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It has become increasingly popular to study the brain as a network due to the realization that functionality cannot be explained exclusively by independent activation of specialized regions. Instead, across a large spectrum of behaviors,…

Neurons and Cognition · Quantitative Biology 2014-07-22 Petko Bogdanov , Nazli Dereli , