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BioModels is a repository of mathematical models of biological and biomedical systems. It hosts a vast selection of existing literature-based physiologically and pharmaceutically relevant mechanistic models in standard formats. Our mission is to provide the systems modelling community with reproducible, high-quality, freely-accessible models published in the scientific literature. More information about using BioModels such as model submission, update, publication, or reviewers access can be found in the FAQ.
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1,096 models
1,661 models
833 models
899,648 records
October, 2025
Gall2023 - Agent-based model of the intestinal epithelium
To study how the intestinal epithelium maintains homeostasis and recovers from injury, we built a multi-scale, agent-based model (ABM) of the mouse intestinal epithelium. This model allows for the quantitative simulation of disease- and drug-induced injury of the intestinal epithelium from protein-level effects acting on individual cells of the model....
Model(s) associated with this Model of the Month: MODEL2212120002.
Last updated by: Dr Louis Gall; Advisor: Carmen Pin
News
- 24/09/2025: Our new home at the University of Florida New
- 24/04/2025: Talk2BioModels - an AI chatbot for BioModels
- 13/01/2025: Model of Year 2024 Winners
- 10/03/2022: Freely create a reviewer account for your models
- 12/04/2021: Standards for curation of FBC models
- 27/02/2021: Reproducibility in Systems Biology Modelling manuscript published
- 08/12/2020: Reproducibility
- 12/10/2020: Retirement party for the classic BioModels website
- 06/07/2020: COVID-19
- 17/06/2020: New updates for Release 5.1.9
- 03/06/2020: New updates for Release 5.1.8
- 03/06/2020: BioModels Parameters Manuscript accepted Read more...
Recently accessed
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Zeilfelder2025 - Model for human liver cancer cell line HepG2
Submitter: Nantia Leonidou | Published date: 2025年11月13日Publication: Diclofenac and acetaminophen dim the acute-phase response but amplify expression of the iron regulator hepcidin in liver cancer cells., Cell systems (2025) -
Gaspari2019 - iEG158_mpn genome-scale metabolic model of Mycoplasma pneumoniae strain M129
Submitter: Erika Gaspari | Published date: 2025年10月24日Publication: Model-driven design allows growth of Mycoplasma pneumoniae on serum-free media, NPJ systems biology and applications (2020) -
Zerrouk2024 - Rheumatoid arthritis multi-cellular model
Submitter: naouel zerrouk | Published date: 2025年10月25日Publication: Building a modular and multi-cellular virtual twin of the synovial joint in Rheumatoid Arthritis., NPJ digital medicine (2024) -
Zeilfelder2025 - Model for primary human hepatocytes (PHH)
Submitter: Nantia Leonidou | Published date: 2025年11月13日Publication: Diclofenac and acetaminophen dim the acute-phase response but amplify expression of the iron regulator hepcidin in liver cancer cells., Cell systems (2025) -
Kessler2025 - IL-6 and IL-22 pathway in human hepatocytes
Submitter: Marcus Kessler | Published date: 2025年11月14日Publication: Computational analysis of IL-6/IL-22 signaling in liver disease., Bio Systems (2025) -
Lopes2025 - NFkB model in Breast Cancer
Submitter: FRANCISCO JP LOPES | Published date: 2025年10月25日Publication: NF-κB Epigenetic Attractor Landscape Drives Breast Cancer Heterogeneity, bioRxiv preprint server (Unpublished) -
Strain engineering and metabolic flux analysis of a probiotic yeast Saccharomyces cerevisiae for metabolizing L-fucose, a mammalian mucin component
Submitter: Jungyeon Kim | Published date: 2025年10月24日Publication: Strain engineering and metabolic flux analysis of a probiotic yeast Saccharomyces boulardii for metabolizing L-fucose, a mammalian mucin component., Microbial cell factories (2022)
Recently published
- Novak1997 - Cell Cycle
- Talemi2014 - Arsenic toxicity and detoxification mechanisms in yeast
- Brännmark2013 - Insulin signalling in human adipocytes (normal condition)
- Haffez2017 - RAR interaction with synthetic analogues
- Stortelder1997 - Thrombin Generation Amidolytic Activity
- Hettling2011_CreatineKinase
- Bungay2003_Thrombin_Generation
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How to cite BioModels
- Rahuman S Malik-Sheriff, Mihai Glont, Tung V N Nguyen, Krishna Tiwari, Matthew G Roberts, Ashley Xavier, Manh T Vu, Jinghao Men, Matthieu Maire, Sarubini Kananathan, Emma L Fairbanks, Johannes P Meyer, Chinmay Arankalle, Thawfeek M Varusai, Vincent Knight-Schrijver, Lu Li, Corina Dueñas-Roca, Gaurhari Dass, Sarah M Keating, Young M Park, Nicola Buso, Nicolas Rodriguez, Michael Hucka, and Henning Hermjakob
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Nucl. Acids Res. 2020
- Mihai Glont, Tung V N Nguyen, Martin Graesslin, Robert Hälke, Raza Ali, Jochen Schramm, Sarala M Wimalaratne, Varun B Kothamachu, Nicolas Rodriguez, Maciej J Swat, Jurgen Eils, Roland Eils, Camille Laibe, Rahuman S Malik-Sheriff, Vijayalakshmi Chelliah, Nicolas Le Novère, and Henning Hermjakob
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Nucl. Acids Res. 2018
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Acknowledgements
- BioModels is supported by the European Molecular Biology Laboratory, the Biotechnology and Biological Sciences Research Council (Multimod, BB/N019482/1) and the Innovative Medicines Initiative (TransQST, 116030).
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