BioModels Parameters: a treasure trove of parameter values from published systems biology models

• DOI: 10.1093/bioinformatics/btaa560
• Publication Date: 2020-06-15T19:11:41Z
• Authors: Mihai Glont; Chinmay Arankalle; Krishna Tiwari; Tung V N Nguyen; Henning Hermjakob; Rahuman S Malik-S...
• Keywords: Identification; SBML

One of the major bottlenecks in building systems biology models is identification and estimation model parameters for calibration. Searching from published literature an essential, yet laborious task.We have developed a new service, BioModels Parameters, to facilitate search retrieval parameter values Systems Biology Markup Language stored BioModels. Modellers can now directly entity (e.g. protein or drug) retrieve rate equations describing it; associated degradation rate, production Kcat, Michaelis-Menten constant, etc.) initial concentrations. Currently, Parameters contains entries over 84,000 reactions 60 different taxa with cross-references. The retrieved be used scanning ranges, fitting extension. Thus, will valuable service modellers.The data are accessible via web interface API. free use publicly available at https://www.ebi.ac.uk/biomodels/parameterSearch.Supplementary Bioinformatics online.