Logo for Ontology for Biomedical Investigations The Ontology for Biomedical Investigations (OBI) project is developing an integrated ontology for the description of biological and clinical investigations. The ontology will represent the design of an investigation, the protocols and instrumentation used, the material used, the data generated and the type analysis performed on it. Currently OBI is being built under the Basic Formal Ontology (BFO).

Prefix
obi
Preferred Prefix
OBI
Keywords
assay biomedical science data transformation device functional genomics life science obo ontology protocol reagent report study design
Version
2024-06-10
License
CC-BY-4.0
Links
Homepage Repository OBO OWL
Contact
Bjoern Peters   0000-0002-8457-6693   bpeters42
Pattern for Local Unique Identifiers

Local identifiers in Ontology for Biomedical Investigations should match this regular expression:
^\d{7}$

Example Local Unique Identifier
0400109   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from Ontology for Biomedical Investigations should match this regular expression:
^OBI:\d{7}$

Example CURIE
OBI:0400109
MIRIAM Namespace Embedded in LUI
The legacy MIRIAM standard for generating CURIEs with this resource annotates the namespaceEmbeddedInLUI as true. This means that you may see local unique identifiers that include a redundant prefix and delimiter (also known as a banana) and therefore look like a CURIE. For Ontology for Biomedical Investigations, the banana looks like OBI:. Therefore, you may see local unique identifiers for this resource that look like OBI:0400109 (instead of the canonical form 0400109) and CURIEs for this resource that look like OBI:OBI:0400109 (instead of the canonical form OBI:0400109). The Bioregistry will automatically strip off the banana when standardizing local unique identifiers and CURIEs.
Publications
Ontology

A summary of the relations in the Bioregistry schema can be found here.

Appears In (12) (bioregistry.schema:0000018 )
AGRO FOODON GALLONT HSO LABO MAXO MCO ONE ONS PROCO RBO SCDO
Metaregistry Ontology for Biomedical Investigations

The metaregistry provides mappings between the Bioregistry and other registries. There are 11 mappings to external registries for this resource with 2 unique external prefixes.

Registry Name Registry Metaprefix External Prefix Curate
AberOWL AberOWL logo aberowl OBI
BioContext biocontext OBI
BioPortal BioPortal Prefixes logo bioportal OBI
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.284e1z
GO Gene Ontology Registry logo go OBI
Identifiers.org Identifiers.org logo miriam obi
N2T Name-to-Thing logo n2t obi
OBO Foundry OBO Foundry logo obofoundry obi
OLS Ontology Lookup Service logo ols obi
OntoBee OntoBee logo ontobee OBI
Prefix Commons Prefix Commons logo prefixcommons obi
RDF Information

When using this resource in RDF, the following URI format should be used:

http://purl.obolibrary.org/obo/OBI_$1

Providers

A provider turns a local unique identifiers from a resource into a URI. Many providers are also resolvable as URLs (i.e., they can be used in a web browser).

The local unique identifier 0400109 is used to demonstrate the providers available for Ontology for Biomedical Investigations. A guide for curating additional providers can be found here.

Name Metaprefix URI
Ontology for Biomedical Investigations obi http://purl.obolibrary.org/obo/OBI_0400109
Ontology for Biomedical Investigations (RDF) rdf http://purl.obolibrary.org/obo/OBI_0400109
Bioregistry bioregistry https://bioregistry.io/obi:0400109
Identifiers.org miriam https://identifiers.org/obi:OBI:0400109
OBO Foundry obofoundry http://purl.obolibrary.org/obo/OBI_0400109
Ontology Lookup Service ols https://www.ebi.ac.uk/ols4/ontologies/obi/terms?iri=http://purl.obolibrary.org/obo/OBI_0400109
Name-to-Thing n2t https://n2t.net/obi:0400109
BioPortal Prefixes bioportal https://bioportal.bioontology.org/ontologies/OBI/?p=classes&conceptid=http://purl.obolibrary.org/obo/OBI_0400109
Extra Providers

Additional providers curated in the Bioregistry are listed here. These are typically inherited from Identifiers.org or Prefix Commons, and need extra curation.

Code Name URL
bio2rdf Bio2RDF http://bio2rdf.org/obi:0400109