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Different cell types aggregate and sort into hierarchical architectures during the formation of animal tissues. The resulting spatial organization depends (in part) on the strength of adhesion of one cell type to itself relative to other…

Quantitative Methods · Quantitative Biology 2023-08-02 Dhananjay Bhaskar , William Y. Zhang , Alexandria Volkening , Björn Sandstede , Ian Y. Wong

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 resorting to binary exchanges. In this work, we consider…

Adaptation and Self-Organizing Systems · Physics 2020-06-03 Timoteo Carletti , Duccio Fanelli , Sara Nicoletti

Biological systems rely on robust internal information processing: Survival depends on highly reproducible dynamics of regulatory processes. Biological information processing elements, however, are intrinsically noisy (genetic switches,…

Molecular Networks · Quantitative Biology 2009-11-10 Konstantin Klemm , Stefan Bornholdt

Despite growing interest in synchronization dynamics over "higher-order" network models, optimization theory for such systems is limited. Here, we study a family of Kuramoto models inspired by algebraic topology in which oscillators are…

Adaptation and Self-Organizing Systems · Physics 2026-01-12 Cameron Purple , Per Sebastian Skardal , Dane Taylor

The human brain is a complex system defined by multi-way, higher-order interactions invisible to traditional pairwise network models. Although a diverse array of analytical methods has been developed to address this shortcoming, the field…

Quantitative Methods · Quantitative Biology 2025-11-11 Mohamma Reza Salehi , Ali BashirGonbadi , Hamid Soltanian-Zadeh

Topological event detection allows for the distributed computation of homology by focusing on local changes occurring in a network over time. In this paper, a model for the monitoring of topological events in dynamically changing regions…

Distributed, Parallel, and Cluster Computing · Computer Science 2019-01-15 Vincent Knapps , Karl-Heinz Zimmermann

Generative methods have recently seen significant improvements by generating in a lower-dimensional latent representation of the data. However, many of the generative methods applied in the latent space remain complex and difficult to…

Machine Learning · Computer Science 2025-01-22 Alona Levy-Jurgenson , Zohar Yakhini

Group synchronization is the problem of determining reliable global estimates from noisy local measurements on networks. The typical task for group synchronization is to assign elements of a group to the nodes of a graph in a way that…

Machine Learning · Statistics 2025-06-06 Adriana L. Duncan , Joe Kileel

Higher-order connectivity patterns such as small induced sub-graphs called graphlets (network motifs) are vital to understand the important components (modules/functional units) governing the configuration and behavior of complex networks.…

Social and Information Networks · Computer Science 2020-09-15 Aldo G. Carranza , Ryan A. Rossi , Anup Rao , Eunyee Koh

Many topological data analysis (TDA) pipelines compute large collections of persistence diagrams, yet vectorizations and kernel methods discard the rank-induced implication relations among persistence intervals that are essential for…

Computational Geometry · Computer Science 2026-05-12 Charles Fanning , Mehmet Aktas

Many of the amazing functional capabilities of the brain are collective properties stemming from the interactions of large sets of individual neurons. In particular, the most salient collective phenomena in brain activity are oscillations,…

Neurons and Cognition · Quantitative Biology 2022-06-29 Victor Buendía , Pablo Villegas , Raffaella Burioni , Miguel A. Muñoz

I introduce a novel mathematical framework integrating topological dynamics, operator algebras, and ergodic geometry to study lattices of asynchronous metric dynamical systems. Each node in the lattice carries an internal flow represented…

General Mathematics · Mathematics 2025-05-29 Faruk Alpay

The standard cosmological model with cold dark matter posits a hierarchical formation of structures. We introduce topological neural networks (TNNs), implemented as message-passing neural networks on higher-order structures, to effectively…

Cosmology and Nongalactic Astrophysics · Physics 2025-08-06 Jun-Young Lee , Francisco Villaescusa-Navarro

In this paper, we tackle the problem of distributed optimization over directed networks in open multi-agent systems (OMAS), where agents may dynamically join or leave, causing persistent changes in network topology and problem dimension.…

Systems and Control · Electrical Eng. & Systems 2025-08-29 Evagoras Makridis , Gabriele Oliva , Themistoklis Charalambous

Over the past decades, high-harmonic spectroscopy (HHS) has emerged as a powerful tool for all-optical probing of topological properties of solids. There are outstanding questions regarding universal nature of the spectral features of…

We present an extended analysis, based on the dynamics towards synchronization of a system of coupled oscillators, of the hierarchy of communities in complex networks. In the synchronization process, different structures corresponding to…

Adaptation and Self-Organizing Systems · Physics 2009-11-11 Alex Arenas , Albert Diaz-Guilera , Conrad J. Perez-Vicente

Small world networks interpolate between fully regular and fully random topologies and simultaneously exhibit large local clustering as well as short average path length. Small world topology has therefore been suggested to support network…

Disordered Systems and Neural Networks · Physics 2015-05-19 Carsten Grabow , Steven Hill , Stefan Grosskinsky , Marc Timme

In computer and system sciences, higher-order cellular automata (HOCA) are a type of cellular automata that evolve over multiple time steps and generate complex patterns, which have various applications such as secret sharing schemes, data…

Strongly Correlated Electrons · Physics 2024-08-29 Jie-Yu Zhang , Meng-Yuan Li , Peng Ye

This paper (parts I and II) provides an expository introduction to monotone and near-monotone dynamical systems associated to biochemical networks, those whose graphs are consistent or near-consistent. Many conclusions can be drawn from…

Molecular Networks · Quantitative Biology 2007-05-23 Eduardo D. Sontag

Rapid development of topological concepts in photonics unveils exotic phenomena such as unidirectional propagation of electromagnetic waves resilient to backscattering at sharp bends and disorder-immune localization of light at stable…