Literature DB >> 17042647

Exact results for noise power spectra in linear biochemical reaction networks.

Patrick B Warren1, Sorin Tănase-Nicola, Pieter Rein ten Wolde.   

Abstract

We present a simple method for determining the exact noise power spectra and related statistical properties for linear chemical reaction networks. The method is applied to reaction networks which are representative of biochemical processes such as gene expression. We find, for example, that a post-translational modification reaction can reduce the noise associated with gene expression. Our results also indicate how to coarse grain networks by the elimination of fast reactions. In this context we have discovered a breakdown of the sum rule which relates the noise power spectrum to the total noise. The breakdown can be quantified by a sum rule deficit, which is found to be universal, and can be attributed to the high-frequency noise in the fast reactions.

Mesh:

Year:  2006        PMID: 17042647     DOI: 10.1063/1.2356472

Source DB:  PubMed          Journal:  J Chem Phys        ISSN: 0021-9606            Impact factor:   3.488


  15 in total

1.  Diffusion of transcription factors can drastically enhance the noise in gene expression.

Authors:  Jeroen S van Zon; Marco J Morelli; Sorin Tănase-Nicola; Pieter Rein ten Wolde
Journal:  Biophys J       Date:  2006-09-29       Impact factor: 4.033

2.  Gene-gene cooperativity in small networks.

Authors:  Aleksandra M Walczak; Peter G Wolynes
Journal:  Biophys J       Date:  2009-06-03       Impact factor: 4.033

3.  Enhanced identification and exploitation of time scales for model reduction in stochastic chemical kinetics.

Authors:  Carlos A Gómez-Uribe; George C Verghese; Abraham R Tzafriri
Journal:  J Chem Phys       Date:  2008-12-28       Impact factor: 3.488

4.  On a theory of stability for nonlinear stochastic chemical reaction networks.

Authors:  Patrick Smadbeck; Yiannis N Kaznessis
Journal:  J Chem Phys       Date:  2015-05-14       Impact factor: 3.488

5.  Stochastic oscillations induced by intrinsic fluctuations in a self-repressing gene.

Authors:  Jingkui Wang; Marc Lefranc; Quentin Thommen
Journal:  Biophys J       Date:  2014-11-18       Impact factor: 4.033

6.  An effective method for computing the noise in biochemical networks.

Authors:  Jiajun Zhang; Qing Nie; Miao He; Tianshou Zhou
Journal:  J Chem Phys       Date:  2013-02-28       Impact factor: 3.488

7.  Statistics of Nascent and Mature RNA Fluctuations in a Stochastic Model of Transcriptional Initiation, Elongation, Pausing, and Termination.

Authors:  Tatiana Filatova; Nikola Popovic; Ramon Grima
Journal:  Bull Math Biol       Date:  2020-12-22       Impact factor: 1.758

8.  Computational study of noise in a large signal transduction network.

Authors:  Jukka Intosalmi; Tiina Manninen; Keijo Ruohonen; Marja-Leena Linne
Journal:  BMC Bioinformatics       Date:  2011-06-21       Impact factor: 3.169

9.  On the spontaneous stochastic dynamics of a single gene: complexity of the molecular interplay at the promoter.

Authors:  Antoine Coulon; Olivier Gandrillon; Guillaume Beslon
Journal:  BMC Syst Biol       Date:  2010-01-08

10.  Hybrid stochastic simplifications for multiscale gene networks.

Authors:  Alina Crudu; Arnaud Debussche; Ovidiu Radulescu
Journal:  BMC Syst Biol       Date:  2009-09-07
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