KiSAO
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]
 | |
|---|---|
| Content | |
| Description | An 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 center | EMBL-EBI |
| Primary citation | PMID 22027554 |
| Access | |
| Standards | MIRIAM |
| Data format | OWL |
| Website | KiSAO home page, KiSAO at BioPortal |
| Download URL | KiSAO home page |
| Tools | |
| Standalone | libKiSAO, a java library to query KiSAO |
| Miscellaneous | |
| License | Artistic Licence |
| Version | 2.3.5 (April 2014) |
| Curation policy | yes (manual) |
| Bookmarkable entities | yes |
Structure
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.
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References
- 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.
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