Literature DB >> 17155441

Linking stochastic dynamics to population distribution: an analytical framework of gene expression.

Nir Friedman1, Long Cai, X Sunney Xie.   

Abstract

We present an analytical framework describing the steady-state distribution of protein concentration in live cells, considering that protein production occurs in random bursts with an exponentially distributed number of molecules. We extend this framework for cases of transcription autoregulation and noise propagation in a simple genetic network. This model allows for the extraction of kinetic parameters of gene expression from steady-state distributions of protein concentration in a cell population, which are available from single cell data obtained by flow cytometry or fluorescence microscopy.

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Year:  2006        PMID: 17155441     DOI: 10.1103/PhysRevLett.97.168302

Source DB:  PubMed          Journal:  Phys Rev Lett        ISSN: 0031-9007            Impact factor:   9.161


  212 in total

1.  Reconciling molecular regulatory mechanisms with noise patterns of bacterial metabolic promoters in induced and repressed states.

Authors:  Matthew L Ferguson; Dominique Le Coq; Matthieu Jules; Stéphane Aymerich; Ovidiu Radulescu; Nathalie Declerck; Catherine A Royer
Journal:  Proc Natl Acad Sci U S A       Date:  2011-12-21       Impact factor: 11.205

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.  Multiscale stochastic modelling of gene expression.

Authors:  Pavol Bokes; John R King; Andrew T A Wood; Matthew Loose
Journal:  J Math Biol       Date:  2011-10-07       Impact factor: 2.259

4.  Stochastic branching-diffusion models for gene expression.

Authors:  David Cottrell; Peter S Swain; Paul F Tupper
Journal:  Proc Natl Acad Sci U S A       Date:  2012-06-01       Impact factor: 11.205

5.  Manipulating nucleosome disfavoring sequences allows fine-tune regulation of gene expression in yeast.

Authors:  Tali Raveh-Sadka; Michal Levo; Uri Shabi; Boaz Shany; Leeat Keren; Maya Lotan-Pompan; Danny Zeevi; Eilon Sharon; Adina Weinberger; Eran Segal
Journal:  Nat Genet       Date:  2012-05-27       Impact factor: 38.330

6.  Measurement of the copy number of the master quorum-sensing regulator of a bacterial cell.

Authors:  Shu-Wen Teng; Yufang Wang; Kimberly C Tu; Tao Long; Pankaj Mehta; Ned S Wingreen; Bonnie L Bassler; N P Ong
Journal:  Biophys J       Date:  2010-05-19       Impact factor: 4.033

7.  Using a single fluorescent reporter gene to infer half-life of extrinsic noise and other parameters of gene expression.

Authors:  Michał Komorowski; Bärbel Finkenstädt; David Rand
Journal:  Biophys J       Date:  2010-06-16       Impact factor: 4.033

8.  Bimodal gene expression in noncooperative regulatory systems.

Authors:  Anna Ochab-Marcinek; Marcin Tabaka
Journal:  Proc Natl Acad Sci U S A       Date:  2010-12-06       Impact factor: 11.205

9.  Evaluating the Drosophila Bicoid morphogen gradient system through dissecting the noise in transcriptional bursts.

Authors:  Feng He; Jie Ren; Wei Wang; Jun Ma
Journal:  Bioinformatics       Date:  2012-02-02       Impact factor: 6.937

Review 10.  Nature, nurture, or chance: stochastic gene expression and its consequences.

Authors:  Arjun Raj; Alexander van Oudenaarden
Journal:  Cell       Date:  2008-10-17       Impact factor: 41.582

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