Literature DB >> 17872959

Target-specific and global effectors in gene regulation by MicroRNA.

Erel Levine1, Eshel Ben Jacob, Herbert Levine.   

Abstract

MicroRNAs are responsible for post-transcriptional gene silencing as part of critical cellular pathways and intercellular coordination, for example during embryonic development. Yet, the basic mechanism by which this silencing is accomplished is still not understood. For example, it is not known to what extent and through what process does the suppression of protein accumulation accompany a reduction in mRNA level. Here we present a simple quantitative modeling approach to microRNA mediated silencing. We show how differential responses of the mRNA- and protein levels may be tuned by target-specific parameters and how global effectors may alter this behavior for some-but not all-miRNA targets in the cell.

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Year:  2007        PMID: 17872959      PMCID: PMC2084254          DOI: 10.1529/biophysj.107.118448

Source DB:  PubMed          Journal:  Biophys J        ISSN: 0006-3495            Impact factor:   4.033


  18 in total

Review 1.  MicroRNAs: genomics, biogenesis, mechanism, and function.

Authors:  David P Bartel
Journal:  Cell       Date:  2004-01-23       Impact factor: 41.582

2.  Specificity of microRNA target selection in translational repression.

Authors:  John G Doench; Phillip A Sharp
Journal:  Genes Dev       Date:  2004-03-10       Impact factor: 11.361

3.  Regulation by let-7 and lin-4 miRNAs results in target mRNA degradation.

Authors:  Shveta Bagga; John Bracht; Shaun Hunter; Katlin Massirer; Janette Holtz; Rachel Eachus; Amy E Pasquinelli
Journal:  Cell       Date:  2005-08-26       Impact factor: 41.582

Review 4.  Ribo-gnome: the big world of small RNAs.

Authors:  Phillip D Zamore; Benjamin Haley
Journal:  Science       Date:  2005-09-02       Impact factor: 47.728

5.  MicroRNA-dependent localization of targeted mRNAs to mammalian P-bodies.

Authors:  Jidong Liu; Marco Antonio Valencia-Sanchez; Gregory J Hannon; Roy Parker
Journal:  Nat Cell Biol       Date:  2005-06-05       Impact factor: 28.824

Review 6.  How do microRNAs regulate gene expression?

Authors:  Richard J Jackson; Nancy Standart
Journal:  Sci STKE       Date:  2007-01-02

7.  Microarray analysis shows that some microRNAs downregulate large numbers of target mRNAs.

Authors:  Lee P Lim; Nelson C Lau; Philip Garrett-Engele; Andrew Grimson; Janell M Schelter; John Castle; David P Bartel; Peter S Linsley; Jason M Johnson
Journal:  Nature       Date:  2005-01-30       Impact factor: 49.962

8.  Genome-wide analysis of mRNAs regulated by Drosha and Argonaute proteins in Drosophila melanogaster.

Authors:  Jan Rehwinkel; Pavel Natalin; Alexander Stark; Julius Brennecke; Stephen M Cohen; Elisa Izaurralde
Journal:  Mol Cell Biol       Date:  2006-04       Impact factor: 4.272

9.  The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio cholerae.

Authors:  Derrick H Lenz; Kenny C Mok; Brendan N Lilley; Rahul V Kulkarni; Ned S Wingreen; Bonnie L Bassler
Journal:  Cell       Date:  2004-07-09       Impact factor: 41.582

10.  Effects of Dicer and Argonaute down-regulation on mRNA levels in human HEK293 cells.

Authors:  Daniela Schmitter; Jody Filkowski; Alain Sewer; Ramesh S Pillai; Edward J Oakeley; Mihaela Zavolan; Petr Svoboda; Witold Filipowicz
Journal:  Nucleic Acids Res       Date:  2006-09-13       Impact factor: 16.971

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  16 in total

1.  Slowly produced microRNAs control protein levels.

Authors:  Zakary L Whichard; Adilson E Motter; Peter J Stein; Seth J Corey
Journal:  J Biol Chem       Date:  2010-11-04       Impact factor: 5.157

2.  Quantifying negative feedback regulation by micro-RNAs.

Authors:  Shangying Wang; Sridhar Raghavachari
Journal:  Phys Biol       Date:  2011-08-10       Impact factor: 2.583

3.  MicroRNA-based regulation of epithelial-hybrid-mesenchymal fate determination.

Authors:  Mingyang Lu; Mohit Kumar Jolly; Herbert Levine; José N Onuchic; Eshel Ben-Jacob
Journal:  Proc Natl Acad Sci U S A       Date:  2013-10-23       Impact factor: 11.205

4.  Small RNAs establish delays and temporal thresholds in gene expression.

Authors:  Stefan Legewie; Dennis Dienst; Annegret Wilde; Hanspeter Herzel; Ilka M Axmann
Journal:  Biophys J       Date:  2008-07-03       Impact factor: 4.033

5.  A systems view of the protein expression process.

Authors:  Sucheta Gokhale; Dimpal Nyayanit; Chetan Gadgil
Journal:  Syst Synth Biol       Date:  2011-10-19

6.  Systemic CLIP-seq analysis and game theory approach to model microRNA mode of binding.

Authors:  Fabrizio Serra; Silvia Bottini; David Pratella; Maria G Stathopoulou; Wanda Sebille; Loubna El-Hami; Emanuela Repetto; Claire Mauduit; Mohamed Benahmed; Valerie Grandjean; Michele Trabucchi
Journal:  Nucleic Acids Res       Date:  2021-06-21       Impact factor: 16.971

7.  Analysis of Coupled Reaction-Diffusion Equations for RNA Interactions.

Authors:  Maryann E Hohn; Bo Li; Weihua Yang
Journal:  J Math Anal Appl       Date:  2015-05-01       Impact factor: 1.583

8.  Cooperative gene regulation by microRNA pairs and their identification using a computational workflow.

Authors:  Ulf Schmitz; Xin Lai; Felix Winter; Olaf Wolkenhauer; Julio Vera; Shailendra K Gupta
Journal:  Nucleic Acids Res       Date:  2014-05-29       Impact factor: 16.971

9.  Numerical modelling of microRNA-mediated mRNA decay identifies novel mechanism of microRNA controlled mRNA downregulation.

Authors:  Jiri Vohradsky; Josef Panek; Tomas Vomastek
Journal:  Nucleic Acids Res       Date:  2010-04-05       Impact factor: 16.971

10.  Computational analysis of target hub gene repression regulated by multiple and cooperative miRNAs.

Authors:  Xin Lai; Ulf Schmitz; Shailendra K Gupta; Animesh Bhattacharya; Manfred Kunz; Olaf Wolkenhauer; Julio Vera
Journal:  Nucleic Acids Res       Date:  2012-07-13       Impact factor: 16.971

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