standards > terminology artifact > DOI:10.25504/FAIRsharing.4c0b6b

ready UBER anatomy ONtology

Abbreviation: UBERON

General Information
Uberon is an integrated cross-species anatomy ontology covering animals and bridging multiple species-specific ontologies. It represents a variety of entities classified according to traditional anatomical criteria such as structure, function and developmental lineage. The ontology includes comprehensive relationships to taxon-specific anatomical ontologies, allowing integration of functional, phenotype and expression data.

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Developed in European Union , United States

Created in 2012

Taxonomic range

How to cite this record UBERON; UBER anatomy ONtology; DOI:; Last edited: March 13, 2019, 11:04 a.m.; Last accessed: Mar 21 2019 6:06 a.m.

Publication for citation  Uberon, an integrative multi-species anatomy ontology. Mungall CJ,Torniai C,Gkoutos GV,Lewis SE,Haendel MA; Genome Biol ; 2012; 10.1186/gb-2012-13-1-r5;

This record is maintained by mhaendel  ORCID

Record updated: March 13, 2019, 11:04 a.m. by The FAIRsharing Team.

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Uberon, an integrative multi-species anatomy ontology.

Mungall CJ,Torniai C,Gkoutos GV,Lewis SE,Haendel MA
Genome Biol 2012

View Paper (PubMed) View Publication

Unification of multi-species vertebrate anatomy ontologies for comparative biology in Uberon.

Haendel MA,Balhoff JP,Bastian FB,Blackburn DC,Blake JA,Bradford Y,Comte A,Dahdul WM,Dececchi TA,Druzinsky RE,Hayamizu TF,Ibrahim N,Lewis SE,Mabee PM,Niknejad A,Robinson-Rechavi M,Sereno PC,Mungall CJ
J Biomed Semantics 2014

View Paper (PubMed) View Publication

UBERON Ontology Display

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Implementing Databases (4)
Bgee DataBase for Gene Expression Evolution
Bgee is a database to retrieve and compare gene expression patterns in multiple animal species, produced from multiple data types (RNA-Seq, Affymetrix, in situ hybridization, and EST data). Bgee is based exclusively on curated "normal", healthy, expression data (e.g., no gene knock-out, no treatment, no disease), to provide a comparable reference of normal gene expression. Bgee produces calls of presence/absence of expression, and of differential over-/under-expression, integrated along with information of gene orthology, and of homology between organs. This allows comparisons of expression patterns between species.

ENCODE Project
The ENCODE (Encyclopedia of DNA Elements) Consortium is an international collaboration of research groups funded by the National Human Genome Research Institute (NHGRI). The goal of ENCODE is to build a comprehensive parts list of functional elements in the human genome, including elements that act at the protein and RNA levels, and regulatory elements that control cells and circumstances in which a gene is active. ENCODE results from 2007 and later are available from this project. This covers data generated during the two production phases 2007-2012 and 2013-present.

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.

BovineMine integrates the bovine reference genome assembly with many other biological data sets, including genomes of other species. The sheep and goat genomes allow comparison across ruminants. Model organism data (human, mouse, rat) allow well-curated data sets to be applied to ruminants using orthology.

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Grant Number(s)

  • DEB-0956049 (National Science Foundation (NSF), USA)

  • P41HG002273 (National Institutes of Health (NIH), Bethesda, MD, USA)

  • R01HG004838 (National Institutes of Health (NIH), Bethesda, MD, USA)

  • R24OD011883 (National Institutes of Health (NIH), Bethesda, MD, USA)