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 wormbase WB_REF wb

Keywords

anatomy blast c elegans catalog database faseb list gene gene expression gene function gene mapping gene prediction geneotype genome genomic sequence genomics life science ortholog orthology assignment phenotype roundworm transposon family wormmart

License

CC0-1.0

Links

Homepage

Contact

Todd W Harris   0000-0003-3406-163X   tharris

Pattern for Local Unique Identifiers

Local identifiers in WormBase should match this regular expression:
^(CE[0-9]{5}|WB[A-Z][a-z]+\d+)$

Example Local Unique Identifier

WBGene00000001   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from WormBase should match this regular expression:
^WormBase:(CE[0-9]{5}|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
• https://bioregistry.io/pubmed:24194605
• 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
• https://bioregistry.io/pubmed:17991679
• https://bioregistry.io/pubmed:15608221
• 2001 WormBase: network access to the genome and biology of Caenorhabditis elegans

Contributors

• contributor Chris Mungall   0000-0002-6601-2165   cmungall

A summary of the relations in the Bioregistry schema can be found here.

In Collection

Global Biodata Coalition - Global Core Biodata Resources

The metaregistry provides mappings between the Bioregistry and other registries. There are 15 mappings to external registries for this resource with 12 unique external prefixes.

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier WBGene00000001 is used to demonstrate the providers available for WormBase. A guide for curating additional providers can be found here.

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.