PEtab-Interoperable specification of parameter estimation problems in systems biology.
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ABSTRACT:
SUBMITTER: Schmiester L
PROVIDER: S-EPMC7864467 | biostudies-literature | 2021 Jan
REPOSITORIES: biostudies-literature
Publications
PEtab-Interoperable specification of parameter estimation problems in systems biology.
Schmiester Leonard L Schälte Yannik Y Bergmann Frank T FT Camba Tacio T Dudkin Erika E Egert Janine J Fröhlich Fabian F Fuhrmann Lara L Hauber Adrian L AL Kemmer Svenja S Lakrisenko Polina P Loos Carolin C Merkt Simon S Müller Wolfgang W Pathirana Dilan D Raimúndez Elba E Refisch Lukas L Rosenblatt Marcus M Stapor Paul L PL Städter Philipp P Wang Dantong D Wieland Franz-Georg FG Banga Julio R JR Timmer Jens J Villaverde Alejandro F AF Sahle Sven S Kreutz Clemens C Hasenauer Jan J Weindl Daniel D
PLoS computational biology 20210126 1
Reproducibility and reusability of the results of data-based modeling studies are essential. Yet, there has been-so far-no broadly supported format for the specification of parameter estimation problems in systems biology. Here, we introduce PEtab, a format which facilitates the specification of parameter estimation problems using Systems Biology Markup Language (SBML) models and a set of tab-separated value files describing the observation model and experimental data as well as parameters to be ...[more]
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