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

Version

2022-07-11

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 includes the namespaceEmbeddedInLUI as true. The actual part that gets prefixed before the local unique identifier regex, otherwise known as the banana, is OBI:. Therefore, you might see local unique identifiers written out as 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.

Appears In (1)

FOODON

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

Providers are various services that resolve CURIEs to URLs. The example CURIE obi:0400109 is used to demonstrate the provides available for obi. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.