P2011, U2019 and U2020 models and modelling resources

Collection of models used in the introduction of absolute units into A. thaliana circadian clock models, with software resources and documentation. The models are inspired by P2011, published in Pokhilko et al 2012. The study contains Assays that link to the P2011 starting model and the models U2019.1 - .3 and U2020.1 - .3. Each model is shared as a human-readable file in the Antimony language and the associated, machine-readable SBML file, which was automatically generated using the SBML export routine of Tellurium software. The full computational environment for parameter fitting, using custom costing in SloppyCell, is shared as a Docker image. SBML files were verified using COPASI 4.24 (Build 197) software. The full process is described in Urquiza and Millar, In Silico Plants, 2021. The publication will be linked to the live version of this Investigation but cannot be linked to the Snapshot as no DOI had been assigned when the Snapshot DOI had to be generated.

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Created: 19th Dec 2019 at 22:19

Last updated: 31st Jul 2021 at 22:35

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