Literature DB >> 27902489

Effects of cell cycle noise on excitable gene circuits.

Alan Veliz-Cuba1, Chinmaya Gupta, Matthew R Bennett, Krešimir Josić, William Ott.   

Abstract

We assess the impact of cell cycle noise on gene circuit dynamics. For bistable genetic switches and excitable circuits, we find that transitions between metastable states most likely occur just after cell division and that this concentration effect intensifies in the presence of transcriptional delay. We explain this concentration effect with a three-states stochastic model. For genetic oscillators, we quantify the temporal correlations between daughter cells induced by cell division. Temporal correlations must be captured properly in order to accurately quantify noise sources within gene networks.

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Year:  2016        PMID: 27902489      PMCID: PMC5498228          DOI: 10.1088/1478-3975/13/6/066007

Source DB:  PubMed          Journal:  Phys Biol        ISSN: 1478-3967            Impact factor:   2.583


  50 in total

1.  Stochasticity in transcriptional regulation: origins, consequences, and mathematical representations.

Authors:  T B Kepler; T C Elston
Journal:  Biophys J       Date:  2001-12       Impact factor: 4.033

2.  Regulation of noise in the expression of a single gene.

Authors:  Ertugrul M Ozbudak; Mukund Thattai; Iren Kurtser; Alan D Grossman; Alexander van Oudenaarden
Journal:  Nat Genet       Date:  2002-04-22       Impact factor: 38.330

3.  Delay-induced stochastic oscillations in gene regulation.

Authors:  Dmitri Bratsun; Dmitri Volfson; Lev S Tsimring; Jeff Hasty
Journal:  Proc Natl Acad Sci U S A       Date:  2005-09-30       Impact factor: 11.205

4.  Contributions of low molecule number and chromosomal positioning to stochastic gene expression.

Authors:  Attila Becskei; Benjamin B Kaufmann; Alexander van Oudenaarden
Journal:  Nat Genet       Date:  2005-08-07       Impact factor: 38.330

5.  Noise in gene expression determines cell fate in Bacillus subtilis.

Authors:  Hédia Maamar; Arjun Raj; David Dubnau
Journal:  Science       Date:  2007-06-14       Impact factor: 47.728

6.  Architecture-dependent noise discriminates functionally analogous differentiation circuits.

Authors:  Tolga Cağatay; Marc Turcotte; Michael B Elowitz; Jordi Garcia-Ojalvo; Gürol M Süel
Journal:  Cell       Date:  2009-10-22       Impact factor: 41.582

7.  Noise-induced switching and extinction in systems with delay.

Authors:  Ira B Schwartz; Lora Billings; Thomas W Carr; M I Dykman
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2015-01-26

8.  Delay-induced degrade-and-fire oscillations in small genetic circuits.

Authors:  William Mather; Matthew R Bennett; Jeff Hasty; Lev S Tsimring
Journal:  Phys Rev Lett       Date:  2009-02-13       Impact factor: 9.161

9.  Sources of Variability in a Synthetic Gene Oscillator.

Authors:  Alan Veliz-Cuba; Andrew J Hirning; Adam A Atanas; Faiza Hussain; Flavia Vancia; Krešimir Josić; Matthew R Bennett
Journal:  PLoS Comput Biol       Date:  2015-12-22       Impact factor: 4.475

10.  A fast, robust and tunable synthetic gene oscillator.

Authors:  Jesse Stricker; Scott Cookson; Matthew R Bennett; William H Mather; Lev S Tsimring; Jeff Hasty
Journal:  Nature       Date:  2008-10-29       Impact factor: 49.962

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  3 in total

1.  Bistability and oscillations in co-repressive synthetic microbial consortia.

Authors:  Mehdi Sadeghpour; Alan Veliz-Cuba; Gábor Orosz; Krešimir Josić; Matthew R Bennett
Journal:  Quant Biol       Date:  2017-03-30

2.  Circuit-Host Coupling Induces Multifaceted Behavioral Modulations of a Gene Switch.

Authors:  Andrew E Blanchard; Chen Liao; Ting Lu
Journal:  Biophys J       Date:  2018-02-06       Impact factor: 4.033

3.  Genetic toggle switch controlled by bacterial growth rate.

Authors:  Joanna Jaruszewicz-Błońska; Tomasz Lipniacki
Journal:  BMC Syst Biol       Date:  2017-12-02
  3 in total

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