The response to different kinds of perturbations of a discrete model of gene regulatory network, which is a generalization of the random Boolean network (RBN) model, is discussed. The model includes memory effects, and the analysis pays particular attention to the influence on the system stability of a parameter (i.e., the decay time of the gene products) that determines the duration of the memory effects. It is shown that this parameter deeply affects the overall behavior of the system, with special regard to the dynamical regimes and the sensitivity. Furthermore, a noteworthy divergence in the response of systems characterized by different memory lengths in the presence of either temporary or permanent damages is highlighted, as is the substantial difference, with respect to classical RBNs, between the specific dynamical regime and the landscape of the attractors. © 2011 Mary Ann Liebert, Inc.

Graudenzi, A., Serra, R., Villani, M., Colacci, A., Kauffman, S. (2011). Robustness analysis of a boolean model of gene regulatory network with memory. JOURNAL OF COMPUTATIONAL BIOLOGY, 18(4), 559-577 [10.1089/cmb.2010.0224].

Robustness analysis of a boolean model of gene regulatory network with memory

GRAUDENZI, ALEX
;
2011

Abstract

The response to different kinds of perturbations of a discrete model of gene regulatory network, which is a generalization of the random Boolean network (RBN) model, is discussed. The model includes memory effects, and the analysis pays particular attention to the influence on the system stability of a parameter (i.e., the decay time of the gene products) that determines the duration of the memory effects. It is shown that this parameter deeply affects the overall behavior of the system, with special regard to the dynamical regimes and the sensitivity. Furthermore, a noteworthy divergence in the response of systems characterized by different memory lengths in the presence of either temporary or permanent damages is highlighted, as is the substantial difference, with respect to classical RBNs, between the specific dynamical regime and the landscape of the attractors. © 2011 Mary Ann Liebert, Inc.
Articolo in rivista - Articolo scientifico
automata; gene networks; time discrete dynamical systems; Animals; Computer Simulation; Humans; Gene Regulatory Networks; Models, Genetic; Molecular Biology; Genetics; Computational Mathematics; Modeling and Simulation; Computational Theory and Mathematics
English
559
577
19
Graudenzi, A., Serra, R., Villani, M., Colacci, A., Kauffman, S. (2011). Robustness analysis of a boolean model of gene regulatory network with memory. JOURNAL OF COMPUTATIONAL BIOLOGY, 18(4), 559-577 [10.1089/cmb.2010.0224].
File in questo prodotto:
Non ci sono file associati a questo prodotto.

I documenti in IRIS sono protetti da copyright e tutti i diritti sono riservati, salvo diversa indicazione.

Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10281/60595
Citazioni
  • Scopus 27
  • ???jsp.display-item.citation.isi??? 22
Social impact