Literature DB >> 17429634

An equation-free approach to analyzing heterogeneous cell population dynamics.

Katherine A Bold1, Yu Zou, Ioannis G Kevrekidis, Michael A Henson.   

Abstract

We propose a computational approach to modeling the collective dynamics of populations of coupled, heterogeneous biological oscillators. We consider the synchronization of yeast glycolytic oscillators coupled by the membrane exchange of an intracellular metabolite; the heterogeneity consists of a single random parameter, which accounts for glucose influx into each cell. In contrast to Monte Carlo simulations, distributions of intracellular species of these yeast cells are represented by a few leading order generalized Polynomial Chaos (gPC) coefficients, thus reducing the dynamics of an ensemble of oscillators to dynamics of their (typically significantly fewer) representative gPC coefficients. Equation-free (EF) methods are employed to efficiently evolve this coarse description in time and compute the coarse-grained stationary state and/or limit cycle solutions, circumventing the derivation of explicit, closed-form evolution equations. Coarse projective integration and fixed-point algorithms are used to compute collective oscillatory solutions for the cell population and quantify their stability. These techniques are extended to the special case of a "rogue" oscillator; a cell sufficiently different from the rest "escapes" the bulk synchronized behavior and oscillates with a markedly different amplitude. The approach holds promise for accelerating the computer-assisted analysis of detailed models of coupled heterogeneous cell or agent populations.

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Year:  2007        PMID: 17429634     DOI: 10.1007/s00285-007-0086-6

Source DB:  PubMed          Journal:  J Math Biol        ISSN: 0303-6812            Impact factor:   2.259


  22 in total

1.  Effect of cellular interaction on glycolytic oscillations in yeast: a theoretical investigation.

Authors:  J Wolf; R Heinrich
Journal:  Biochem J       Date:  2000-01-15       Impact factor: 3.857

2.  "Coarse" stability and bifurcation analysis using time-steppers: a reaction-diffusion example.

Authors:  C Theodoropoulos; Y H Qian; I G Kevrekidis
Journal:  Proc Natl Acad Sci U S A       Date:  2000-08-29       Impact factor: 11.205

3.  A detailed predictive model of the mammalian circadian clock.

Authors:  Daniel B Forger; Charles S Peskin
Journal:  Proc Natl Acad Sci U S A       Date:  2003-12-01       Impact factor: 11.205

4.  Cell population modelling of yeast glycolytic oscillations.

Authors:  Michael A Henson; Dirk Müller; Matthias Reuss
Journal:  Biochem J       Date:  2002-12-01       Impact factor: 3.857

5.  Coarse graining the dynamics of coupled oscillators.

Authors:  Sung Joon Moon; R Ghanem; I G Kevrekidis
Journal:  Phys Rev Lett       Date:  2006-04-13       Impact factor: 9.161

6.  Dynamics of two-component biochemical systems in interacting cells; synchronization and desynchronization of oscillations and multiple steady states.

Authors:  J Wolf; R Heinrich
Journal:  Biosystems       Date:  1997       Impact factor: 1.973

7.  Oscillations of nucleotides and glycolytic intermediates in aerobic suspensions of Ehrlich ascites tumor cells.

Authors:  K H Ibsen; K W Schiller
Journal:  Biochim Biophys Acta       Date:  1967-03-08

8.  Full-scale model of glycolysis in Saccharomyces cerevisiae.

Authors:  F Hynne; S Danø; P G Sørensen
Journal:  Biophys Chem       Date:  2001-12-11       Impact factor: 2.352

9.  Long term oscillation in glycolysis.

Authors:  J Das; H G Busse
Journal:  J Biochem       Date:  1985-03       Impact factor: 3.387

10.  Yeast cells with a specific cellular make-up and an environment that removes acetaldehyde are prone to sustained glycolytic oscillations.

Authors:  P Richard; J A Diderich; B M Bakker; B Teusink; K van Dam; H V Westerhoff
Journal:  FEBS Lett       Date:  1994-03-21       Impact factor: 4.124

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  4 in total

1.  Nonlinear modelling of cancer: bridging the gap between cells and tumours.

Authors:  J S Lowengrub; H B Frieboes; F Jin; Y-L Chuang; X Li; P Macklin; S M Wise; V Cristini
Journal:  Nonlinearity       Date:  2010

2.  Coarse-Grained Descriptions of Dynamics for Networks with Both Intrinsic and Structural Heterogeneities.

Authors:  Tom Bertalan; Yan Wu; Carlo Laing; C William Gear; Ioannis G Kevrekidis
Journal:  Front Comput Neurosci       Date:  2017-06-12       Impact factor: 2.380

3.  Equation-free analysis of two-component system signalling model reveals the emergence of co-existing phenotypes in the absence of multistationarity.

Authors:  Rebecca B Hoyle; Daniele Avitabile; Andrzej M Kierzek
Journal:  PLoS Comput Biol       Date:  2012-06-28       Impact factor: 4.475

4.  Coarse-Grained Clustering Dynamics of Heterogeneously Coupled Neurons.

Authors:  Sung Joon Moon; Katherine A Cook; Karthikeyan Rajendran; Ioannis G Kevrekidis; Jaime Cisternas; Carlo R Laing
Journal:  J Math Neurosci       Date:  2015-01-12       Impact factor: 1.300

  4 in total

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