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, controlled vocabularies, and schemas relevant for the NDFI4Cat Consortium.

This collection was originally based on 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).

A collection of resources added during Biocuration 2025 in Kansas City, MO, USA.

A curated list by Sage Bionetworks of external resources that are automatically linked on Synapse.org and affiliated data portals

Prefixes relevant for the Data Literacy Alliance (DALIA) project

The prefixes appearing in this collection correspond resources whose entities could appear as values for target groups, media types, educational levels, and other fields in OER data models. It can also include parts that are used to construct schemas for OERs

It was originally curated as part of the publication Teaching RDM in a smart advanced inorganic lab course and its provision in the DALIA platform (arxiv:2509.18902).

Prefixes relevant for the digital humanities

KonsortSWD (Strengthen, Widen, Deepen) is the German National Data Infrastructure (NFDI) consortium for social, educational, behavioral, and economic sciences. This collection reflects the prefixes collected by NFDI Section Metadata for ontologies and controlled vocabularies used by members of the consortium.

Prefixes for ontologies relevant for the NFDI4Energy

A collection of ontologies, controlled vocabularies, and schemas relevant for engineering and the NFDI4Ing Consortium. Ontologies are chronologically imported from corresponding the TIB Terminology Service collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the DataPLANT Consortium seeded from corresponding the TIB OLS collection. The NFDI Section Metadata WG Ontology Harmonization and Mapping is in the process of identifying DataPLANT Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the FAIRmat Consortium seeded from corresponding the TIB OLS collection. The NFDI Section Metadata WG Ontology Harmonization and Mapping is in the process of identifying FAIRmat Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Culture Consortium seeded from corresponding the TIB OLS collection. The NFDI Section Metadata WG Ontology Harmonization and Mapping is in the process of identifying NFDI4Culture Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the DAPHNE4NFDI Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying DAPHNE4NFDI Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the MaRDI Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying MaRDI Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the BERD@NFDI Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying BERD@NFDI Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4DataScience Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDI4DataScience Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Earth Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDI4Earth Consortium members appropriate for maintaining this collection.

A collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI-MatWerk Consortium created in cooperation with the NFDI Section Metadata WG Ontology Harmonization and Mapping.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the PUNCH4NFDI Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying PUNCH4NFDI Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the FAIRagro Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying FAIRagro Consortium members appropriate for maintaining this collection.

A collection of ontologies, controlled vocabularies, database, and schemas relevant for NFDI4BIOIMAGE

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDIxCS Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDIxCS Consortium members appropriate for maintaining this collection.

A collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Objects Consortium imported from the consortium's official BARTOC record https://bartoc.org/en/node/18961.

Note: this collection is a subset of the BARTOC collection until all ontologies and controlled vocabularies in the BARTOC collection are also curated in the Semantic Farm.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Memory Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDI4Memory Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the Text+ Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying Text+ Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the GHGA Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying GHGA Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Biodiversity Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDI4Biodiversity Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Health Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDI4Health Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Microbiota Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDI4Microbiota Consortium members appropriate for maintaining this collection.

A placeholder collection of ontologies, controlled vocabularies, and schemas relevant for the NFDI4Immuno Consortium created by the NFDI Section Metadata WG Ontology Harmonization and Mapping. The working group is in the process of identifying NFDI4Immuno Consortium members appropriate for maintaining this collection.