Literature DB >> 21545284

Decision making in living cells: lessons from a simple system.

Ido Golding1.   

Abstract

The life cycle of bacteriophage lambda serves as a simplified paradigm for cell-fate decisions. The ongoing quantitative, high-resolution experimental investigation of this life cycle has produced some important insights in recent years. These insights have to do with the way cells choose among alternative fates, how they maintain long-term memory of their gene-expression state, and how they switch from one stable state to another. The recent studies have highlighted the role of spatiotemporal effects in cellular processes and the importance of distinguishing chemical stochasticity from possible hidden variables in cellular decision making.

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Year:  2011        PMID: 21545284      PMCID: PMC4465489          DOI: 10.1146/annurev-biophys-042910-155227

Source DB:  PubMed          Journal:  Annu Rev Biophys        ISSN: 1936-122X            Impact factor:   12.981


  78 in total

1.  Octamerization of lambda CI repressor is needed for effective repression of P(RM) and efficient switching from lysogeny.

Authors:  I B Dodd; A J Perkins; D Tsemitsidis; J B Egan
Journal:  Genes Dev       Date:  2001-11-15       Impact factor: 11.361

2.  Epigenetics as a first exit problem.

Authors:  E Aurell; K Sneppen
Journal:  Phys Rev Lett       Date:  2002-01-08       Impact factor: 9.161

3.  Stability puzzles in phage lambda.

Authors:  Erik Aurell; Stanley Brown; Johan Johanson; Kim Sneppen
Journal:  Phys Rev E Stat Nonlin Soft Matter Phys       Date:  2002-05-16

4.  Decision making at a subcellular level determines the outcome of bacteriophage infection.

Authors:  Lanying Zeng; Samuel O Skinner; Chenghang Zong; Jean Sippy; Michael Feiss; Ido Golding
Journal:  Cell       Date:  2010-05-14       Impact factor: 41.582

5.  Exponential sensitivity of noise-driven switching in genetic networks.

Authors:  Pankaj Mehta; Ranjan Mukhopadhyay; Ned S Wingreen
Journal:  Phys Biol       Date:  2008-06-16       Impact factor: 2.583

6.  Protein mobility in the cytoplasm of Escherichia coli.

Authors:  M B Elowitz; M G Surette; P E Wolf; J B Stock; S Leibler
Journal:  J Bacteriol       Date:  1999-01       Impact factor: 3.490

Review 7.  The SOS regulatory system of Escherichia coli.

Authors:  J W Little; D W Mount
Journal:  Cell       Date:  1982-05       Impact factor: 41.582

8.  RNA dynamics in live Escherichia coli cells.

Authors:  Ido Golding; Edward C Cox
Journal:  Proc Natl Acad Sci U S A       Date:  2004-07-26       Impact factor: 11.205

9.  Noise in timing and precision of gene activities in a genetic cascade.

Authors:  Amnon Amir; Oren Kobiler; Assaf Rokney; Amos B Oppenheim; Joel Stavans
Journal:  Mol Syst Biol       Date:  2007-02-13       Impact factor: 11.429

Review 10.  Virus entry: open sesame.

Authors:  Mark Marsh; Ari Helenius
Journal:  Cell       Date:  2006-02-24       Impact factor: 41.582

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  23 in total

Review 1.  Fate-Regulating Circuits in Viruses: From Discovery to New Therapy Targets.

Authors:  Anand Pai; Leor S Weinberger
Journal:  Annu Rev Virol       Date:  2017-08-11       Impact factor: 10.431

2.  Constraining the complexity of promoter dynamics using fluctuations in gene expression.

Authors:  Niraj Kumar; Rahul V Kulkarni
Journal:  Phys Biol       Date:  2019-11-05       Impact factor: 2.583

Review 3.  Determining the Limitations and Benefits of Noise in Gene Regulation and Signal Transduction through Single Cell, Microscopy-Based Analysis.

Authors:  Marie D Harton; Eric Batchelor
Journal:  J Mol Biol       Date:  2017-03-11       Impact factor: 5.469

Review 4.  Eukaryotic transcriptional dynamics: from single molecules to cell populations.

Authors:  Antoine Coulon; Carson C Chow; Robert H Singer; Daniel R Larson
Journal:  Nat Rev Genet       Date:  2013-07-09       Impact factor: 53.242

5.  Lattice Microbes: high-performance stochastic simulation method for the reaction-diffusion master equation.

Authors:  Elijah Roberts; John E Stone; Zaida Luthey-Schulten
Journal:  J Comput Chem       Date:  2012-09-25       Impact factor: 3.376

6.  Arsenic trioxide stabilizes accumulations of adeno-associated virus virions at the perinuclear region, increasing transduction in vitro and in vivo.

Authors:  Angela M Mitchell; Chengwen Li; R Jude Samulski
Journal:  J Virol       Date:  2013-02-13       Impact factor: 5.103

Review 7.  Infection by bacteriophage lambda: an evolving paradigm for cellular individuality.

Authors:  Ido Golding
Journal:  Curr Opin Microbiol       Date:  2017-11-03       Impact factor: 7.934

Review 8.  Memorizing environmental signals through feedback and feedforward loops.

Authors:  Yanfei Jiang; Nan Hao
Journal:  Curr Opin Cell Biol       Date:  2021-02-04       Impact factor: 8.382

9.  Inferring Biological Mechanisms by Data-Based Mathematical Modelling: Compartment-Specific Gene Activation during Sporulation in Bacillus subtilis as a Test Case.

Authors:  Dagmar Iber
Journal:  Adv Bioinformatics       Date:  2012-01-23

Review 10.  Interaction of bacteriophage l with its E. coli receptor, LamB.

Authors:  Sujoy Chatterjee; Eli Rothenberg
Journal:  Viruses       Date:  2012-11-15       Impact factor: 5.048

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