Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity

Aurélien Desoeuvres; Gilles Trombettoni; Ovidiu Radulescu

doi:10.1007/978-3-030-60327-4_5

Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity

Aurélien Desoeuvres^*, Gilles Trombettoni, Ovidiu Radulescu

^*Corresponding author for this work

Research output: Contribution to book/anthology/report/conference proceeding › Article in proceeding › Research › peer-review

Abstract

Homeostasis occurs in a biological system when some output variable remains approximately constant as one or several input parameters change over some intervals. When the variable is exactly constant, one talks about absolute concentration robustness (ACR). A dual and equally important property is multistationarity, which means that the system has multiple steady states and possible outputs, at constant parameters. We propose a new computational method based on interval techniques to find species in biochemical systems that verify homeostasis, and a similar method for testing multistationarity. We test homeostasis, ACR and multistationarity on a large collection of biochemical models from the Biomodels and DOCSS databases. The codes used in this paper are publicly available at: https://github.com/Glawal/IbexHomeo.

Original language	English
Title of host publication	Computational Methods in Systems Biology - 18th International Conference, CMSB 2020, Proceedings
Editors	Alessandro Abate, Tatjana Petrov, Verena Wolf
Number of pages	23
Publisher	Springer
Publication date	2020
Pages	79-101
ISBN (Print)	9783030603267
DOIs	https://doi.org/10.1007/978-3-030-60327-4_5
Publication status	Published - 2020
Event	18th International Conference on Computational Methods in Systems Biology, CMSB 2020 - Konstanz, Germany Duration: 23 Sept 2020 → 25 Sept 2020

Conference

Conference	18th International Conference on Computational Methods in Systems Biology, CMSB 2020
Country/Territory	Germany
City	Konstanz
Period	23/09/2020 → 25/09/2020

Series	Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics)
Volume	12314 LNBI
ISSN	0302-9743

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© 2020, Springer Nature Switzerland AG.

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Desoeuvres, Aurélien ; Trombettoni, Gilles ; Radulescu, Ovidiu. / Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity. Computational Methods in Systems Biology - 18th International Conference, CMSB 2020, Proceedings. editor / Alessandro Abate ; Tatjana Petrov ; Verena Wolf. Springer, 2020. pp. 79-101 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Vol. 12314 LNBI).

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abstract = "Homeostasis occurs in a biological system when some output variable remains approximately constant as one or several input parameters change over some intervals. When the variable is exactly constant, one talks about absolute concentration robustness (ACR). A dual and equally important property is multistationarity, which means that the system has multiple steady states and possible outputs, at constant parameters. We propose a new computational method based on interval techniques to find species in biochemical systems that verify homeostasis, and a similar method for testing multistationarity. We test homeostasis, ACR and multistationarity on a large collection of biochemical models from the Biomodels and DOCSS databases. The codes used in this paper are publicly available at: https://github.com/Glawal/IbexHomeo.",

author = "Aur{\'e}lien Desoeuvres and Gilles Trombettoni and Ovidiu Radulescu",

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Desoeuvres, A, Trombettoni, G & Radulescu, O 2020, Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity. in A Abate, T Petrov & V Wolf (eds), Computational Methods in Systems Biology - 18th International Conference, CMSB 2020, Proceedings. Springer, Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), vol. 12314 LNBI, pp. 79-101, 18th International Conference on Computational Methods in Systems Biology, CMSB 2020, Konstanz, Germany, 23/09/2020. https://doi.org/10.1007/978-3-030-60327-4_5

Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity. / Desoeuvres, Aurélien; Trombettoni, Gilles; Radulescu, Ovidiu.
Computational Methods in Systems Biology - 18th International Conference, CMSB 2020, Proceedings. ed. / Alessandro Abate; Tatjana Petrov; Verena Wolf. Springer, 2020. p. 79-101 (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Vol. 12314 LNBI).

Research output: Contribution to book/anthology/report/conference proceeding › Article in proceeding › Research › peer-review

TY - GEN

T1 - Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity

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AB - Homeostasis occurs in a biological system when some output variable remains approximately constant as one or several input parameters change over some intervals. When the variable is exactly constant, one talks about absolute concentration robustness (ACR). A dual and equally important property is multistationarity, which means that the system has multiple steady states and possible outputs, at constant parameters. We propose a new computational method based on interval techniques to find species in biochemical systems that verify homeostasis, and a similar method for testing multistationarity. We test homeostasis, ACR and multistationarity on a large collection of biochemical models from the Biomodels and DOCSS databases. The codes used in this paper are publicly available at: https://github.com/Glawal/IbexHomeo.

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Desoeuvres A, Trombettoni G, Radulescu O. Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity. In Abate A, Petrov T, Wolf V, editors, Computational Methods in Systems Biology - 18th International Conference, CMSB 2020, Proceedings. Springer. 2020. p. 79-101. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics), Vol. 12314 LNBI). doi: 10.1007/978-3-030-60327-4_5

Interval Constraint Satisfaction and Optimization for Biological Homeostasis and Multistationarity

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