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

2024-10-25

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

• 2016 The Ontology for Biomedical Investigations
• 2015 Modeling a microbial community and biodiversity assay with OBO Foundry ontologies: the interoperability gains of a modular approach
• 2013 Query enhancement through the practical application of ontology: the IEDB and OBI
• 2011 Minimum Information about a Genotyping Experiment (MIGEN)
• 2010 Modeling biomedical experimental processes with OBI

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

In Collection

NFDI4Chem Collection

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.

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

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

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.

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