Minimum Information About a Simulation Experiment (MIASE)
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This FAIRsharing record describes: The MIASE Guidelines, initiated by the BioModels.net effort, are a community effort to identify the Minimal Information About a Simulation Experiment, necessary to enable the reproducible simulation experiments. Consequently, the MIASE Guidelines list the information that a modeller needs to provide to enable the execution and reproduction of a numerical simulation experiment, derived from a given set of quantitative models. MIASE is a set of guidelines suitable for use with any structured format for simulation experiments. As such, MIASE is designed to help modelers and software tools to exchange their simulation settings and to foster collaboration.
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Many modelers reproduce simulations by reading the simulation description in the corresponding publication.
“Many modelers reproduce simulations by reading the simulation description in the corresponding publication [46].”
From Adapting modeling and simulation credibility standards to computational systems biology (2023) · cites this paper as [46]
In systems biology, MIRIAM and MIASE are two community standards used for documenting simulation models and corresponding simulation experiments.
“In the case of systems biology, the “Minimum Information Requested in the Annotation of Biochemical Models (MIRIAM)” [7] and the “Minimum Information About a Simulation Experiment (MIASE)” [8] are two community standards used for documenting simulation models and corresponding simulation experiments.”
From Relating simulation studies by provenance—Developing a family of Wnt signaling models (2021) · cites this paper as [8]
Each entity and activity in the final set has already been mentioned for provenance, modeling or documentation purposes, or experiment design of simulation studies, but they have not all been used together.
“Each entity and activity has already been mentioned for provenance, modeling or documentation purposes, or experiment design of simulation studies [1, 3–5, 8, 20, 21, 60–63], but they have not all been used together.”
From Relating simulation studies by provenance—Developing a family of Wnt signaling models (2021) · cites this paper as [8]
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References 20 · Cited by 168
- Authors
- Waltemath, D., Adams, R., Beard, D. A., Bergmann, F. T., Bhalla, U. S., Britten, R., Chelliah, V., Cooling, M. T., Cooper, J., Crampin, E. J., Garny, A., Hoops, S., Hucka, M., Hunter, P., Klipp, E., Laibe, C., Miller, A. K., Moraru, I., Nickerson, D., Nielsen, P., Nikolski, M., Sahle, S., Sauro, H. M., Schmidt, H., Snoep, J. L., Tolle, D., Wolkenhauer, O., & Le Novère, N.
- Affiliations
- Hanseatic University Rostock (DE)
- University of Edinburgh (GB)
- Medical College of Wisconsin (US)
- University of Washington (US)
- Tata Institute of Fundamental Research (IN)
- University of Auckland (NZ)
- European Bioinformatics Institute (GB)
- University of Oxford (GB)
- Virginia Tech (US)
- California Institute of Technology (US)
- Humboldt-Universität zu Berlin (DE)
- UConn Health (US)
- Université de Bordeaux (FR)
- Heidelberg University (DE)
- Novartis (Switzerland) (CH)
- Stellenbosch University (ZA)
- ORCID
- Waltemath, Dagmar
- Adams, Richard
- Beard, Daniel A.
- Bergmann, Frank T.
- Bhalla, Upinder S.
- Chelliah, Vijayalakshmi
- Cooling, Michael T.
- Cooper, Jonathan
- Crampin, Edmund J.
- Garny, Alan
- Hoops, Stefan
- Hucka, Michael
- Hunter, Peter
- Klipp, Edda
- Laibe, Camille
- Moraru, Ion
- Nickerson, David
- Nielsen, Poul
- Nikolski, Macha
- Sahle, Sven
- Sauro, Herbert M.
- Snoep, Jacky L.
- Venue
- PLoS Computational Biology
- Publisher
- Public Library of Science (PLoS)
- Published
- 2011-04-28
- Volume
- 7
- Issue
- 4
- Pages
- e1001122
- ISSN
- 1553-734X (ISSN-L)
- 1553-7358
- PMC
- PMC3084216
- OpenAlex
- W2113777491
- Cited by
- 168
- References
- 20
- Citations by year
- 2026: 7 · 2025: 4 · 2024: 16 · 2023: 11 · 2022: 10 · 2021: 5 · 2020: 17 · 2019: 5 · 2018: 9 · 2017: 9 · 2016: 13 · 2015: 14 · 2014: 11 · 2013: 15 · 2012: 9
- FWCI
- 34.17
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Licence
- cc-by
- Locations
- PLoS Computational Biology (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, cc-by)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- Research Explorer (The University of Manchester) (publishedVersion)
- VU Research Portal (publishedVersion, other-oa)
- Minerva Access (University of Melbourne) (submittedVersion, cc-by)
- CaltechAUTHORS (California Institute of Technology) (submittedVersion, cc-by)
- HAL (submittedVersion, other-oa)
- RePEc: Research Papers in Economics (submittedVersion)
- Digital Academic REpository of VU University Amsterdam (Vrije Universiteit Amsterdam) (submittedVersion)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion, cc-by-sa)
- UCL Discovery (University College London) (submittedVersion)
- Figshare (submittedVersion, cc-by)
- Edinburgh Research Explorer (University of Edinburgh) (submittedVersion, other-oa)
- King Abdullah University of Science and Technology Repository (King Abdullah University of Science and Technology) (submittedVersion, other-oa)
- ResearchSpace (University of Auckland) (submittedVersion, cc-by)
- SUNScholar (Stellenbosch University) (submittedVersion)
- VTechWorks (Virginia Tech) (submittedVersion)
- Data Archiving and Networked Services (DANS) (submittedVersion, other-oa)
- Funders
- European Commission (223920, KUK-C1-013-04)
- Deutsche Forschungsgemeinschaft (1387/1)
- King Abdullah University of Science and Technology (KUK‐C1‐013‐04)
- National Institutes of Health
- Directorate for Biological Sciences
- Biotechnology and Biological Sciences Research Council (BB/D019621/1)
- National Institute of General Medical Sciences (R01GM080219, R01GM070923, R01GM081070)
- Topics
- Social Sciences › Decision Sciences › Information Systems and Management › Scientific Computing and Data Management
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Gene Regulatory Network Analysis
- Physical Sciences › Computer Science › Information Systems › Research Data Management Practices
- Keywords
- minimal information, quantitative model
- MeSH terms
- Computer Simulation, Research Design, Reproducibility of Results
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