The Kinetic Simulation Algorithm Ontology (KiSAO) is an ontology that describes simulation algorithms and methods used for biological kinetic models, and the relationships between them. This provides a means to unambiguously refer to simulation algorithms when describing a simulation experiment.

Prefix

biomodels.kisao

Preferred Prefix

biomodels.kisao

Alternative Prefixes

biomodels.kisao kisao

Keywords

bioinformatics computer science obo ontology

Version

2.30

License

Artistic License 2.0

Links

Homepage Repository OWL

Contact

Jonathan Karr   0000-0002-2605-5080   jonrkarr

Pattern for Local Unique Identifiers

Local identifiers in Kinetic Simulation Algorithm Ontology should match this regular expression:
^\d+$

Example Local Unique Identifier

0000057   Resolve

Pattern for CURIES

Compact URIs (CURIEs) constructed from Kinetic Simulation Algorithm Ontology should match this regular expression:
^biomodels\.kisao:\d+$

Example CURIE

biomodels.kisao:0000057

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 KISAO_. Therefore, you might see local unique identifiers written out as CURIEs.

Publications

2011 Controlled vocabularies and semantics in systems biology.

The metaregistry provides mappings between the Bioregistry and other registries. There are 10 mappings to external registries for biomodels.kisao with 3 unique external prefixes.

Providers are various services that resolve CURIEs to URLs. The example CURIE biomodels.kisao:0000057 is used to demonstrate the provides available for biomodels.kisao. Generation of OLS and BioPortal URLs requires additional programmatic logic beyond string formatting.

Additional providers curated in the Bioregistry are listed here.