Identifiability of Chemical Reaction Networks with Intrinsic and Extrinsic Noise from Stationary Distributions

DOI10.1137/22M1517202zbMATH Open1520.93581arXiv2109.09943OpenAlexW3200790944MaRDI QIDQ6174682FDOQ6174682

Authors: Theodore W. Grunberg, Domitilla Del Vecchio 

Publication date: 17 August 2023

Published in: SIAM Journal on Applied Dynamical Systems (Search for Journal in Brave)

Abstract: Many biological systems can be modeled as a chemical reaction network with unknown parameters. Data available to identify these parameters are often in the form of a stationary distribution, such as that obtained from measurements of a cell population. In this work, we introduce a framework for analyzing the identifiability of the reaction rate coefficients of chemical reaction networks from stationary distribution data. Working with the linear noise approximation, which is a diffusive approximation to the chemical master equation, we give a computational procedure to certify global identifiability based on Hilbert's Nullstellensatz. We present a variety of examples that show the applicability of our method to chemical reaction networks of interest in systems and synthetic biology, including discrimination between possible molecular mechanisms for the interaction between biochemical species.

Full work available at URL: https://arxiv.org/abs/2109.09943

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zbMATH Keywords

system identificationchemical reaction networksynthetic biology

Mathematics Subject Classification ID

Biochemistry, molecular biology (92C40) Systems biology, networks (92C42) Identification in stochastic control theory (93E12)

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Cited In (10)

• Identifiability from a few species for a class of biochemical reaction networks
• Learning chemical reaction networks from trajectory data
• Parameter estimation for models of chemical reaction networks from experimental data of reaction rates
• Identification of alterations in the Jacobian of biochemical reaction networks from steady state covariance data at two conditions
• On identifiability for chemical systems from measurable variables
• Reaction-diffusion systems in protein networks: global existence and identification
• Identifiability of stochastically modelled reaction networks
• Identifiability of chemical reaction networks
• An inverse problem in reaction kinetics
• Algebra, geometry and topology of ERK kinetics

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