Ontology
UBERON
Uber-anatomy Ontology
A cross-species anatomy ontology covering animals, with extensive coverage of nervous system structures. It is the common anatomy backbone for many cell, expression and phenotype resources.
Source & access
- homepage obophenotype.github.io HTTP 200
- repository github.com HTTP 200
- download purl.obolibrary.org HTTP 200
Portals & registries
| Source | ID | Version | Classes | Properties | Individuals | Loaded |
|---|---|---|---|---|---|---|
| OLS (EMBL-EBI) | uberon | 2026-10-01 | 26,735 | 556 | 67 | 27 Oct 2026 |
| TIB Terminology Service | uberon | 2025-08-15 | 26,913 | 558 | 67 | 15 Aug 2025 |
| OBO Dashboard | uberon | 2026-06-19 | 17,071 | — | — | 18 Jul 2026 |
Ontology IRI http://purl.obolibrary.org/obo/uberon.owl
Version IRI http://purl.obolibrary.org/obo/uberon/releases/2026-10-01/uberon.owl
Languages en
Imports from (16)
BFO BSPO CARO ChEBI CL COB ENVO GO IAO NBO NCBITaxon OMO PATO PR RO SO
Reused by (122)
AISM AMPHX APOLLO_SV CIDO CL CLO CLYH COB CTENO DIDEO DOID ECAO ECOCORE ENVO FAO FOODON FOVT GALLONT GECKO GENEPIO GENO GSSO HPO HSO IDO LEPAO MAXO MCO MONDO MP NBO NCRO OAE OBA OBI OBIB OHD OHMI ONS OOSTT OPL ORNASEQ PATO PCL PLANA PO PORO PPO RBO RO SLSO TXPO UPHENO WBPhenotype AddictO ADO AEO AGRO ARO BAO BCGO BCIO BCO BMONT CCF CEPH CHMO COLAO COVOC CPONT DRON ECO ECTO EFO EMRO ENM EPIO EUPATH EXMO FBbi FBcv FLOPO FOBI GO HCAO HRA ICO IDOCOVID19 IDOMAL MFMO MICRO NGBO OBCS OHPI OMIABIS OMIT OMRSE ONE ONTONEO OPMI OVAE PAIN PBPKO PDRO PECO PHIPO PLANP PREFER PRIDE PSDO PSO REHABO STATO TO VALUESETS VBO VO WBbt WBls XPO CHIRO ZP
- Logical consistency
- consistent · 0 unsatisfiable
- OWL 2 DL
- yes
- ROBOT report
- 0 errors · 4,677 warnings · 14 info
- OBO principles
- FP01FP02FP03FP04FP05FP06FP07FP08FP09FP11FP12FP16FP20
- Axioms
- 224,897 · 5.95% entities reused
Also registered as
aberowl: UBERON biodivportal: UBERON bioportal: UBERON fairsharing: FAIRsharing.4c0b6b obofoundry: uberon ols: uberon ontobee: UBERON tib.ts: uberon wikidata.entity: Q7876491
Automated evaluation
- Persistent identifier (F1)purl.obolibrary.org+4
- Indexed in services (F4)6: OLS, TIB, BioPortal, OBO Foundry, Bioregistry, FAIRsharing+5
- Citable reference (F2)doi:10.1186/gb-2012-13-1-r5+3
- Homepage reachableHTTP 200+3
- Artefact retrievable over HTTP(S) (A1)download HTTP 200+6
- Metadata persists in a registry (A2)OBO Foundry, Bioregistry+3
- Formal machine-readable format (I1)OWL, OBO+5
- Semantic-web IRIs (I2)OWL, OBO+3
- References other vocabularies (I3)imports 16: bfo, bspo, caro, chebi, cl, cob, envo, go…+4
- Clear license (R1.1)CC BY 3.0+5
- Release provenance (R1.2)2026-10-01 (version IRI in the artefact)+4
- Community standards (R1.3)OBO principles: 10/13 checks pass+2
- Logical consistencyconsistent, 0 unsatisfiable classes (OBO Dashboard)+10
- OWL 2 DL profilein OWL 2 DL+2
- Upper-ontology alignmentimports BFO, COB+3
- Standard relations (RO)imports RO+1
- ROBOT report: no errors0 errors+2
- ROBOT report: warning density4677 warnings / 17071 classes = 0.270
- Pitfall scan: no critical pitfallsno pitfall scan yet; ROBOT report has 0 errors+1
- Recency2026-10-27 → 0.0 months (≤ 3 months)+10
- Release cadence (12 months)4 releases (GitHub releases)+5
- Documented adopting projects14 projects+7
- Reused by other ontologies122: aism, amphx, apollo_sv, cido, cl, clo…+4
- Community signalmax(stars 167 → 4, citations 722 → 4)+4
- Time since last activity0.0 years → 4 × max(0, 0.0 − 1)0
- Inactive statusnot archived, legacy or inactive0
- Consistencyconsistent, no unsatisfiable classes0
FAIR subtotal 47/48 · earned 96/100 = 96/100 → grade A
Community adoption 14
- CELLxGENE
Tissue annotation of single-cell datasets
Curated by SchemaScope - HuBMAP
Anatomical structures in the Human Reference Atlas
Curated by SchemaScope - BICAN
Brain region annotation
Curated by SchemaScope - BIDS
Example ontology for BodyPartDetailsOntology (microscopy)
Curated by SchemaScope - bgee.org
Bgee is a database to retrieve and compare gene expression patterns between animal species. Bgee in using Uberon to annotate the site of expression, and Bgee curators one the major contributors to the ontology.
