Common pattern formation, modularity and phase transitions in a gene network model of morphogenesis

RV Solé, I Salazar-Ciudad… - Physica A: Statistical …, 2002 - Elsevier
A model of biological morphogenesis is presented. The model is based on a gene network
cell description and the interaction among the nearest cells. Here interactions between cells …

Phenotypic and dynamical transitions in model genetic networks I. Emergence of patterns and genotype‐phenotype relationships

I Salazar‐Ciudad, SA Newman… - Evolution & …, 2001 - Wiley Online Library
Genotype–phenotype interactions during the evolution of form in multicellular organisms is a
complex problem but one that can be aided by computational approaches. We present here …

Pattern formation in a gene network model with boundary shape dependence

L Diambra, L da Fontoura Costa - … Review E—Statistical, Nonlinear, and Soft …, 2006 - APS
A fundamental task in developmental biology is to identify the mechanisms which drive
morphogenesis. Traditionally pattern formation have been modeled mainly using Turing …

Gene networks capable of pattern formation: from induction to reaction–diffusion

I SALAZAR-CIUDAD, J GARCIA-FERNÁNDEZ… - Journal of theoretical …, 2000 - Elsevier
One of the main aims of developmental biology is to understand how a single and
apparently homogeneous egg cell achieves the intricate complexity of the adult. Here we …

Evolution‐development congruence in pattern formation dynamics: Bifurcations in gene expression and regulation of networks structures

T Kohsokabe, K Kaneko - Journal of Experimental Zoology Part …, 2016 - Wiley Online Library
Search for possible relationships between phylogeny and ontogeny is important in
evolutionary‐developmental biology. Here we uncover such relationships by numerical …

Flexible and robust patterning by centralized gene networks

S Vakulenko, O Radulescu - Fundamenta Informaticae, 2012 - content.iospress.com
We investigate the possibility of programming arbitrarily complex space-time patterns, and
transitions between such patterns, by gene networks. We consider networks with two types …

Patterning by genetic networks

S Genieys, S Vakulenko - Mathematical methods in the applied …, 2006 - Wiley Online Library
We consider here the morphogenesis (pattern formation) problem for some genetic network
models. First, we show that any given spatio‐temporal pattern can be generated by a …

Logistic map analysis of biomolecular network evolution

RR Stein, H Isambert - Physical Review E—Statistical, Nonlinear, and Soft …, 2011 - APS
We study the expansion of biomolecular networks from the view point of first evolutionary
principles based on the duplication and divergence of ancestral genes. The expansion of …

[HTML][HTML] On the evolution and development of morphological complexity: A view from gene regulatory networks

PF Hagolani, R Zimm, R Vroomans… - PLoS computational …, 2021 - journals.plos.org
How does morphological complexity evolve? This study suggests that the likelihood of
mutations increasing phenotypic complexity becomes smaller when the phenotype itself is …

[HTML][HTML] The genotype-phenotype relationship in multicellular pattern-generating models-the neglected role of pattern descriptors

H Martens, SR Veflingstad, E Plahte, M Martens… - BMC Systems …, 2009 - Springer
Background A deep understanding of what causes the phenotypic variation arising from
biological patterning processes, cannot be claimed before we are able to recreate this …