Literature DB >> 18256726

A robust structural PGN model for control of cell-cycle progression stabilized by negative feedbacks.

Nestor Walter Trepode1, Hugo Aguirre Armelin, Michael Bittner, Junior Barrera, Marco Dimas Gubitoso, Ronaldo Fumio Hashimoto.   

Abstract

The cell division cycle comprises a sequence of phenomena controlled by a stable and robust genetic network. We applied a probabilistic genetic network (PGN) to construct a hypothetical model with a dynamical behavior displaying the degree of robustness typical of the biological cell cycle. The structure of our PGN model was inspired in well-established biological facts such as the existence of integrator subsystems, negative and positive feedback loops, and redundant signaling pathways. Our model represents genes interactions as stochastic processes and presents strong robustness in the presence of moderate noise and parameters fluctuations. A recently published deterministic yeast cell-cycle model does not perform as well as our PGN model, even upon moderate noise conditions. In addition, self stimulatory mechanisms can give our PGN model the possibility of having a pacemaker activity similar to the observed in the oscillatory embryonic cell cycle.

Entities:  

Year:  2007        PMID: 18256726      PMCID: PMC3171351          DOI: 10.1155/2007/73109

Source DB:  PubMed          Journal:  EURASIP J Bioinform Syst Biol        ISSN: 1687-4145


  10 in total

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Authors:  N Friedman; M Linial; I Nachman; D Pe'er
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Review 2.  Network dynamics and cell physiology.

Authors:  J J Tyson; K Chen; B Novak
Journal:  Nat Rev Mol Cell Biol       Date:  2001-12       Impact factor: 94.444

Review 3.  Modeling and simulation of genetic regulatory systems: a literature review.

Authors:  Hidde de Jong
Journal:  J Comput Biol       Date:  2002       Impact factor: 1.479

4.  Probabilistic Boolean Networks: a rule-based uncertainty model for gene regulatory networks.

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Journal:  Bioinformatics       Date:  2002-02       Impact factor: 6.937

5.  Integrative analysis of cell cycle control in budding yeast.

Authors:  Katherine C Chen; Laurence Calzone; Attila Csikasz-Nagy; Frederick R Cross; Bela Novak; John J Tyson
Journal:  Mol Biol Cell       Date:  2004-05-28       Impact factor: 4.138

6.  The yeast cell-cycle network is robustly designed.

Authors:  Fangting Li; Tao Long; Ying Lu; Qi Ouyang; Chao Tang
Journal:  Proc Natl Acad Sci U S A       Date:  2004-03-22       Impact factor: 11.205

7.  A nonlinear discrete dynamical model for transcriptional regulation: construction and properties.

Authors:  John Goutsias; Seungchan Kim
Journal:  Biophys J       Date:  2004-04       Impact factor: 4.033

8.  Systems-level dissection of the cell-cycle oscillator: bypassing positive feedback produces damped oscillations.

Authors:  Joseph R Pomerening; Sun Young Kim; James E Ferrell
Journal:  Cell       Date:  2005-08-26       Impact factor: 41.582

9.  Systems biology. Less is more in modeling large genetic networks.

Authors:  Stefan Bornholdt
Journal:  Science       Date:  2005-10-21       Impact factor: 47.728

10.  Comprehensive identification of cell cycle-regulated genes of the yeast Saccharomyces cerevisiae by microarray hybridization.

Authors:  P T Spellman; G Sherlock; M Q Zhang; V R Iyer; K Anders; M B Eisen; P O Brown; D Botstein; B Futcher
Journal:  Mol Biol Cell       Date:  1998-12       Impact factor: 4.138

  10 in total
  1 in total

1.  A New Approach for Identification of Cancer-related Pathways using Protein Networks and Genomic Data.

Authors:  André Fonseca; Marco D Gubitoso; Marcelo S Reis; Sandro J de Souza; Junior Barrera
Journal:  Cancer Inform       Date:  2016-05-02
  1 in total

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