Literature DB >> 27259209

What's Luck Got to Do with It: Single Cells, Multiple Fates, and Biological Nondeterminism.

Orsolya Symmons1, Arjun Raj2.   

Abstract

The field of single-cell biology has morphed from a philosophical digression at its inception, to a playground for quantitative biologists, to a major area of biomedical research. The last several years have witnessed an explosion of new technologies, allowing us to apply even more of the modern molecular biology toolkit to single cells. Conceptual progress, however, has been comparatively slow. Here, we provide a framework for classifying both the origins of the differences between individual cells and the consequences of those differences. We discuss how the concept of "random" differences is context dependent, and propose that rigorous definitions of inputs and outputs may bring clarity to the discussion. We also categorize ways in which probabilistic behavior may influence cellular function, highlighting studies that point to exciting future directions in the field.
Copyright © 2016 Elsevier Inc. All rights reserved.

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Year:  2016        PMID: 27259209      PMCID: PMC4900469          DOI: 10.1016/j.molcel.2016.05.023

Source DB:  PubMed          Journal:  Mol Cell        ISSN: 1097-2765            Impact factor:   17.970


  196 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.  Bacterial persistence as a phenotypic switch.

Authors:  Nathalie Q Balaban; Jack Merrin; Remy Chait; Lukasz Kowalik; Stanislas Leibler
Journal:  Science       Date:  2004-08-12       Impact factor: 47.728

4.  Contributions of low molecule number and chromosomal positioning to stochastic gene expression.

Authors:  Attila Becskei; Benjamin B Kaufmann; Alexander van Oudenaarden
Journal:  Nat Genet       Date:  2005-08-07       Impact factor: 38.330

5.  Long-Lived Binding of Sox2 to DNA Predicts Cell Fate in the Four-Cell Mouse Embryo.

Authors:  Melanie D White; Juan F Angiolini; Yanina D Alvarez; Gurpreet Kaur; Ziqing W Zhao; Esteban Mocskos; Luciana Bruno; Stephanie Bissiere; Valeria Levi; Nicolas Plachta
Journal:  Cell       Date:  2016-03-24       Impact factor: 41.582

Review 6.  Monoallelic expression of olfactory receptors.

Authors:  Kevin Monahan; Stavros Lomvardas
Journal:  Annu Rev Cell Dev Biol       Date:  2015-09-10       Impact factor: 13.827

7.  Measurement of gene regulation in individual cells reveals rapid switching between promoter states.

Authors:  Leonardo A Sepúlveda; Heng Xu; Jing Zhang; Mengyu Wang; Ido Golding
Journal:  Science       Date:  2016-03-10       Impact factor: 47.728

8.  Mechanism of transcriptional bursting in bacteria.

Authors:  Shasha Chong; Chongyi Chen; Hao Ge; X Sunney Xie
Journal:  Cell       Date:  2014-07-17       Impact factor: 41.582

9.  Stochastic patterning in the mouse pre-implantation embryo.

Authors:  Jens-Erik Dietrich; Takashi Hiiragi
Journal:  Development       Date:  2007-10-31       Impact factor: 6.868

10.  Frequency-modulated nuclear localization bursts coordinate gene regulation.

Authors:  Long Cai; Chiraj K Dalal; Michael B Elowitz
Journal:  Nature       Date:  2008-09-25       Impact factor: 49.962

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  66 in total

1.  Embracing Systems Toxicology at Single-Cell Resolution.

Authors:  Qiang Zhang; W Michael Caudle; Jingbo Pi; Sudin Bhattacharya; Melvin E Andersen; Norbert E Kaminski; Rory B Conolly
Journal:  Curr Opin Toxicol       Date:  2019-04-19

2.  Gene Networks with Transcriptional Bursting Recapitulate Rare Transient Coordinated High Expression States in Cancer.

Authors:  Lea Schuh; Michael Saint-Antoine; Eric M Sanford; Benjamin L Emert; Abhyudai Singh; Carsten Marr; Arjun Raj; Yogesh Goyal
Journal:  Cell Syst       Date:  2020-04-22       Impact factor: 10.304

Review 3.  Perspectives on defining cell types in the brain.

Authors:  Eran A Mukamel; John Ngai
Journal:  Curr Opin Neurobiol       Date:  2018-12-06       Impact factor: 6.627

4.  A genome disconnect.

Authors:  Elizabeth H Finn; Tom Misteli
Journal:  Nat Genet       Date:  2019-08       Impact factor: 38.330

5.  Promoter-mediated diversification of transcriptional bursting dynamics following gene duplication.

Authors:  Edward Tunnacliffe; Adam M Corrigan; Jonathan R Chubb
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-30       Impact factor: 11.205

6.  How adaptive immunity constrains the composition and fate of large bacterial populations.

Authors:  Madeleine Bonsma-Fisher; Dominique Soutière; Sidhartha Goyal
Journal:  Proc Natl Acad Sci U S A       Date:  2018-07-23       Impact factor: 11.205

7.  The fate of cells undergoing spontaneous DNA damage during development.

Authors:  Agnes Miermont; Vlatka Antolović; Tchern Lenn; John M E Nichols; Lindsey J Millward; Jonathan R Chubb
Journal:  Development       Date:  2019-05-02       Impact factor: 6.868

Review 8.  Molecular basis and biological function of variability in spatial genome organization.

Authors:  Elizabeth H Finn; Tom Misteli
Journal:  Science       Date:  2019-09-06       Impact factor: 47.728

9.  Memory Sequencing Reveals Heritable Single-Cell Gene Expression Programs Associated with Distinct Cellular Behaviors.

Authors:  Sydney M Shaffer; Benjamin L Emert; Raúl A Reyes Hueros; Christopher Cote; Guillaume Harmange; Dylan L Schaff; Ann E Sizemore; Rohit Gupte; Eduardo Torre; Abhyudai Singh; Danielle S Bassett; Arjun Raj
Journal:  Cell       Date:  2020-07-30       Impact factor: 41.582

10.  Single-Cell Virology: On-Chip Investigation of Viral Infection Dynamics.

Authors:  Feng Guo; Sixing Li; Mehmet Umut Caglar; Zhangming Mao; Wu Liu; Andrew Woodman; Jamie J Arnold; Claus O Wilke; Tony Jun Huang; Craig E Cameron
Journal:  Cell Rep       Date:  2017-11-07       Impact factor: 9.423

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