Nonlinear Dynamics and Pattern Formation

Curvature induced patterns: A geometric, analytical approach to understanding a mechanochemical model

This paper analyzes a mechanochemical model to understand how curvature interactions influence steady-state solutions in tissue deformation.

A landscape description of the dynamics of Turing patterns

The paper describes Turing pattern dynamics as a potential flow landscape, applies it to three-component systems and SOX9 expression during digit patterning.

Segmented wavetrains and sites of reversal in the mouse seminiferous tubules

The paper refines a reaction-diffusion model to study segmented wavetrains in mouse seminiferous tubules, finding they are stable, directionally unbiased, and influenced by tubule elongation.

Fundamental limits on patterning by Turing-like reaction-diffusion mechanisms

This paper investigates complex reaction-diffusion models to understand patterning constraints and introduces a software pipeline for simulating these systems.

Foci, waves, excitability : self-organization of phase waves in a model of asymmetrically coupled embryonic oscillators

This paper develops a phase model to explain self-organized concentric wave patterns in embryonic oscillators, showing that excitability and coupling function shape these patterns.

Induction of Chimera States in Hindmarsh-Rose Neurons through Astrocytic Modulation: Implications for Learning Mechanisms

This study shows astrocytes can convert hyper-synchronized neural states into chimera states in Hindmarsh-Rose neurons, suggesting a mechanism for restoring normal brain function in neurological disorders.

Information transmission in a cell monolayer: A numerical study

The paper uses a numerical model to study information transmission in cell monolayers, identifying stochastic factors that affect wave propagation and determining optimal channel widths and wave frequencies for effective communication.

Statistical description of mobile oscillators in embryonic pattern formation

The paper develops a statistical framework to analyze how mobility affects synchronization and pattern robustness in mobile oscillators during vertebrate embryonic development.

How the Tulip Breaking Virus Creates Striped Tulips

This paper develops a mathematical model to explain how the tulip breaking virus causes striped patterns in tulips by combining activator-substrate and positional information mechanisms on a growing petal domain.

Optimal network sizes for most robust Turing patterns

This study shows that Turing patterns are more likely to occur by chance in biological networks and identifies an optimal network size for robust Turing behavior.

Fluctuation-Driven Morphological Patterning: A Novel Approach to Morphogenesis

The paper introduces a model where stochastic fluctuations drive morphological pattern formation, showing how fluctuations determine the dynamics of a phase transition in a one-dimensional tissue.

Neuromodulatory effects on synchrony and network reorganization in networks of coupled Kuramoto oscillators.

This study investigates how neuromodulatory changes affect network reorganization in coupled Kuramoto oscillators by altering phase response curves and plasticity.

Nonreciprocal synchronization in embryonic oscillator ensembles

The paper identifies non-reciprocal synchronization rules in embryonic oscillator ensembles using a novel experimental assay and develops a new coupling model called Rectified Kuramoto.

From resonance to chaos: modulating spatiotemporal patterns through a synthetic optogenetic oscillator

The paper designs and studies a synthetic optogenetic oscillator in E. coli, demonstrating complex spatiotemporal patterns including synchronization, resonance, and chaos under periodic light exposure.

Neuronal activity induces symmetry breaking in neurodegenerative disease spreading

The paper studies how neuronal activity influences the spread of toxic proteins in neurodegenerative diseases through a multi-timescale model of spreading on adaptive networks.

Existence and Stability Criteria for Global Synchrony and for Synchrony in two Alternating Clusters of Pulse-Coupled Oscillators Updated to Include Conduction Delays

The paper updates stability criteria for synchrony in pulse-coupled oscillator networks to include conduction delays and shows how alternating firing patterns can enforce cluster synchrony.

Turing pattern formation in reaction-cross-diffusion systems with a bilayer geometry

The paper analyzes Turing pattern formation in reaction-cross-diffusion systems with bilayer geometry, showing how coupling between layers can trigger or stabilize patterns.

Macroscopic waves, biological clocks and morphogenesis driven by light in a giant unicellular green alga

This study investigates self-organised chloroplast waves in Caulerpa brachypus, showing their coupling to a biological oscillator and response to light patterns.

Distributed information encoding and decoding using self-organized spatial patterns

The paper demonstrates a method using self-organized patterns and machine learning to encode and decode information, showing scalability by mapping the English keyboard.

Biological Action at a Distance: Correlated pattern formation in adjacent tessellation domains without communication

The paper shows that pattern formation in adjacent tessellated domains can be correlated through geometry, without direct communication, and validates this with biological examples.

The Design Principles of Discrete Turing Patterning Systems

This study compares continuous and discrete models of Turing patterns, finding discrete models more robust and suggesting deeper principles in Turing mechanisms.

Mathematical modeling of Erk activity waves in regenerating zebrafish scales

The paper develops a reaction-diffusion model to explain Erk activity waves in zebrafish scale regeneration, showing how feedback loops control wave properties and propagation.

Synchronization and resilience in the Kuramotowhite matter network model with adaptivestate-dependent delays

The paper modifies the Kuramoto model to include adaptive, phase-dependent delays in white matter networks, showing that these delays stabilize synchronization and enhance resilience to perturbations.

Large Scale-Free Network Organization is Likely Key for Biofilm Phase Transition

The paper uses a non-linear Kuramoto model to show that scale-free networks enable synchronization in biological systems, suggesting low expression genes are key for biofilm phase transitions.

Optogenetics enables real-time spatiotemporal control over spiral wave dynamics in an excitable cardiac system

Model reduction permits Turing instability analysis of arbitrary reaction-diffusion models

This paper introduces a method to reduce complex biochemical systems to simpler ones for Turing instability analysis, demonstrating its effectiveness with examples.