Literature DB >> 27307510

The cellular Ising model: a framework for phase transitions in multicellular environments.

Marc Weber1, Javier Buceta2.   

Abstract

Inspired by the Ising model, we introduce a gene regulatory network that induces a phase transition that coordinates robustly the behaviour of cell ensembles. The building blocks of the design are the so-called toggle switch interfaced with two quorum sensing modules, Las and Lux. We show that as a function of the transport rate of signalling molecules across the cell membrane the population undergoes a spontaneous symmetry breaking from cells individually switching their phenotypes to a global collective phenotypic organization. By characterizing the critical behaviour, we reveal some properties, such as phenotypic memory and hypersensitivity, with relevance in the field of synthetic biology. We argue that our results can be extrapolated to other multicellular systems and be a generic framework for collective decision-making processes.
© 2016 The Author(s).

Entities:  

Keywords:  biological stochasticity; multicellular environments; phase transition; quorum sensing

Mesh:

Year:  2016        PMID: 27307510      PMCID: PMC4938077          DOI: 10.1098/rsif.2015.1092

Source DB:  PubMed          Journal:  J R Soc Interface        ISSN: 1742-5662            Impact factor:   4.118


  50 in total

1.  Construction of a genetic toggle switch in Escherichia coli.

Authors:  T S Gardner; C R Cantor; J J Collins
Journal:  Nature       Date:  2000-01-20       Impact factor: 49.962

2.  A statistical-mechanical model for regulation of long-range chromatin structure and gene expression.

Authors:  H Ishii
Journal:  J Theor Biol       Date:  2000-04-07       Impact factor: 2.691

3.  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

4.  On schemes of combinatorial transcription logic.

Authors:  Nicolas E Buchler; Ulrich Gerland; Terence Hwa
Journal:  Proc Natl Acad Sci U S A       Date:  2003-04-17       Impact factor: 11.205

5.  Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli.

Authors:  Mariette R Atkinson; Michael A Savageau; Jesse T Myers; Alexander J Ninfa
Journal:  Cell       Date:  2003-05-30       Impact factor: 41.582

6.  Programmable cells: interfacing natural and engineered gene networks.

Authors:  Hideki Kobayashi; Mads Kaern; Michihiro Araki; Kristy Chung; Timothy S Gardner; Charles R Cantor; James J Collins
Journal:  Proc Natl Acad Sci U S A       Date:  2004-05-24       Impact factor: 11.205

7.  A community effect in muscle development.

Authors:  J B Gurdon; E Tiller; J Roberts; K Kato
Journal:  Curr Biol       Date:  1993-01       Impact factor: 10.834

8.  Simulation of biological cell sorting using a two-dimensional extended Potts model.

Authors: 
Journal:  Phys Rev Lett       Date:  1992-09-28       Impact factor: 9.161

9.  Effective temperature in stochastic kinetics and gene networks.

Authors:  Ting Lu; Jeff Hasty; Peter G Wolynes
Journal:  Biophys J       Date:  2006-04-14       Impact factor: 4.033

10.  Weak pairwise correlations imply strongly correlated network states in a neural population.

Authors:  Elad Schneidman; Michael J Berry; Ronen Segev; William Bialek
Journal:  Nature       Date:  2006-04-09       Impact factor: 49.962

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  5 in total

1.  Dynamical Ising model of spatially coupled ecological oscillators.

Authors:  Vahini Reddy Nareddy; Jonathan Machta; Karen C Abbott; Shadisadat Esmaeili; Alan Hastings
Journal:  J R Soc Interface       Date:  2020-10-28       Impact factor: 4.118

2.  Influencing dynamics on social networks without knowledge of network microstructure.

Authors:  Matthew Garrod; Nick S Jones
Journal:  J R Soc Interface       Date:  2021-08-25       Impact factor: 4.293

3.  Modeling cancer immunoediting in tumor microenvironment with system characterization through the ising-model Hamiltonian.

Authors:  Alfonso Rojas-Domínguez; Renato Arroyo-Duarte; Fernando Rincón-Vieyra; Matías Alvarado-Mentado
Journal:  BMC Bioinformatics       Date:  2022-05-30       Impact factor: 3.307

4.  Controlling spatiotemporal pattern formation in a concentration gradient with a synthetic toggle switch.

Authors:  Içvara Barbier; Rubén Perez-Carrasco; Yolanda Schaerli
Journal:  Mol Syst Biol       Date:  2020-06       Impact factor: 11.429

5.  The Affective Ising Model: A computational account of human affect dynamics.

Authors:  Tim Loossens; Merijn Mestdagh; Egon Dejonckheere; Peter Kuppens; Francis Tuerlinckx; Stijn Verdonck
Journal:  PLoS Comput Biol       Date:  2020-05-15       Impact factor: 4.475

  5 in total

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