Repository logo

Infoscience

  • English
  • French
Log In
Logo EPFL, École polytechnique fédérale de Lausanne

Infoscience

  • English
  • French
Log In
  1. Home
  2. Academic and Research Output
  3. Journal articles
  4. Representing perturbed dynamics in biological network models
 
research article

Representing perturbed dynamics in biological network models

Stoll, Gautier
•
Rougemont, Jacques
•
Naef, Felix  
2007
Physical Review E

We study the dynamics of gene activities in relatively small size biological networks (up to a few tens of nodes), e.g., the activities of cell-cycle proteins during the mitotic cell-cycle progression. Using the framework of deterministic discrete dynamical models, we characterize the dynamical modifications in response to structural perturbations in the network connectivities. In particular, we focus on how perturbations affect the set of fixed points and sizes of the basins of attraction. Our approach uses two analytical measures: the basin entropy H and the perturbation size Delta , a quantity that reflects the distance between the set of fixed points of the perturbed network and that of the unperturbed network. Applying our approach to the yeast-cell-cycle network introduced by Li [Proc. Natl. Acad. Sci. U.S.A. 101, 4781 (2004)] provides a low-dimensional and informative fingerprint of network behavior under large classes of perturbations. We identify interactions that are crucial for proper network function, and also pinpoint functionally redundant network connections. Selected perturbations exemplify the breadth of dynamical responses in this cell-cycle model.

  • Details
  • Metrics
Type
research article
DOI
10.1103/PhysRevE.76.011917
Web of Science ID

WOS:000248548900109

Author(s)
Stoll, Gautier
Rougemont, Jacques
Naef, Felix  
Date Issued

2007

Publisher

American Physical Society

Published in
Physical Review E
Volume

76

Issue

1 Pt 1

Article Number

011917

Subjects

Models, Biological

Editorial or Peer reviewed

REVIEWED

Written at

EPFL

EPFL units
UPNAE  
Available on Infoscience
November 1, 2010
Use this identifier to reference this record
https://infoscience.epfl.ch/handle/20.500.14299/56537
Logo EPFL, École polytechnique fédérale de Lausanne
  • Contact
  • infoscience@epfl.ch

  • Follow us on Facebook
  • Follow us on Instagram
  • Follow us on LinkedIn
  • Follow us on X
  • Follow us on Youtube
AccessibilityLegal noticePrivacy policyCookie settingsEnd User AgreementGet helpFeedback

Infoscience is a service managed and provided by the Library and IT Services of EPFL. © EPFL, tous droits réservés