{"prefix":"wormbase","name":"WormBase","description":"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.","pattern":"^(CE[0-9]{5}|WB[A-Z][a-z]+\\d+)$","uri_format":"https://www.wormbase.org/get?name=$1","providers":[{"code":"agr","name":"WormBase through the Alliance of Genome Resources","description":"WormBase through the Alliance of Genome Resources","homepage":"https://www.alliancegenome.org","uri_format":"https://www.alliancegenome.org/gene/WB:$1"},{"code":"bio2rdf","name":"Bio2RDF","description":"Bio2RDF is an open-source project that uses Semantic Web technologies to build and provide the largest network of Linked Data for the Life Sciences. Bio2RDF defines a set of simple conventions to create RDF(S) compatible Linked Data from a diverse set of heterogeneously formatted sources obtained from multiple data providers.","homepage":"https://bio2rdf.org","uri_format":"http://bio2rdf.org/wormbase:$1"},{"code":"wormbase.c_elegans","name":"WormBase C. Elegans Gene Portal","description":"Pages describing C. Elegans genes.","homepage":"http://www.wormbase.org","uri_format":"http://www.wormbase.org/species/c_elegans/gene/$1"}],"homepage":"https://www.wormbase.org/","contact":{"name":"Todd W Harris","orcid":"0000-0003-3406-163X","email":"todd@wormbase.org","github":"tharris"},"owners":[{"ror":"02catss52","name":"European Bioinformatics Institute"}],"example":"WBGene00000001","example_extras":[],"license":"CC0-1.0","deprecated":false,"mappings":{"biocontext":"WormBase","biolink":"WBVocab","edam":"1805","fairsharing":"FAIRsharing.zx1td8","go":"WB_REF","integbio":"nbdc00740","miriam":"wb","n2t":"wb","ncbi":"WormBase","pathguide":"426","prefixcommons":"wormbase","re3data":"r3d100010424","rrid":"WB-STRAIN:WBStrain","uniprot":"DB-0110","wikidata":"P3860"},"synonyms":["WB","WB_REF","wb","wormbase"],"keywords":["anatomy","bibliography/documents","binding site","bioresource","blast","c elegans","catalog","cdna/est","clone library","cross linking","cytogenetic map","database","disease","expression","expression data","faseb list","gene","gene expression","gene function","gene mapping","gene name","gene prediction","geneotype","genetic interaction (sensu unexpected)","genetic polymorphism","genetic variation","genome","genome map","genome/gene","genomic sequence","genomics","go-term enrichment data","health/disease","image/movie","immunoglobulin complex, circulating","life cycle","life science","mass spectrum","model organisms","molecular interaction","ontology/terminology/nomenclature","organism","organism-specific databases","ortholog","orthologous","orthology assignment","phenotype","promoter","protein","protein domain","protein expression","protein interactions","pseudogene","reagent","regulation of gene expression","regulatory ncrna-mediated post-transcriptional gene silencing","repository","roundworm","sequence","sequence feature","small molecule","snp","strain","trans spliced","transposon family","utr","wormmart"],"publications":[{"pubmed":"38573366","doi":"10.1093/genetics/iyae050","title":"WormBase 2024: status and transitioning to Alliance infrastructure","year":2024},{"pubmed":"31642470","doi":"10.1093/nar/gkz920","pmc":"PMC7145598","title":"WormBase: a modern Model Organism Information Resource","year":2020},{"pubmed":"29069413","doi":"10.1093/nar/gkx998","pmc":"PMC5753391","title":"WormBase 2017: molting into a new stage","year":2018},{"pubmed":"27899279"},{"pubmed":"26578572"},{"pubmed":"24194605"},{"pubmed":"24058818"},{"pubmed":"23160413"},{"pubmed":"22067452"},{"pubmed":"21595960","doi":"10.1186/1471-2105-12-175","pmc":"PMC3213741","title":"Toward an interactive article: integrating journals and biological databases","year":2011},{"pubmed":"21543339"},{"pubmed":"21071413","doi":"10.1093/nar/gkq1116","pmc":"PMC3013707","title":"The BioGRID Interaction Database: 2011 update","year":2010},{"pubmed":"21059240","doi":"10.1186/1471-2105-11-550","pmc":"PMC2992068","title":"Localizing triplet periodicity in DNA and cDNA sequences","year":2010},{"pubmed":"19921742","doi":"10.1002/mrd.21130","pmc":"PMC2830379","title":"Representing ontogeny through ontology: a developmental biologist's guide to the gene ontology","year":2010},{"pubmed":"19920128","doi":"10.1093/nar/gkp1018","pmc":"PMC2808930","title":"The Gene Ontology in 2010: extensions and refinements","year":2009},{"pubmed":"19910365","doi":"10.1093/nar/gkp952","pmc":"PMC2808986","title":"WormBase: a comprehensive resource for nematode research","year":2009},{"pubmed":"19622167","doi":"10.1186/1471-2105-10-228","pmc":"PMC2719631","title":"Semi-automated curation of protein subcellular localization: a text mining-based approach to Gene Ontology (GO) Cellular Component curation","year":2009},{"pubmed":"19578431","doi":"10.1371/journal.pcbi.1000431","pmc":"PMC2699109","title":"The Gene Ontology's Reference Genome Project: a unified framework for functional annotation across species","year":2009},{"pubmed":"19099578","doi":"10.1186/1471-2105-9-549","pmc":"PMC2651883","title":"nGASP--the nematode genome annotation assessment project","year":2008},{"pubmed":"17991679"},{"pubmed":"17099234"},{"pubmed":"16988424"},{"pubmed":"16381915"},{"pubmed":"15608221"},{"pubmed":"15489338"},{"pubmed":"14681445"},{"pubmed":"12519966"},{"pubmed":"11125056","doi":"10.1093/nar/29.1.82","pmc":"PMC29781","title":"WormBase: network access to the genome and biology of Caenorhabditis elegans","year":2001}],"appears_in":[],"depends_on":[],"namespace_in_lui":false,"contributor_extras":[{"name":"Chris Mungall","orcid":"0000-0002-6601-2165","email":"cjmungall@lbl.gov","github":"cmungall"}],"preferred_prefix":"WormBase","logo":"https://wormbase.org/img/logo/logo_wormbase_gradient.svg"}