BioModels—15 years of sharing computational models in life science
| Autor: | Manh Tu Vu, Ashley Xavier, Sarubini Kananathan, Krishna Tiwari, Michael Hucka, Matthieu Maire, Johannes P Meyer, Thawfeek M. Varusai, Emma L Fairbanks, Vincent Knight-Schrijver, Tung V N Nguyen, Matthew G Roberts, Gaurhari Dass, Lu Li, Rahuman S Malik-Sheriff, Nicolas Rodriguez, Henning Hermjakob, Nicola Buso, Chinmay Arankalle, Mihai Glont, Corina Dueñas-Roca, Youngmi Park, Jinghao Men, Sarah M. Keating |
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| Rok vydání: | 2019 |
| Předmět: |
Biology
Models Biological Biological Science Disciplines User-Computer Interface 03 medical and health sciences Annotation 0302 clinical medicine Software Controlled vocabulary Genetics Database Issue SBML 030304 developmental biology computer.programming_language 0303 health sciences Computational model Information retrieval Conflict of Interest business.industry CellML Python (programming language) Science research Programming Languages business computer 030217 neurology & neurosurgery |
| Zdroj: | Nucleic Acids Research |
| ISSN: | 1362-4962 0305-1048 |
| Popis: | Computational modelling has become increasingly common in life science research. To provide a platform to support universal sharing, easy accessibility and model reproducibility, BioModels (https://www.ebi.ac.uk/biomodels/), a repository for mathematical models, was established in 2005. The current BioModels platform allows submission of models encoded in diverse modelling formats, including SBML, CellML, PharmML, COMBINE archive, MATLAB, Mathematica, R, Python or C++. The models submitted to BioModels are curated to verify the computational representation of the biological process and the reproducibility of the simulation results in the reference publication. The curation also involves encoding models in standard formats and annotation with controlled vocabularies following MIRIAM (minimal information required in the annotation of biochemical models) guidelines. BioModels now accepts large-scale submission of auto-generated computational models. With gradual growth in content over 15 years, BioModels currently hosts about 2000 models from the published literature. With about 800 curated models, BioModels has become the world’s largest repository of curated models and emerged as the third most used data resource after PubMed and Google Scholar among the scientists who use modelling in their research. Thus, BioModels benefits modellers by providing access to reliable and semantically enriched curated models in standard formats that are easy to share, reproduce and reuse. |
| Databáze: | OpenAIRE |
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