These resources were listed in Sharing biological data: why, when, and how, which prompted further novel curation of the Bioregistry which included the addition of GenBank, Panorama Public, EMPIAR, and SSBD. It also prompted the curation of mappings to FAIRSharing when possible.

Resources used in the semantic web, drawing from lists in BioContext and LinkML as well as W3C recommendations.

The data sources used in xrefs in the ChEBI ontology. More information in the "Data Sources" section of this document.

This collection contains the many prefixes for the different repackaging of the International Classification of Diseases (ICD) throughout its major revisions.

This collection contains various brain atlases from the Allen Institute.

The Semantic Publishing and Referencing (SPAR) Ontologies are a suite of orthogonal and complementary OWL 2 ontologies that enable all aspects of the publishing process to be described in machine-readable metadata statements, encoded using RDF.

Prefixes useful in annotating documentation provenance.

Prefixes exported for the epidemiology domain knowledge graph in the ASKEM project.

Prefixes mentioned on the external list on the FHIR Code Systems page. This list is mostly complete. Notably, some entries that have not been curated:

• HGVS (see discussion at #460)
• NUBC (National Uniform Billing Committee) - could not find information about the terminology or its entries
• ICPC (International Classification of Primary Care) same
• GTIN (Global Trade Item Number) same
• MDC (Medical Device Codes) since that appears to be part of a larger ISO standard vocabulary that needs further investigation

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:

• Clinical Genome Resource (uses HGNC, MONDO, PharmGKB, etc.)
• DNA Data Bank of Japan (uses INSDC)
• GENCODE (uses GenBank)
• GWAS Catalog (uses dbSNP, EFO, etc)
• STRING (uses UniProt)

A collection of ontologies relevant for chemistry.

The NFDI program deploys a custom instance of the Ontology Lookup Service (OLS) that provides the ontologies in this list.

A further analysis of the metadata landscape of the ontologies in this list can be found here.

OntoCompChem and OntoKin appear on the NFDI4Cat list but have not yet been registered in the Bioregistry because the resources are missing/incomplete such that they do not meet minimum Bioregistry metadata standards. These might be added in the future if additional metadata can be found.

A collection of clinical trial registries appearing in the World Health Organization's International Clinical Trials Registry Platform (ICTRP)

These resources represent software repositories

A collection of ontologies relevant within the NFDI4Chem project that is mostly based on the overview paper Ontologies4Chem: the landscape of ontologies in chemistry.

NFDI4Chem deploys a custom instance of the Ontology Lookup Service (OLS), called NFDI4Chem Terminology Services (TS), that provides the ontologies in this list. This list contains ontologies that cover various domains of chemistry (e.g. ChEBI, CHMO, and RXNO), those that are dependencies of these chemistry specific ontologies (e.g. BFO, RO, IAO, and OBI) as well as those ontologies, which where indexed in the NFDI4Chem TS for interoperability research purposes (e.g. PROV-O, SOSA, and OBOE).