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.

Preferred Prefix
Alternative Prefixes
biomodels.kisao kisao
algorithm bioinformatics computer science kinetic model modeling and simulation obo ontology
Artistic License 2.0
Homepage Repository OWL
Jonathan Karr   0000-0002-2605-5080   jonrkarr
Pattern for Local Unique Identifiers

Local identifiers in Kinetic Simulation Algorithm Ontology should match this regular expression:

Example Local Unique Identifier
0000057   Resolve
Pattern for CURIES

Compact URIs (CURIEs) constructed from Kinetic Simulation Algorithm Ontology should match this regular expression:

Example CURIE
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 Kinetic Simulation Algorithm Ontology, the banana looks like KISAO_. Therefore, you may see local unique identifiers for this resource that look like KISAO_0000057 (instead of the canonical form 0000057) and CURIEs for this resource that look like biomodels.kisao:KISAO_0000057 (instead of the canonical form biomodels.kisao:0000057). The Bioregistry will automatically strip off the banana when standardizing local unique identifiers and CURIEs.
2011 Controlled vocabularies and semantics in systems biology
Metaregistry Kinetic Simulation Algorithm Ontology

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

Registry Name Registry Metaprefix External Prefix Curate
AberOWL AberOWL logo aberowl KISAO
BioContext biocontext KISAO
BioPortal BioPortal Prefixes logo bioportal KISAO
FAIRSharing FAIRSharing logo fairsharing FAIRsharing.jcg19w logo miriam biomodels.kisao
N2T Name-to-Thing logo n2t biomodels.kisao
OBO Foundry OBO Foundry logo obofoundry kisao
OLS Ontology Lookup Service logo ols kisao
OntoBee OntoBee logo ontobee KISAO
Prefix Commons Prefix Commons logo prefixcommons kisao
RDF Information

When using this resource in RDF, the following URI format should be used:$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 0000057 is used to demonstrate the providers available for Kinetic Simulation Algorithm Ontology. A guide for curating additional providers can be found here.

Name Metaprefix URI
Kinetic Simulation Algorithm Ontology biomodels.kisao
Kinetic Simulation Algorithm Ontology (RDF) rdf
Bioregistry bioregistry miriam
OBO Foundry obofoundry
Ontology Lookup Service ols
Name-to-Thing n2t
BioPortal Prefixes bioportal
Extra Providers

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

Code Name URL
bio2rdf Bio2RDF
legacy Legacy Biomodels URL