Literature DB >> 32728826

Boolean analysis of lateral inhibition.

Elisa Tonello1, Heike Siebert2.   

Abstract

We study Boolean networks which are simple spatial models of the highly conserved Delta-Notch system. The models assume the inhibition of Delta in each cell by Notch in the same cell, and the activation of Notch in presence of Delta in surrounding cells. We consider fully asynchronous dynamics over undirected graphs representing the neighbour relation between cells. In this framework, one can show that all attractors are fixed points for the system, independently of the neighbour relation, for instance by using known properties of simplified versions of the models, where only one species per cell is defined. The fixed points correspond to the so-called fine-grained "patterns" that emerge in discrete and continuous modelling of lateral inhibition. We study the reachability of fixed points, giving a characterisation of the trap spaces and the basins of attraction for both the full and the simplified models. In addition, we use a characterisation of the trap spaces to investigate the robustness of patterns to perturbations. The results of this qualitative analysis can complement and guide simulation-based approaches, and serve as a basis for the investigation of more complex mechanisms.

Entities:  

Keywords:  Boolean networks; Cell signalling; Multi-cellular systems; Patterns

Mesh:

Substances:

Year:  2020        PMID: 32728826      PMCID: PMC7427764          DOI: 10.1007/s00285-020-01515-9

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


  9 in total

1.  Multistationarity, the basis of cell differentiation and memory. II. Logical analysis of regulatory networks in terms of feedback circuits.

Authors:  R. Thomas; M. Kaufman
Journal:  Chaos       Date:  2001-03       Impact factor: 3.642

2.  Falling off the knife edge.

Authors:  P W Sternberg
Journal:  Curr Biol       Date:  1993-11-01       Impact factor: 10.834

3.  Oscillations and patterns in spatially discrete models for developmental intercellular signalling.

Authors:  Steven D Webb; Markus R Owen
Journal:  J Math Biol       Date:  2003-10-27       Impact factor: 2.259

4.  Component-based modeling and reachability analysis of genetic networks.

Authors:  Gregor Gössler
Journal:  IEEE/ACM Trans Comput Biol Bioinform       Date:  2011 May-Jun       Impact factor: 3.710

5.  Pattern formation by lateral inhibition with feedback: a mathematical model of delta-notch intercellular signalling.

Authors:  J R Collier; N A Monk; P K Maini; J H Lewis
Journal:  J Theor Biol       Date:  1996-12-21       Impact factor: 2.691

6.  Composition and abstraction of logical regulatory modules: application to multicellular systems.

Authors:  Nuno D Mendes; Frédéric Lang; Yves-Stan Le Cornec; Radu Mateescu; Gregory Batt; Claudine Chaouiya
Journal:  Bioinformatics       Date:  2013-01-22       Impact factor: 6.937

7.  The topology of the regulatory interactions predicts the expression pattern of the segment polarity genes in Drosophila melanogaster.

Authors:  Réka Albert; Hans G Othmer
Journal:  J Theor Biol       Date:  2003-07-07       Impact factor: 2.691

8.  MaBoSS 2.0: an environment for stochastic Boolean modeling.

Authors:  Gautier Stoll; Barthélémy Caron; Eric Viara; Aurélien Dugourd; Andrei Zinovyev; Aurélien Naldi; Guido Kroemer; Emmanuel Barillot; Laurence Calzone
Journal:  Bioinformatics       Date:  2017-07-15       Impact factor: 6.937

9.  EpiLog: A software for the logical modelling of epithelial dynamics.

Authors:  Pedro L Varela; Camila V Ramos; Pedro T Monteiro; Claudine Chaouiya
Journal:  F1000Res       Date:  2018-07-27
  9 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.