Collections Global Biodata Coalition - Global Core Biodata Resources

The Global Biodata Coalition released a curated list of 37 life sciences databases in December 2022 that they consider as having significant importance (see criteria here). While it's not a primary goal of the Bioregistry to cover life science databases (other resources like Wikidata and FAIRsharing already do an excellent job of this), many notable databases induce one or more semantic spaces that are relevant for curation and prefix assignment in the Bioregistry. Therefore, a large number of the resources in this list correspond 1-to-1 with prefixes in the Bioregistry, a small number (e.g., Orphanet, CIViC, PharmGKB) correspond to multiple prefixes, some have a complicated relationship with many-to-1 relationships to prefixes (DNA Data Bank of Japan, European Nucleotide Archive), and some constitute databases that simply reuse other key vocabularies (e.g., STRING reuses UniProt, GWAS Catalog reuses dbSNP and EFO). Among the databases that don't induce semantic spaces or have simple relationships to prefixes are:

Identifier
0000010
Contributors
Charles Tapley Hoyt
Size
48
Prefix Name
agrkb Alliance of Genome Resources Knowledge Base
bacdive BacDive
brenda BRENDA Enzyme Provider
brenda.ligand BRENDA Ligand
brenda.ligandgroup BRENDA Ligand Group
bto BRENDA Tissue Ontology
chebi Chemical Entities of Biological Interest
chembl ChEMBL
civic.aid CIViC Assertion
civic.did CIViC Disease
civic.eid CIViC Evidence
civic.gid CIViC gene
civic.sid CIViC Source
civic.tid CIViC Therapy
civic.vid CIViC variant
ecocyc EcoCyc
ena.embl European Nucleotide Archive
ensembl Ensembl Gene
eupath VEuPathDB ontology
flybase FlyBase Gene
gbif Global Biodiversity Information Facility
gnomad Genome Aggregation Database
go Gene Ontology
hgnc HUGO Gene Nomenclature Committee
interpro InterPro
mgi Mouse Genome Informatics
orpha Orphanet
orphanet.ordo Orphanet Rare Disease Ontology
panther.family PANTHER Family
panther.node PANTHER Node
panther.pathway PANTHER Pathway
panther.pthcmp PANTHER Pathway Component
pdb PDB Structure
pharmgkb.disease PharmGKB Disease
pharmgkb.drug PharmGKB Drug
pharmgkb.gene PharmGKB Gene
pharmgkb.pathways PharmGKB pathway
pmc PubMed Central
pombase PomBase
px ProteomeXchange
reactome Reactome
rgd Rat Genome Database
rhea Rhea reaction
sgd Saccharomyces Genome Database
ucsc UCSC Genome Browser
uniprot UniProt Protein
wormbase WormBase
zfin Zebrafish Information Network Gene