December, 2021
Zake2021 - PBPK model of metformin in mice and humans
Model(s) associated with this Model of the Month: BIOMD0000001027 BIOMD0000001029 BIOMD0000001039 BIOMD0000001028
Last updated by: Krishna Kumar Tiwari
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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Recently published
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Nassar2022 - Microbiome ecoregion NER model
Submitter: Maaly Nassar | Published date: 2023-09-15Publication: A machine learning framework for discovery and enrichment of metagenomics metadata from open access publications., GigaScience (2022) -
Sammut2022 - Multi-omic machine learning model to predict pathological complete response for breast cancer neoadjuvant therapy
Submitter: Divyang Deep Tiwari | Published date: 2023-08-28Publication: Multi-omic machine learning predictor of breast cancer therapy response., Nature (2022) -
Miyazawa2010 - changing turing patterns by spatial parameter sweep
Submitter: Robert Mueller | Published date: 2023-09-07Publication: Blending of animal colour patterns by hybridization., Nature communications (2010) -
Konrath2023_genotoxic_stress_induced_IKK_NFkB_signaling
Submitter: Fabian Konrath | Published date: 2023-09-21Publication: A computational model of the DNA damage-induced IKK/ NF-κB pathway reveals a critical dependence on irradiation dose and PARP-1, bioarxiv (2023) -
Nassar2022 - Microbiome body-site NER model
Submitter: Maaly Nassar | Published date: 2023-09-13Publication: A machine learning framework for discovery and enrichment of metagenomics metadata from open access publications., GigaScience (2022) -
Gall&Pin2022 - ODE model of the intestinal epithelium
Submitter: Louis Gall | Published date: 2023-09-04Publication: A dynamic model of the intestinal epithelium integrates multiple sources of preclinical data and enables clinical translation of drug-induced toxicity., CPT: Pharmacometrics & Systems Pharmacology (2023) -
Nassar2022 - Microbiome site NER model
Submitter: Maaly Nassar | Published date: 2023-09-15Publication: A machine learning framework for discovery and enrichment of metagenomics metadata from open access publications., GigaScience (2022)
Recently accessed
- Novak1997 - Cell Cycle
- Brännmark2013 - Insulin signalling in human adipocytes (normal condition)
- Talemi2014 - Arsenic toxicity and detoxification mechanisms in yeast
- Haffez2017 - RAR interaction with synthetic analogues
- Stortelder1997 - Thrombin Generation Amidolytic Activity
- Bungay2003_Thrombin_Generation
- Hettling2011_CreatineKinase
News
- 10/03/2022: Freely create a reviewer account for your models
- 27/02/2021: Reproducibility in Systems Biology Modelling manuscript published
- 23/07/2020: Retirement party for the classic BioModels website
- 19/06/2020: New updates for Release 5.1.9
- 10/06/2020: New updates for Release 5.1.8
- 05/06/2020: BioModels Parameters Manuscript accepted
- 17/01/2020: Planned maintenance
- 12/06/2018: Planned upgrades to BioModels
- 21/08/2017: Patient-derived genome-scale metabolic models
- 26/06/2017: 31st release of BioModels
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
Documentation
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BioModels provides online courses, please consult more information.
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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