Source: OBO Foundry registry - encodeproject.org
The National Human Genome Research Institute (NHGRI) launched a public research consortium named ENCODE, the Encyclopedia Of DNA Elements, in September 2003, to carry out a project to identify all functional elements in the human genome …
Source: OBO Foundry registry - fantom5-collaboration.gsc.riken.jp
FANTOM5 is using Uberon and CL to annotate samples allowing for transcriptome analyses with cell-type and tissue-level specificity.
Source: OBO Foundry registry - monarchinitiative.org
Querying expression and phenotype data
Source: OBO Foundry registry - geneontology.org
GO Database is used for querying for functional annotations relevant to a tissue
Source: OBO Foundry registry - phenoscape.org
The Phenoscape project is both a major driver of and contributor to Uberon, contibuting thousands of terms. The teleost (bony fishes) component of Uberon was derived from the Teleost Anatomy Ontology, developed by the Phenoscape group. M…
Source: OBO Foundry registry - neuinfo.org
Searchable collection of neuroscience data and ontology for neuroscience
Source: OBO Foundry registry - scicrunch.org
cooperative data platform to be used by diverse communities in making data more FAIR.
Source: OBO Foundry registry - single-cell.clst.riken.jp
SCPortalen
Source: OBO Foundry registry - ebi.ac.uk
ChEMBL uses Uberon to describe organ/tissue information in assays
Source: OBO Foundry registry
Know a project that uses UBERON? Suggest it.
History & changes 2 runs
Metrics across runs
| 27 Oct 2026 rubric v3.5 | 26 Oct 2026 rubric v3.4 | |
|---|---|---|
| Score | 96 | 96 |
| Findable | 12 | 12 |
| Accessible | 12 | 12 |
| Interoperable | 12 | 12 |
| Reusable | 11 | 11 |
| Quality | 19 | 19 |
| Maintenance | 15 | 15 |
| Adoption | 15 | 15 |
| Penalty | 0 | 0 |
| Logically consistent | yes | yes |
| Unsatisfiable classes | 0 | 0 |
| In OWL 2 DL | yes | yes |
| ROBOT errors | 0 | 0 |
| ROBOT warnings | 4,677 | 4,677 |
| Imported vocabularies | 16 | 16 |
| Reused by | 122 | 122 |
Newest run first. Highlighted cells changed since the run before; hover to see the earlier value. A rubric change alone can move points.
- Documented adopters: 13 → 14
Provenance
Every fact on this page was fetched automatically. Each row shows where it came from and when. If a source fails, the last good value is kept and marked “carried forward”.
| Fact | Source | Retrieved |
|---|---|---|
| Homepage link check (HTTP 200) | obophenotype.github.io | 27 Oct 2026, 21:58 UTC |
| Repository link check (HTTP 200) | github.com | 27 Oct 2026, 21:58 UTC |
| Download link check (HTTP 200) | purl.obolibrary.org | 27 Oct 2026, 21:58 UTC |
| Artefact header (version IRI) | release-assets.githubusercontent.com | 27 Oct 2026, 21:58 UTC |
| Git refs (commit 1e64ea4, latest tag v2026-10-01) | github.com | 27 Oct 2026, 21:58 UTC |
| GitHub repository statistics | api.github.com | 27 Oct 2026, 21:58 UTC |
| OLS classes, imports, version & release | ebi.ac.uk | 27 Oct 2026, 21:58 UTC |
| OBO Foundry status, license & usages | obofoundry.org | 27 Oct 2026, 21:58 UTC |
| TIB Terminology Service metrics | service.tib.eu | 27 Oct 2026, 21:58 UTC |
| Bioregistry mappings, dependencies & reuse | bioregistry.io | 27 Oct 2026, 21:58 UTC |
| OBO Dashboard (checked 18 Jul 2026) | dashboard.obofoundry.org | 27 Oct 2026, 21:58 UTC |
| Crossref citations (doi:10.1186/gb-2012-13-1-r5) | api.crossref.org | 27 Oct 2026, 21:58 UTC |
Run 2026-10-27T21-58-30Z · evaluator v2.0.0 · rubric v3.5 · entry.json · run snapshot
How to cite
- Uberon, an integrative multi-species anatomy ontology (2012) · doi:10.1186/gb-2012-13-1-r5 · 722 citations