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Kinetic Simulation Algorithm Ontology

Abbreviation: KiSAO

General Information

The Kinetic Simulation Algorithm Ontology aims at providing support in unambiguously referring to simulation algorithms when describing a simulation experiment. It describes and classifies existing algorithms and their inter-relationships through the algorithm characteristics and parameters.

Homepage http://co.mbine.org/standards/kisao

Countries that developed this resource European Union

Created in 2015

Taxonomic range

All

Knowledge Domains

Subjects

User-defined Tags

General purpose

How to cite this record FAIRsharing.org: KiSAO; Kinetic Simulation Algorithm Ontology; DOI: https://doi.org/10.25504/FAIRsharing.jcg19w; Last edited: June 22, 2021, 2:23 p.m.; Last accessed: Dec 08 2021 12:37 p.m.

This record is maintained by matthiaskoenig ORCID

Record updated: June 22, 2021, 2:19 p.m. by The FAIRsharing Team.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.jcg19w' by 'The FAIRsharing Team' at 14:19, 22 Jun 2021 (approved):

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			Open Source Initiative Artistic license 2.0|https://opensource.org/licenses/artistic-license-2.0.php|Data
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			Open Source Initiative Artistic license 2.0|https://opensource.org/licenses/artistic-license-2.0.php|Data
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			contact form|https://sourceforge.net/p/kisao/feature-requests/new/
			mailing list|biomodels-net-support@lists.sf.net
			online documentation|http://co.mbine.org/standards/kisao/libkisao
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			contact form|https://sourceforge.net/p/kisao/feature-requests/new/
			mailing list|biomodels-net-support@lists.sf.net
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			online documentation|http://co.mbine.org/standards/kisao/libkisao

	'publications' has been modified:
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			Controlled vocabularies and semantics in systems biology.|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 DB,Kerrien S,Lawson J,Lister A,Lu J,Machne R,Mendes P,Pocock M,Rodriguez N,Villeger A,Wilkinson DJ,Wimalaratne S,Laibe C,Hucka M,Le Novere N|Mol Syst Biol|2011
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			Controlled vocabularies and semantics in systems biology.|Courtot M,Juty N,Knupfer C et al.|Mol Syst Biol|2011
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			Controlled vocabularies and semantics in systems biology.|Courtot M,Juty N,Knupfer C et al.|Mol Syst Biol|2011
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			Controlled vocabularies and semantics in systems biology.|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 DB,Kerrien S,Lawson J,Lister A,Lu J,Machne R,Mendes P,Pocock M,Rodriguez N,Villeger A,Wilkinson DJ,Wimalaratne S,Laibe C,Hucka M,Le Novere N|Mol Syst Biol|2011

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			Kinetic model
			algorithm
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			Kinetic model
			algorithm
			modeling and simulation objective
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			modeling and simulation objective
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Edits to 'https://fairsharing.org/FAIRsharing.jcg19w' by 'The FAIRsharing Team' at 15:53, 28 Nov 2019 (approved):

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			mailing list|biomodels-net-support@lists.sf.net
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			contact form|https://sourceforge.net/p/kisao/feature-requests/new/
			mailing list|biomodels-net-support@lists.sf.net
			online documentation|http://co.mbine.org/standards/kisao/libkisao
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			contact form|https://sourceforge.net/p/kisao/feature-requests/new/
			online documentation|http://co.mbine.org/standards/kisao/libkisao
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			Download
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			Download
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Edits to 'https://fairsharing.org/FAIRsharing.jcg19w' by 'The FAIRsharing Team' at 16:35, 31 Oct 2016 (approved):

	'homepage' has been modified:
		Before: http://bioportal.bioontology.org/ontologies/1410
		After: http://co.mbine.org/standards/kisao

In Collections

FAIRDOM Community Standards

ISO/CD 20691 Collection - DRAFT

Systems Medicine

Support

General

contact form	Submit a ticket
Mailing List	Mailing List

Additional Information

Contact

Nicolas Le Novère ORCID

External Links

Bioportal	http://bioportal.bioontology.org/ontologies/KISAO
OBO	http://obofoundry.org/ontology/kisao.html

Tools

libKiSAO

http://co.mbine.org/standards/kisao/libkisao

Schemas

No XSD schemas defined

Access / Retrieve Data

Conditions of Use

Applies to: Data use

Open Source Initiative Artistic license 2.0

Data Access

Download	http://svn.code.sf.net/p/kisao/code/tags/
Search	http://co.mbine.org/standards/kisao

Publications

Controlled vocabularies and semantics in systems biology.

Courtot M,Juty N,Knupfer C et al.
Mol Syst Biol 2011

View Paper (PubMed) View Publication

KISAO Ontology Display

View in BioPortal.

Disclaimer: This widget assumes the availability of the ontology resources in the NCBO BioPortal.

View in OBO Foundry.

Related Standards

Reporting Guidelines

Terminology Artifacts

Systems Biology Ontology

Models and Formats

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases (3)

OBO Foundry
The Open Biological and Biomedical Ontology (OBO) Foundry is a collective of ontology developers that are committed to collaboration and adherence to shared principles. The mission of the OBO Foundry is to develop a family of interoperable ontologies that are both logically well-formed and scientifically accurate. To achieve this, OBO Foundry participants voluntarily adhere to and contribute to the development of an evolving set of principles including open use, collaborative development, non-overlapping and strictly-scoped content, and common syntax and relations, based on ontology models that work well, such as the Gene Ontology (GO). The OBO Foundry is overseen by an Operations Committee with Editorial, Technical and Outreach working groups.

BioSimulators
BioSimulators is a registry of containerized biosimulation tools that provide consistent command-line interfaces. The BioSimulations web application helps investigators browse this registry to find simulation tools that have the capabilities (supported modeling frameworks, simulation algorithms, and modeling formats) needed for specific modeling projects.

BioSimulations
BioSimulations is a web application for sharing and re-using biomodels, simulations, and visualizations of simulations results. BioSimulations supports a wide range of modeling frameworks (e.g., kinetic, constraint-based, and logical modeling), model formats (e.g., BNGL, CellML, SBML), and simulation tools (e.g., COPASI, libRoadRunner/tellurium, NFSim, VCell). BioSimulations aims to help researchers discover published models that might be useful for their research and quickly try them via a simple web-based interface.

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by matthiaskoenig ORCID

Maintains

Kinetic Simulation Algorithm Ontology (KiSAO) Administrators (Consortium)

Kinetic Simulation Algorithm Ontology

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