Reliable dynamics in Boolean and continuous networks

Eva Ackermann, Tiago P. Peixoto, Barbara Drossel

Research output: Contribution to journalArticle

3 Citations (Scopus)

Abstract

We investigate the dynamical behavior of a model of robust gene regulatory networks which possess ‘entirely reliable’ trajectories. In a Boolean representation, these trajectories are characterized by being insensitive to the order in which the nodes are updated, i.e. they always go through the same sequence of states. The Boolean model for gene activity is compared with a continuous description in terms of differential equations for the concentrations of mRNA and proteins. We found that entirely reliable Boolean trajectories can be reproduced perfectly in the continuous model when realistic Hill coefficients are used. We investigate to what extent this high correspondence between Boolean and continuous trajectories depends on the extent of reliability of the Boolean trajectories, and we identify simple criteria that enable the faithful reproduction of the Boolean dynamics in the continuous description.
Original languageEnglish
Article number123029
JournalNew Journal of Physics
Volume14
Issue number12
DOIs
Publication statusPublished - Dec 2012

Fingerprint

trajectories
genes
differential equations
proteins
coefficients

Cite this

Reliable dynamics in Boolean and continuous networks. / Ackermann, Eva; Peixoto, Tiago P.; Drossel, Barbara.

In: New Journal of Physics, Vol. 14, No. 12, 123029, 12.2012.

Research output: Contribution to journalArticle

Ackermann, Eva ; Peixoto, Tiago P. ; Drossel, Barbara. / Reliable dynamics in Boolean and continuous networks. In: New Journal of Physics. 2012 ; Vol. 14, No. 12.
@article{0aefb447ebd4469fba3ff8ccd07c9ccd,
title = "Reliable dynamics in Boolean and continuous networks",
abstract = "We investigate the dynamical behavior of a model of robust gene regulatory networks which possess ‘entirely reliable’ trajectories. In a Boolean representation, these trajectories are characterized by being insensitive to the order in which the nodes are updated, i.e. they always go through the same sequence of states. The Boolean model for gene activity is compared with a continuous description in terms of differential equations for the concentrations of mRNA and proteins. We found that entirely reliable Boolean trajectories can be reproduced perfectly in the continuous model when realistic Hill coefficients are used. We investigate to what extent this high correspondence between Boolean and continuous trajectories depends on the extent of reliability of the Boolean trajectories, and we identify simple criteria that enable the faithful reproduction of the Boolean dynamics in the continuous description.",
author = "Eva Ackermann and Peixoto, {Tiago P.} and Barbara Drossel",
year = "2012",
month = "12",
doi = "10.1088/1367-2630/14/12/123029",
language = "English",
volume = "14",
journal = "New Journal of Physics",
issn = "1367-2630",
publisher = "IOP Publishing",
number = "12",

}

TY - JOUR

T1 - Reliable dynamics in Boolean and continuous networks

AU - Ackermann, Eva

AU - Peixoto, Tiago P.

AU - Drossel, Barbara

PY - 2012/12

Y1 - 2012/12

N2 - We investigate the dynamical behavior of a model of robust gene regulatory networks which possess ‘entirely reliable’ trajectories. In a Boolean representation, these trajectories are characterized by being insensitive to the order in which the nodes are updated, i.e. they always go through the same sequence of states. The Boolean model for gene activity is compared with a continuous description in terms of differential equations for the concentrations of mRNA and proteins. We found that entirely reliable Boolean trajectories can be reproduced perfectly in the continuous model when realistic Hill coefficients are used. We investigate to what extent this high correspondence between Boolean and continuous trajectories depends on the extent of reliability of the Boolean trajectories, and we identify simple criteria that enable the faithful reproduction of the Boolean dynamics in the continuous description.

AB - We investigate the dynamical behavior of a model of robust gene regulatory networks which possess ‘entirely reliable’ trajectories. In a Boolean representation, these trajectories are characterized by being insensitive to the order in which the nodes are updated, i.e. they always go through the same sequence of states. The Boolean model for gene activity is compared with a continuous description in terms of differential equations for the concentrations of mRNA and proteins. We found that entirely reliable Boolean trajectories can be reproduced perfectly in the continuous model when realistic Hill coefficients are used. We investigate to what extent this high correspondence between Boolean and continuous trajectories depends on the extent of reliability of the Boolean trajectories, and we identify simple criteria that enable the faithful reproduction of the Boolean dynamics in the continuous description.

UR - http://dx.doi.org/10.1088/1367-2630/14/12/123029

UR - http://dx.doi.org/10.1088/1367-2630/14/12/123029

U2 - 10.1088/1367-2630/14/12/123029

DO - 10.1088/1367-2630/14/12/123029

M3 - Article

VL - 14

JO - New Journal of Physics

JF - New Journal of Physics

SN - 1367-2630

IS - 12

M1 - 123029

ER -