Registry Wormbase Gene
WormBase is an online bioinformatics database of the biology and genome of the model organism Caenorhabditis elegans and other nematodes. It is used by the C. elegans research community both as an information resource and as a mode to publish and distribute their results. This collection references WormBase-accessioned entities.
- Prefix
wormbase- Preferred Prefix
WormBase- Alternative Prefixes
- WB_REF wb wormbase
- Keywords
- anatomy gene genome life science
- Links
- Homepage @wormbase
- Contact
- Missing Contact
- Pattern for Local Unique Identifiers
-
Local identifiers in Wormbase Gene should match this regular expression:
^WB[A-Z][a-z]+\d+$ - Example Local Unique Identifier
- WBGene00000001 Resolve
- Pattern for CURIES
-
Compact URIs (CURIEs) constructed from Wormbase Gene should match this regular expression:
^wormbase:WB[A-Z][a-z]+\d+$ - Example CURIE
- wormbase:WBGene00000001
- Publications
-
- 2020 WormBase: a modern Model Organism Information Resource.
- 2018 WormBase 2017: molting into a new stage.
- 2011 Toward an interactive article: integrating journals and biological databases.
- 2010 The BioGRID Interaction Database: 2011 update.
- 2010 Localizing triplet periodicity in DNA and cDNA sequences.
- 2010 Representing ontogeny through ontology: a developmental biologist's guide to the gene ontology.
- 2009 The Gene Ontology in 2010: extensions and refinements.
- 2009 WormBase: a comprehensive resource for nematode research.
- 2009 Semi-automated curation of protein subcellular localization: a text mining-based approach to Gene Ontology (GO) Cellular Component curation.
- 2009 The Gene Ontology's Reference Genome Project: a unified framework for functional annotation across species.
- 2008 nGASP--the nematode genome annotation assessment project.
- 2001 WormBase: network access to the genome and biology of Caenorhabditis elegans.
Metaregistry Wormbase Gene
The metaregistry provides mappings between the Bioregistry and other registries. There are
12 mappings to external registries for wormbase with
9 unique external prefixes.
| Registry Name | Registry Metaprefix | External Prefix | Curate |
|---|---|---|---|
| BioContext | biocontext |
WormBase
|
|
Biolink
|
biolink |
WBVocab
|
|
EDAM
|
edam |
1805
|
|
FAIRSharing
|
fairsharing |
FAIRsharing.zx1td8
|
|
GO
|
go |
WB_REF
|
|
Identifiers.org
|
miriam |
wb
|
|
N2T
|
n2t |
wb
|
|
NCBI
|
ncbi |
WormBase
|
|
Prefix Commons
|
prefixcommons |
wormbase
|
|
re3data
|
re3data |
r3d100010424
|
|
UniProt
|
uniprot |
DB-0110
|
|
Wikidata
|
wikidata |
P3860
|
Providers
Providers are various services that resolve CURIEs to URLs. The example CURIE
wormbase:WBGene00000001
is used to demonstrate the provides available for
wormbase. Generation of OLS and BioPortal URLs requires additional programmatic
logic beyond string formatting.
| Name | Metaprefix | URI |
|---|---|---|
| Wormbase Gene | wormbase |
https://www.wormbase.org/get?name=WBGene00000001 |
| Bioregistry | bioregistry |
https://bioregistry.io/wormbase:WBGene00000001 |
| Identifiers.org | miriam |
https://identifiers.org/wb:WBGene00000001 |
| Name-to-Thing | n2t |
https://n2t.net/wb:WBGene00000001 |
Extra Providers
Additional providers curated in the Bioregistry are listed here.
| Code | Name | URL |
|---|---|---|
agr |
WormBase through the Alliance of Genome Resources | https://www.alliancegenome.org/gene/WB:WBGene00000001 |
bio2rdf |
Bio2RDF | http://bio2rdf.org/wormbase:WBGene00000001 |
wormbase.c_elegans |
WormBase C. Elegans Gene Portal | http://www.wormbase.org/species/c_elegans/gene/WBGene00000001 |