An Overview of CellML 1.1, a Biological Model Description Language
Abstract
CellML is an XML-based exchange format developed by the University of Auckland in collaboration with Physiome Sciences, Inc. CellML 1.1 has a component-based architecture allowing a modeller to build complex systems of models that expand and reuse previously published models. CellML Metadata is a format for encoding contextual information for a model. CellML 1.1 can be used in conjunction with CellML Metadata to provide a complete description of the structure and underlying mathematics of biological models. A repository of over 200 electrophysiological, mechanical, signal transduction, and metabolic pathway models is available at www.cellml.org.
Integrity signals
Registry
Cites
Statistics
Claims the paper makes
Claims other papers make about this one
Each is checked against this paper’s own text: does it say what the citing paper says it does?
Systems biology model representation has become standardized using XML-based languages SBML, CellML, and BioPAX.
“For this reason, systems biology model representation has become standardized using XML-based languages SBML [10, 13], CellML [14], and BioPAX [15].”
From Adapting modeling and simulation credibility standards to computational systems biology (2023) · cites this paper as [14]
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References 8 · Cited by 345
- Authors
- Cuellar, A. A., Lloyd, C. M., Nielsen, P. F., Bullivant, D. P., Nickerson, D. P., & Hunter, P. J.
- Affiliations
- University of Auckland (NZ)
- Corresponding author
- Cuellar, Autumn A.
- Venue
- SIMULATION
- Publisher
- SAGE Publications
- Published
- 2003-12
- Volume
- 79
- Issue
- 12
- Pages
- 740-747
- ISSN
- 0037-5497 (ISSN-L)
- 1741-3133
- OpenAlex
- W2170122529
- Cited by
- 345
- References
- 8
- Citations by year
- 2026: 5 · 2025: 6 · 2024: 14 · 2023: 18 · 2022: 12 · 2021: 26 · 2020: 25 · 2019: 20 · 2018: 19 · 2017: 16 · 2016: 16 · 2015: 18 · 2014: 15 · 2013: 26 · 2012: 11
- FWCI
- 9.17
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- SIMULATION (publishedVersion)
- ResearchSpace (University of Auckland) (submittedVersion)
- Topics
- Physical Sciences › Computer Science › Computational Theory and Mathematics › Modeling and Simulation Systems
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Social Sciences › Decision Sciences › Information Systems and Management › Scientific Computing and Data Management
- Keywords
- CellML, model reuse, electrophysiological model, model repository
About these checks
Registry, retraction, Cites and statistics results are computed, not judged, with one exception: a printed reference that no index lists is read once by a model before it counts as a citation error. Claims are extracted by a model and kept only when their quote appears verbatim in the text; each cited source is then checked, with a model’s help, for whether it says what the claim relies on. Those verdicts can be wrong — read the claim’s quote and the cited source before relying on one.
Statistics and arithmetic are recomputed, not judged.
Confidence bands are shown only for fields calibrated on our annotated test set. None is calibrated yet, so no band is shown.
What counts as a claim ›How we measure confidence ›How we check this ›
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