1 of 7

Bioregistry and NFDI in 2024

3^rd Ontologies4Chem Workshop 2024

Monday, December 9^th, 2024�Charles Tapley Hoyt

https://cthoyt.com��Download these slides under CC BY 4.0 at�https://bit.ly/bioregistry-ontologies4chem-2024

2 of 7

https://bioregistry.io, https://github.com/biopragmatics/bioregistry

3 of 7

CURIE prefix heterogeneity in chemistry is huge

Different communities often use different flavors of the same CURIE prefix. The PubChem compound database is an excellent example that shows huge heterogeneity.

4 of 7

URI prefix heterogeneity is also huge

Provider	URI
ChEBI	https://www.ebi.ac.uk/chebi/searchId.do?chebiId=138488
Identifiers.org	https://identifiers.org/CHEBI:24867 https://identifiers.org/CHEBI/24867 http://identifiers.org/CHEBI:24867 http://identifiers.org/CHEBI/24867
OBO PURL	http://purl.obolibrary.org/obo/CHEBI_24867
Name-to-Thing	https://n2t.net/chebi:24867
BioPortal	https://bioportal.bioontology.org/ontologies/CHEBI?p=classes&conceptid=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCHEBI_138488
OLS	https://www.ebi.ac.uk/ols/ontologies/chebi/terms?iri=http%3A%2F%2Fpurl.obolibrary.org%2Fobo%2FCHEBI_138488
...	...

5 of 7

Upstream integration of Bioregistry in OLS

Collaboration with EBI's SPOT team to use the Bioregistry to generate links in OLS
Trickles down to NFDI's terminology service

6 of 7

NFDI4Chem and NFDI4Cat Collection

Collection and multiple prefixes contributed by Philip
We'd love to see other NFDI consortia and Pistoia contribute their own ontologies and lists!

https://bioregistry.io/collection/0000014

7 of 7

Bioregistry and FAIRsharing

FAIRSharing represents databases
Bioregistry represents semantic spaces
Sometimes these are the same, and sometimes not, like for PubChem, and ChEMBL
Bioregistry is automatically pulling from FAIRSharing, could be a resource for also keeping FAIRSharing better reflecting NFDI consortia