Datasets

Ensembl RDF

Ensembl is a collection of automatically annotated genome databases for vertebrates and a number of eukaryotes, integrated with all other relevant biological data available. This RDF dataset is generated by the RDF Portal based on files distributed by Ensembl.

Dataset specifications

Tags
Gene Protein
Provenance Third party
Registration Added by RDF portal
Data provider
  • EMBL-EBI
Creator
  • Shuya IkedaDatabase Center for Life Science
Issued 2026-02-27
Licenses
  • http://ensembl.org/info/about/legal/disclaimer.html
Version 115
Download https://rdfportal.org/download/ensembl
SPARQL Endpoint https://rdfportal.org/ebi/sparql

Dataset statistics

Triples
18523657272
Subjects
3820001372
Properties
28
Objects
5000274878
Classes
95

SPARQL example queries

Example 1

Run on Endpoint
# Endpoint: https://rdfportal.org/ebi/sparql
# Description: Ensembl gene and chromosome
# Parameter: ensg_taxonomy: (example: taxonomy:9606)

PREFIX rdf: <http://www.w3.org/1999/02/22-rdf-syntax-ns#>
PREFIX terms: <http://rdf.ebi.ac.uk/terms/ensembl/>
PREFIX so: <http://purl.obolibrary.org/obo/so#>
PREFIX dcterms: <http://purl.org/dc/terms/>
PREFIX rdfs: <http://www.w3.org/2000/01/rdf-schema#>
PREFIX obo: <http://purl.obolibrary.org/obo/>
PREFIX taxonomy: <http://identifiers.org/taxonomy/>

SELECT ?ensg_id ?ensg_label ?ensg_chromosome ?ensg_taxonomy
FROM <http://rdfportal.org/dataset/ensembl>
WHERE {
    VALUES ?ensg_taxonomy { taxonomy:9606 }
    ?EnsemblGene a terms:EnsemblGene ;
        dcterms:identifier ?ensg_id ;
        rdfs:label ?ensg_label ;
        so:part_of ?ensg_chromosome ;
        obo:RO_0002162 ?ensg_taxonomy .
}
LIMIT 100

Schema diagram

Schema diagram for ensembl
Schema diagram for ensembl