage of genomic sequence known in one species for identifying and understanding corresponding genes, pathways and phenotypes in other plant species.

Manually Curated Database of Rice Proteins
‘Manually Curated Database of Rice Proteins’ (MCDRP) is a unique manually curated database based on published experimental data. Currently, the database has data for over 1800 rice proteins curated from > 4000 different experiments of over 400 research articles. Since every aspect of the experiment such as gene name, plant type, tissue and developmental stage has been digitized, experimental data can be rapidly accessed and integrated.

OBO Foundry
The Open Biological and Biomedical Ontology (OBO) Foundry is a collective of ontology developers that are committed to collaboration and adherence to shared principles. The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants voluntarily adhere to and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Gene Ontology (GO). The OBO Foundry is overseen by an Operations Committee with Editorial, Technical and Outreach working groups.

Metabolomic Repository Bordeaux
MeRy-B is a plant metabolomics platform allowing the storage and visualisation of Nuclear Magnetic Resonance (NMR) metabolic profiles from plants.

MAR databases
The MAR databases is a collection of manually curated marine microbial contextual and sequence databases.

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Grant Number(s)

  • 283359 (European Commission FP7)

  • 287589 (European Commission)

  • HG004838 (National Human Genome Research Institute for ‘An Ontology of Qualities for the Annotation of Biomedical Data’)