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Endowing brain anatomy, dynamics, and function with a network structure is becoming standard in neuroscience. In its simplest form, a network is a collection of units and relationships between them. The pattern of relations among the units…

Neurons and Cognition · Quantitative Biology 2025-07-22 David Papo , Javier M. Buldú

This paper presents a mathematical framework for analyzing machine learning models through the geometry of their induced partitions. By representing partitions as Riemannian simplicial complexes, we capture not only adjacency relationships…

Machine Learning · Computer Science 2025-08-05 Pawel Gajer , Jacques Ravel

Psychological network approaches propose to see symptoms or questionnaire items as interconnected nodes, with links between them reflecting pairwise statistical dependencies evaluated cross-sectional, time-series, or panel data. These…

Complex systems in the real world can be modeled as a network of connected components. The human brain, as a network of neurons among which the interactions cause perception, is a complex network. Synchronization is a dynamical phenomenon…

Biological Physics · Physics 2019-04-30 Arefeh Mazarei , Mohammad Amirian Matlob , Gholamhossein Riazi , Yousef Jamali

Understanding how biological constraints shape neural computation is a central goal of computational neuroscience. Spatially embedded recurrent neural networks provide a promising avenue to study how modelled constraints shape the combined…

Neural and Evolutionary Computing · Computer Science 2024-09-27 Cornelia Sheeran , Andrew S. Ham , Duncan E. Astle , Jascha Achterberg , Danyal Akarca

In neuroscience, functional brain connectivity describes the connectivity between brain regions that share functional properties. Neuroscientists often characterize it by a time series of covariance matrices between functional measurements…

Methodology · Statistics 2019-07-09 Zhenhua Lin , Dehan Kong , Qiang Sun

A major obstacle to understanding neural coding and computation is the fact that experimental recordings typically sample only a small fraction of the neurons in a circuit. Measured neural properties are skewed by interactions between…

Neurons and Cognition · Quantitative Biology 2025-04-01 Braden A. W. Brinkman , Fred Rieke , Eric Shea-Brown , Michael A. Buice

The integration and transmission of information in the brain are dependent on the interplay between structural and dynamical properties. Implicit in any pursuit aimed at understanding neural dynamics from appropriate sets of mathematically…

Neurons and Cognition · Quantitative Biology 2020-06-30 Joshua M. Roldan , Sebastian Pardo G. , Vivek Kurien George , Gabriel A. Silva

Many real-world networks describe systems in which interactions decay with the distance between nodes. Examples include systems constrained in real space such as transportation and communication networks, as well as systems constrained in…

Statistical Mechanics · Physics 2009-11-10 Shalev Itzkovitz , Uri Alon

Complex systems are made up of many interacting components. Network science provides the tools to analyze and understand these interactions. Community detection is a key technique in network science for uncovering the structures that shape…

Physics and Society · Physics 2025-12-16 Louis Boucherie

Geometric graphs are a special kind of graph with geometric features, which are vital to model many scientific problems. Unlike generic graphs, geometric graphs often exhibit physical symmetries of translations, rotations, and reflections,…

Open problems abound in the theory of complex networks, which has found successful application to diverse fields of science. With the aim of further advancing the understanding of the brain's functional connectivity, we propose to evaluate…

Neurons and Cognition · Quantitative Biology 2019-02-20 A. Viol , Fernanda Palhano-Fontes , Heloisa Onias , Draulio B. de Araujo , Philipp Hövel , G. M. Viswanathan

Dynamic networks have been increasingly used to characterize brain connectivity that varies during resting and task states. In such characterizations, a connectivity network is typically measured at each time point for a subject over a…

Methodology · Statistics 2023-03-23 Maoyu Zhang , Biao Cai , Wenlin Dai , Dehan Kong , Hongyu Zhao , Jingfei Zhang

We propose a unified theoretical framework for quantifying spatio-temporal interactions in a stochastic dynamical system based on information geometry. In the proposed framework, the degree of interactions is quantified by the divergence…

Neurons and Cognition · Quantitative Biology 2016-12-08 Masafumi Oizumi , Naotsugu Tsuchiya , Shun-ichi Amari

Real networks are finite metric spaces. Yet the geometry induced by shortest path distances in a network is definitely not its only geometry. Other forms of network geometry are the geometry of latent spaces underlying many networks, and…

The brain is a highly complex system. Most of such complexity stems from the intermingled connections between its parts, which give rise to rich dynamics and to the emergence of high-level cognitive functions. Disentangling the underlying…

Neurons and Cognition · Quantitative Biology 2023-08-14 Vito Dichio , Fabrizio De Vico Fallani

Recurrent neural networks have been extensively studied in the context of neuroscience and machine learning due to their ability to implement complex computations. While substantial progress in designing effective learning algorithms has…

Neurons and Cognition · Quantitative Biology 2019-01-21 Francesca Mastrogiuseppe , Srdjan Ostojic

Shape information is crucial for human perception and cognition, and should therefore also play a role in cognitive AI systems. We employ the interdisciplinary framework of conceptual spaces, which proposes a geometric representation of…

Machine Learning · Computer Science 2021-11-17 Lucas Bechberger , Kai-Uwe Kühnberger

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

One important question in neuroscience is how global behavior in a brain network emerges from the interplay between network connectivity and the neural dynamics of individual nodes. To better understand this theoretical relationship, we…

Neurons and Cognition · Quantitative Biology 2022-09-13 Anca Radulescu , Johan Nakuci , Simone Evans , Sarah Muldoon