Approximation and inference methods for stochastic biochemical kinetics—a tutorial review

D Schnoerr, G Sanguinetti… - Journal of Physics A …, 2017 - iopscience.iop.org
Stochastic fluctuations of molecule numbers are ubiquitous in biological systems. Important
examples include gene expression and enzymatic processes in living cells. Such systems …

Dynamical systems on hypergraphs

T Carletti, D Fanelli, S Nicoletti - Journal of Physics: Complexity, 2020 - iopscience.iop.org
Networks are a widely used and efficient paradigm to model real-world systems where basic
units interact pairwise. Many body interactions are often at play, and cannot be modelled by …

The theory of pattern formation on directed networks

M Asllani, JD Challenger, FS Pavone, L Sacconi… - Nature …, 2014 - nature.com
Dynamical processes on networks have generated widespread interest in recent years. The
theory of pattern formation in reaction–diffusion systems defined on symmetric networks has …

Turing patterns on discrete topologies: from networks to higher-order structures

R Muolo, L Giambagli, H Nakao, D Fanelli… - Proceedings …, 2024 - royalsocietypublishing.org
Nature is a blossoming of regular structures, signature of self-organization of the underlying
microscopic interacting agents. Turing theory of pattern formation is one of the most studied …

Persistence of chimera states and the challenge for synchronization in real-world networks

R Muolo, JD O'Brien, T Carletti, M Asllani - The European Physical …, 2024 - Springer
The emergence of order in nature manifests in different phenomena, with synchronization
being one of the most representative examples. Understanding the role played by the …

Robust stochastic Turing patterns in the development of a one-dimensional cyanobacterial organism

F Di Patti, L Lavacchi, R Arbel-Goren… - PLoS …, 2018 - journals.plos.org
Under nitrogen deprivation, the one-dimensional cyanobacterial organism Anabaena sp.
PCC 7120 develops patterns of single, nitrogen-fixing cells separated by nearly regular …

Tune the topology to create or destroy patterns

M Asllani, T Carletti, D Fanelli - The European Physical Journal B, 2016 - Springer
We consider the dynamics of a reaction-diffusion system on a multigraph. The species share
the same set of nodes but can access different links to explore the embedding spatial …

Turing instability in quantum activator–inhibitor systems

Y Kato, H Nakao - Scientific Reports, 2022 - nature.com
Turing instability is a fundamental mechanism of nonequilibrium self-organization. However,
despite the universality of its essential mechanism, Turing instability has thus far been …

Effects of noise on the critical points of Turing instability in complex ecosystems

R **ao, Q Gao, S Azaele, Y Sun - Physical Review E, 2023 - APS
Noise is ubiquitous in natural and artificial systems. In a noisy environment, the interactions
among nodes may fluctuate randomly, leading to more complicated interactions. In this …

Nonlinear walkers and efficient exploration of congested networks

T Carletti, M Asllani, D Fanelli, V Latora - Physical Review Research, 2020 - APS
Random walks are the simplest way to explore or search a graph and have revealed a very
useful tool to investigate and characterize the structural properties of complex networks from …