Ensembl is a joint project between EMBL - EBI and the Sanger Institute to develop a software system which produces and maintains automatic annotation on selected eukaryotic genomes. This collections also references outgroup organisms.
ensembl
Local identifiers in Ensembl Gene should match this
regular expression:
^((ENS[FPTG]\d{11}(\.\d+)?)|(FB\w{2}\d{7})|(Y[A-Z]{2}\d{3}[a-zA-Z](\-[A-Z])?)|([A-Z_a-z0-9]+(\.)?(t)?(\d+)?([a-z])?))$
Compact URIs (CURIEs) constructed from Ensembl Gene should match
this regular expression:
^ensembl:((ENS[FPTG]\d{11}(\.\d+)?)|(FB\w{2}\d{7})|(Y[A-Z]{2}\d{3}[a-zA-Z](\-[A-Z])?)|([A-Z_a-z0-9]+(\.)?(t)?(\d+)?([a-z])?))$
The metaregistry provides mappings between the Bioregistry and other registries. There are
11 mappings to external registries for ensembl
with
6 unique external prefixes.
Registry Name | Registry Metaprefix | External Prefix | Curate |
---|---|---|---|
BioContext | biocontext |
ENSEMBL
|
|
EDAM Ontology | edam |
2610
|
|
FAIRSharing
|
fairsharing |
FAIRsharing.fx0mw7
|
|
Gene Ontology Registry | go |
ENSEMBL
|
|
Identifiers.org
![]() |
miriam |
ensembl
|
|
Name-to-Thing
![]() |
n2t |
ensembl
|
|
National Center for Biotechnology Information Registry | ncbi |
ENSEMBL
|
|
Prefix Commons | prefixcommons |
ensembl
|
|
Registry of Research Data Repositories | re3data |
r3d100010228
|
|
UniProt Cross-ref database | uniprot |
DB-0023
|
|
Wikidata Property
|
wikidata |
P594
|
Providers are various services that resolve CURIEs to URLs. The example CURIE
ensembl:ENSG00000139618
is used to demonstrate the provides available for
ensembl
. Generation of OLS and BioPortal URLs requires additional programmatic
logic beyond string formatting.
Name | Metaprefix | URI |
---|---|---|
Ensembl Gene | ensembl |
https://www.ensembl.org/id/ENSG00000139618 |
Bioregistry | bioregistry |
https://bioregistry.io/ensembl:ENSG00000139618 |
Identifiers.org | miriam |
https://identifiers.org/ensembl:ENSG00000139618 |
Name-to-Thing | n2t |
https://n2t.net/ensembl:ENSG00000139618 |
None | CURATOR_REVIEW |
http://uswest.ensembl.org/id/ENSG00000139618 |
None | CURATOR_REVIEW |
http://useast.ensembl.org/id/ENSG00000139618 |
None | CURATOR_REVIEW |
http://asia.ensembl.org/id/ENSG00000139618 |
None | bgee |
https://bgee.org/?page=gene&gene_id=ENSG00000139618 |
None | gnomad |
https://gnomad.broadinstitute.org/gene/ENSG00000139618 |
None | opentargets.genetics |
https://genetics.opentargets.org/gene/ENSG00000139618 |
Additional providers curated in the Bioregistry are listed here.
Code | Name | URL |
---|---|---|
CURATOR_REVIEW |
Ensembl US West mirror | http://uswest.ensembl.org/id/ENSG00000139618 |
CURATOR_REVIEW |
Ensembl US East mirror | http://useast.ensembl.org/id/ENSG00000139618 |
CURATOR_REVIEW |
Ensembl Asia mirror | http://asia.ensembl.org/id/ENSG00000139618 |
bgee |
Bgee | https://bgee.org/?page=gene&gene_id=ENSG00000139618 |
gnomad |
Genome Aggregation database | https://gnomad.broadinstitute.org/gene/ENSG00000139618 |
opentargets.genetics |
OpenTargets Genetics | https://genetics.opentargets.org/gene/ENSG00000139618 |