A simple mass-action model for the eukaryotic heat shock response and its mathematical validation

Ion Petre; Andrzej Mizera; Claire L. Hyder; Annika Meinander; Andrey Mikhailov; Richard I. Morimoto; Lea Sistonen; John E. Eriksson; Ralph Johan Back

doi:10.1007/s11047-010-9216-y

A simple mass-action model for the eukaryotic heat shock response and its mathematical validation

Ion Petre^*, Andrzej Mizera, Claire L. Hyder, Annika Meinander, Andrey Mikhailov, Richard I. Morimoto, Lea Sistonen, John E. Eriksson, Ralph Johan Back

^*Corresponding author for this work

Molecular Biosciences

Research output: Contribution to journal › Article › peer-review

52 Scopus citations

Abstract

The heat shock response is a primordial defense mechanism against cell stress and protein misfolding. It proceeds with the minimum number of mechanisms that any regulatory network must include, a stress-induced activation and a feedback regulation, and can thus be regarded as the archetype for a cellular regulatory process. We propose here a simple mechanistic model for the eukaryotic heat shock response, including its mathematical validation. Based on numerical predictions of the model and on its sensitivity analysis, we minimize the model by identifying the reactions with marginal contribution to the heat shock response. As the heat shock response is a very basic and conserved regulatory network, our analysis of the network provides a useful foundation for modeling strategies of more complex cellular processes.

Original language	English (US)
Pages (from-to)	595-612
Number of pages	18
Journal	Natural Computing
Volume	10
Issue number	1
DOIs	https://doi.org/10.1007/s11047-010-9216-y
State	Published - Mar 2011

Funding

Acknowledgments This work has been partially supported by the following grants from Academy of Finland: project 108421 (IP), project 203667 (A.Mizera), the Center of Excellence on Formal Methods in Programming (R-J.B.).

Keywords

Heat shock element
Heat shock factor
Heat shock protein
Heat shock response
Mathematical model
Regulatory network
Validation

ASJC Scopus subject areas

Computer Science Applications

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10.1007/s11047-010-9216-y

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title = "A simple mass-action model for the eukaryotic heat shock response and its mathematical validation",

abstract = "The heat shock response is a primordial defense mechanism against cell stress and protein misfolding. It proceeds with the minimum number of mechanisms that any regulatory network must include, a stress-induced activation and a feedback regulation, and can thus be regarded as the archetype for a cellular regulatory process. We propose here a simple mechanistic model for the eukaryotic heat shock response, including its mathematical validation. Based on numerical predictions of the model and on its sensitivity analysis, we minimize the model by identifying the reactions with marginal contribution to the heat shock response. As the heat shock response is a very basic and conserved regulatory network, our analysis of the network provides a useful foundation for modeling strategies of more complex cellular processes.",

keywords = "Heat shock element, Heat shock factor, Heat shock protein, Heat shock response, Mathematical model, Regulatory network, Validation",

author = "Ion Petre and Andrzej Mizera and Hyder, {Claire L.} and Annika Meinander and Andrey Mikhailov and Morimoto, {Richard I.} and Lea Sistonen and Eriksson, {John E.} and Back, {Ralph Johan}",

note = "Funding Information: Acknowledgments This work has been partially supported by the following grants from Academy of Finland: project 108421 (IP), project 203667 (A.Mizera), the Center of Excellence on Formal Methods in Programming (R-J.B.).",

year = "2011",

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AU - Petre, Ion

AU - Mizera, Andrzej

AU - Hyder, Claire L.

AU - Meinander, Annika

AU - Mikhailov, Andrey

AU - Morimoto, Richard I.

AU - Sistonen, Lea

AU - Eriksson, John E.

AU - Back, Ralph Johan

N1 - Funding Information: Acknowledgments This work has been partially supported by the following grants from Academy of Finland: project 108421 (IP), project 203667 (A.Mizera), the Center of Excellence on Formal Methods in Programming (R-J.B.).

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AB - The heat shock response is a primordial defense mechanism against cell stress and protein misfolding. It proceeds with the minimum number of mechanisms that any regulatory network must include, a stress-induced activation and a feedback regulation, and can thus be regarded as the archetype for a cellular regulatory process. We propose here a simple mechanistic model for the eukaryotic heat shock response, including its mathematical validation. Based on numerical predictions of the model and on its sensitivity analysis, we minimize the model by identifying the reactions with marginal contribution to the heat shock response. As the heat shock response is a very basic and conserved regulatory network, our analysis of the network provides a useful foundation for modeling strategies of more complex cellular processes.

KW - Heat shock element

KW - Heat shock factor

KW - Heat shock protein

KW - Heat shock response

KW - Mathematical model

KW - Regulatory network

KW - Validation

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A simple mass-action model for the eukaryotic heat shock response and its mathematical validation

Abstract

Funding

Keywords

ASJC Scopus subject areas

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