Parameter balancing: consistent parameter sets for kinetic metabolic models

Timo Lubitz (1) , Wolfram Liebermeister (2, 3)

1 Theoretische Biophysik, Institut für Biologie
2 MaIAGE - Mathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas]
3 Université Paris Saclay (COmUE)

Measured kinetic constants are key input data for metabolic models, but they are often uncertain, inconsistent, and incomplete. Parameter balancing translates such data into complete and consistent parameter sets while accounting for predefined ranges and physical constraints. Based on Bayesian regression, it determines a most plausible parameter set as well as uncertainty ranges for all model parameters. Our tools for parameter balancing support standard model and data formats and enable an easy customisation of prior distributions and constraints for biochemical constants. Modellers can balance kinetic constants, thermodynamic data, and metabolomic data to obtain thermodynamically consistent metabolic states that comply with user-defined flux directions.

Domaines: Sciences du Vivant [q-bio]

Timo Lubitz, Wolfram Liebermeister. Parameter balancing: consistent parameter sets for kinetic metabolic models. Bioinformatics, 2019, 35 (19), pp.1-2. ⟨10.1093/bioinformatics/btz129⟩. ⟨hal-02273374⟩