Literature DB >> 18353986

Transcriptional control of noise in gene expression.

Alvaro Sánchez1, Jané Kondev.   

Abstract

Cis-regulatory control of transcription is the dominant form of regulation of gene expression. Recent experimental results suggest that, in addition to the mean expression level, cell-to-cell variability might also be transcriptionally regulated. Here, we develop a stochastic model of transcriptional regulation that allows us to calculate closed-form analytical expressions for the mean and variance of the protein and mRNA distributions for an arbitrarily complex cis-regulatory motif. Our model allows us to investigate how noise may be transcriptionally regulated independently from the mean expression. We show that our approach is in excellent agreement with stochastic simulations and experiment, and leads to an experimentally testable formula for the noise in gene expression as a function of inducer-molecule concentrations.

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Year:  2008        PMID: 18353986      PMCID: PMC2278180          DOI: 10.1073/pnas.0707904105

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN: 0027-8424            Impact factor:   11.205


  31 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.  DNA looping and physical constraints on transcription regulation.

Authors:  José M G Vilar; Stanislas Leibler
Journal:  J Mol Biol       Date:  2003-08-29       Impact factor: 5.469

4.  Intrinsic and extrinsic contributions to stochasticity in gene expression.

Authors:  Peter S Swain; Michael B Elowitz; Eric D Siggia
Journal:  Proc Natl Acad Sci U S A       Date:  2002-09-17       Impact factor: 11.205

5.  Control of stochasticity in eukaryotic gene expression.

Authors:  Jonathan M Raser; Erin K O'Shea
Journal:  Science       Date:  2004-05-27       Impact factor: 47.728

Review 6.  DNA looping in gene regulation: from the assembly of macromolecular complexes to the control of transcriptional noise.

Authors:  Jose M G Vilar; Leonor Saiz
Journal:  Curr Opin Genet Dev       Date:  2005-04       Impact factor: 5.578

7.  Dynamics and intrinsic statistical fluctuations of a gene switch.

Authors:  David Lepzelter; Keun-Young Kim; Jin Wang
Journal:  J Phys Chem B       Date:  2007-08-04       Impact factor: 2.991

8.  A model for the statistical fluctuations of protein numbers in a microbial population.

Authors:  O G Berg
Journal:  J Theor Biol       Date:  1978-04-20       Impact factor: 2.691

9.  The OR control system of bacteriophage lambda. A physical-chemical model for gene regulation.

Authors:  M A Shea; G K Ackers
Journal:  J Mol Biol       Date:  1985-01-20       Impact factor: 5.469

10.  Detailed map of a cis-regulatory input function.

Authors:  Y Setty; A E Mayo; M G Surette; U Alon
Journal:  Proc Natl Acad Sci U S A       Date:  2003-06-12       Impact factor: 11.205

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  55 in total

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Authors:  Enrique Hernández-Lemus
Journal:  J Biol Phys       Date:  2011-02-11       Impact factor: 1.365

2.  Analytical distribution and tunability of noise in a model of promoter progress.

Authors:  Jiajun Zhang; Luonan Chen; Tianshou Zhou
Journal:  Biophys J       Date:  2012-03-20       Impact factor: 4.033

3.  Maximum Caliber Can Build and Infer Models of Oscillation in a Three-Gene Feedback Network.

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Journal:  J Phys Chem B       Date:  2019-01-09       Impact factor: 2.991

4.  Signatures of combinatorial regulation in intrinsic biological noise.

Authors:  Aryeh Warmflash; Aaron R Dinner
Journal:  Proc Natl Acad Sci U S A       Date:  2008-11-03       Impact factor: 11.205

Review 5.  Analytic approaches to stochastic gene expression in multicellular systems.

Authors:  Alistair Nicol Boettiger
Journal:  Biophys J       Date:  2013-12-17       Impact factor: 4.033

6.  Combinatorial Gene Regulation through Kinetic Control of the Transcription Cycle.

Authors:  Clarissa Scholes; Angela H DePace; Álvaro Sánchez
Journal:  Cell Syst       Date:  2016-12-29       Impact factor: 10.304

7.  Modeling the effect of transcriptional noise on switching in gene networks in a genetic bistable switch.

Authors:  Srabanti Chaudhury
Journal:  J Biol Phys       Date:  2015-03-01       Impact factor: 1.365

8.  Diverse Spatial Expression Patterns Emerge from Unified Kinetics of Transcriptional Bursting.

Authors:  Benjamin Zoller; Shawn C Little; Thomas Gregor
Journal:  Cell       Date:  2018-10-18       Impact factor: 41.582

Review 9.  Regulation by transcription factors in bacteria: beyond description.

Authors:  Enrique Balleza; Lucia N López-Bojorquez; Agustino Martínez-Antonio; Osbaldo Resendis-Antonio; Irma Lozada-Chávez; Yalbi I Balderas-Martínez; Sergio Encarnación; Julio Collado-Vides
Journal:  FEMS Microbiol Rev       Date:  2009-01       Impact factor: 16.408

10.  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
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