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Inferring network topology from dynamical observations is a fundamental problem pervading research on complex systems. Here, we present a simple, direct method to infer the structural connection topology of a network, given an observation…

Chaotic Dynamics · Physics 2015-05-19 Srinivas Gorur Shandilya , Marc Timme

High-throughput methods for yielding the set of connections in a neural system, the connectome, are now being developed. This tutorial describes ways to analyze the topological and spatial organization of the connectome at the macroscopic…

Neurons and Cognition · Quantitative Biology 2011-12-23 Marcus Kaiser

Brain areas' functional repertoires are shaped by their incoming and outgoing structural connections. In empirically measured networks, most connections are short, reflecting spatial and energetic constraints. Nonetheless, a small number of…

Neurons and Cognition · Quantitative Biology 2022-06-08 Richard F. Betzel , Danielle S. Bassett

The study of dynamic functional connectomes has provided valuable insights into how patterns of brain activity change over time. Neural networks process information through artificial neurons, conceptually inspired by patterns of activation…

Neurons and Cognition · Quantitative Biology 2025-08-12 Yutong Wu , Peilin He , Tananun Songdechakraiwut

Complex systems are high-dimensional nonlinear dynamical systems with intricate interactions among their constituents. To make interpretable predictions about their large-scale behavior, it is typically assumed, without a clear statement,…

Adaptation and Self-Organizing Systems · Physics 2024-11-07 Vincent Thibeault , Antoine Allard , Patrick Desrosiers

While modern deep networks have demonstrated remarkable versatility, their training dynamics remain poorly understood--often driven more by empirical tweaks than architectural insight. This paper investigates how internal structural choices…

Machine Learning · Computer Science 2025-08-26 Saleh Nikooroo , Thomas Engel

Mesoscopic models of finite-size neuronal populations are crucial to understand the dynamics of neural networks in the brain, especially their fluctuations and response to stimuli. However, current theories to derive such models are based…

Neurons and Cognition · Quantitative Biology 2026-01-26 Nils E. Greven , Jonas Ranft , Tilo Schwalger

Structure entails function and thus a structural description of the brain will help to understand its function and may provide insights into many properties of brain systems, from their robustness and recovery from damage, to their dynamics…

Neurons and Cognition · Quantitative Biology 2008-08-27 Marcus Kaiser , Robert Martin , Peter Andras , Malcolm P. Young

Dynamical patterns in complex networks of coupled oscillators are both of theoretical and practical interest, yet to fully reveal and understand the interplay between pattern emergence and network structure remains to be an outstanding…

Chaotic Dynamics · Physics 2017-04-03 Dongmei Song , Yafeng Wang , Xiang Gao , Shi-Xian Qu , Ying-Cheng Lai , Xingang Wang

In many real, directed networks, the strongly connected component of nodes which are mutually reachable is very small. This does not fit with current theory, based on random graphs, according to which strong connectivity depends on mean…

Disordered Systems and Neural Networks · Physics 2023-04-12 Niall Rodgers , Peter Tino , Samuel Johnson

Recent advances in experimental techniques have allowed the simultaneous recording of populations of hundreds of neurons, allowing more comprehensive investigation into the nature of the collective structure of population neural activity.…

Neurons and Cognition · Quantitative Biology 2018-02-07 Mark L. Ioffe , Michael J. Berry

Encoding brain regions and their connections as a network of nodes and edges captures many of the possible paths along which information can be transmitted as humans process and perform complex behaviors. Because cognitive processes involve…

Neurons and Cognition · Quantitative Biology 2016-12-21 Ann Sizemore , Chad Giusti , Ari Kahn , Richard F. Betzel , Danielle S. Bassett

To find interesting structure in networks, community detection algorithms have to take into account not only the network topology, but also dynamics of interactions between nodes. We investigate this claim using the paradigm of…

Social and Information Networks · Computer Science 2012-03-19 Rumi Ghosh , Kristina Lerman

Cortical networks exhibit synchronized activity which often occurs in spontaneous events in the form of spike avalanches. Since synchronization has been causally linked to central aspects of brain function such as selective signal…

Neurons and Cognition · Quantitative Biology 2022-02-08 Maik Schünemann , Udo Ernst , Marc Kesseböhmer

The emergence of detailed maps of physical networks, like the brain connectome, vascular networks, or composite networks in metamaterials, whose nodes and links are physical entities, have demonstrated the limits of the current network…

We have investigated the role that different connectivity regimes play on the dynamics of a network of Hodgkin-Huxley neurons by computer simulations. The different connectivity topologies exhibit the following features: random connectivity…

Disordered Systems and Neural Networks · Physics 2025-03-24 Luis F. Lago-Fernandez , Ramon Huerta , Fernando Corbacho , Juan A. Siguenza

In the past two decades, significant advances have been made in understanding the structural and functional properties of biological networks, via graph-theoretic analysis. In general, most graph-theoretic studies are conducted in the…

Physics and Society · Physics 2013-10-21 Michelle Rudolph-Lilith , Lyle E. Muller

Many practical systems can be described by dynamic networks, for which modern technique can measure their output signals, and accumulate extremely rich data. Nevertheless, the network structures producing these data are often deeply hidden…

Statistical Mechanics · Physics 2016-08-18 Yang Chen , Zhaoyang Zhang , Tianyu Chen , Shihong Wang , Gang Hu

Brain function emerges from coordinated activity across anatomically connected regions, where structural connectivity (SC) -- the network of white matter pathways - provides the physical substrate for functional connectivity (FC) -- the…

Neurons and Cognition · Quantitative Biology 2025-07-09 Sam Frank Kelemen , Joaquín Gõni , Sérgio Pequito , Arian Ashourvan

Neural feedback-triads consisting of two feedback loops with a non-reciprocal lateral connection from one loop to the other are ubiquitous in the brain. We show analytically that the dynamics of this network topology are determined by two…

Neurons and Cognition · Quantitative Biology 2009-03-17 M. S. Caudill , S. F. Brandt , Z. Nussinov , R. Wessel