CellML
Homepage http://www.cellml.org
Countries that developed this resource Worldwide
Created in 2001
Taxonomic range
Knowledge Domains
Subjects
How to cite this record FAIRsharing.org: CellML; CellML; DOI: https://doi.org/10.25504/FAIRsharing.50n9hc; Last edited: June 22, 2021, 2:23 p.m.; Last accessed: Oct 24 2021 9:52 a.m.
Record updated: June 22, 2021, 2:03 p.m. by The FAIRsharing Team.
| contact form | https://www.cellml.org/about/contact |
| Mailing List | CellML Discussion mailing list |
| online documentation | http://www.cellml.org/specifications |
| CellML tools | https://www.cellml.org/tools |
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Conditions of Use
CellML: its future, present and past.
Lloyd CM,Halstead MD,Nielsen PF
Prog Biophys Mol Biol 2004
Using CellML with OpenCMISS to Simulate Multi-Scale Physiology.
Nickerson DP,Ladd D,Hussan JR,Safaei S,Suresh V,Hunter PJ,Bradley CP
Front Bioeng Biotechnol 2015
Cellular cardiac electrophysiology modeling with Chaste and CellML.
Cooper J,Spiteri RJ,Mirams GR
Front Physiol 2015
OpenCOR: a modular and interoperable approach to computational biology.
Garny A,Hunter PJ
Front Physiol 2015
The CellML 1.1 Specification.
Cuellar A,Hedley W,Nelson M,Lloyd C,Halstead M,Bullivant D,Nickerson D,Hunter P,Nielsen P
J Integr Bioinform 2015
The CellML Metadata Framework 2.0 Specification.
Cooling MT,Hunter P
J Integr Bioinform 2015
Semantics-Based Composition of Integrated Cardiomyocyte Models Motivated by Real-World Use Cases.
Neal ML,Carlson BE,Thompson CT,James RC,Kim KG,Tran K,Crampin EJ,Cook DL,Gennari JH
PLoS One 2015
Myokit: A simple interface to cardiac cellular electrophysiology.
Clerx M,Collins P,de Lange E,Volders PG
Prog Biophys Mol Biol 2016
The Cardiac Electrophysiology Web Lab.
Cooper J,Scharm M,Mirams GR
Biophys J 2016
Reporting Guidelines
Terminology Artifacts
No semantic standards defined
Models and Formats
- Resource Description Framework
- Mathematics Markup Language
- Extensible Markup Language
- BioSimulators formats for the inputs, outputs, and capabilities of biosimulation software tools
- Human Physiome Field Markup Language
- Open Modeling EXchange format
- Simulation Experiment Description Markup Language
- Systems Biology Markup Language
Identifier Schemas
No identifier schema standards defined
Metrics
No metrics standards defined
BioModels is a repository of computational models of biological processes. It allows users to search and retrieve mathematical models published in the literature. Many models are manually curated (to ensure reproducibility) and extensively cross-linked to publicly available reference information.
Experimental data repository for KInetic MOdels of biological SYStems
KiMoSys is a user-friendly platform that includes a public data repository of relevant published measurements, including metabolite concentrations (time-series and steady-state), flux data, and enzyme measurements in order to build ODE-based kinetic model. It is designed to search, exchange and disseminate experimental data (and associated kinetic models) for the systems modeling community.
Physiome Model Repository
The Physiome Model Repository (PMR) is the main online repository for the IUPS Physiome Project, providing version and access controlled repositories, called workspaces, for users to store their data. PMR also provides a mechanism to create persistent access to specific revisions of a workspace, termed exposures. Exposure plugins are available for specific types of data (e.g., CellML or FieldML documents) which enable customizable views of the data when browsing the repository via a web browser, or an application accessing the repository’s content via web services.
Record Maintainer
Funds
FoRST, New Zealand (Government body)
NZIMA (Research institute)
Physiome Project (Consortium)
Virtual Physiological Human Network of Excellence (Government body)
Maurice Wilkins Center for Molecular Biodiscovery, Auckland, New Zealand (Government body)
Maintains
COmputational Modeling in BIology NEtwork (COMBINE) (Consortium)
CellML Community (Consortium)
