The Kinetic Simulation Algorithm Ontology (KiSAO) supplies information about existing algorithms available for the simulation of systems biology models, their characterization and interrelationships. KiSAO is part of the BioModels.net project and of the COMBINE initiative.[1]

KiSAO
Content
DescriptionAn ontology providing support in unambiguously referring to simulation algorithms when describing a simulation experiment.
Data types
captured
simulation algorithms, their characteristics and parameters
Contact
Research centerEMBL-EBI
Primary citationPMID 22027554
Access
StandardsMIRIAM
Data formatOWL
WebsiteKiSAO home page, KiSAO at BioPortal
Download URLKiSAO home page
Tools
StandalonelibKiSAO, a java library to query KiSAO
Miscellaneous
LicenseArtistic Licence
Version2.3.5 (April 2014)
Curation policyyes (manual)
Bookmarkable
entities
yes

Structure

edit

KiSAO consists of three main branches:

  • simulation algorithm
  • simulation algorithm characteristic
  • simulation algorithm parameter

The elements of each algorithm branch are linked to characteristic and parameter branches using has characteristic and has parameter relationships accordingly. The algorithm branch itself is hierarchically structured using relationships which denote that the descendant algorithms were derived from, or specify, more general ancestors.

See also

edit

References

edit
  1. ^ Courtot, M.; Juty, N.; Knupfer, C.; Waltemath, D.; Zhukova, A.; Drager, A.; Dumontier, M.; Finney, A.; Golebiewski, M.; Hastings, J.; Hoops, S.; Keating, S.; Kell, D. B.; Kerrien, S.; Lawson, J.; Lister, A.; Lu, J.; Machne, R.; Mendes, P.; Pocock, M.; Rodriguez, N.; Villeger, A.; Wilkinson, D. J.; Wimalaratne, S.; Laibe, C.; Hucka, M.; Le Novere, N. (2014). "Controlled vocabularies and semantics in systems biology". Molecular Systems Biology. 7: 543. doi:10.1038/msb.2011.77. PMC 3261705. PMID 22027554.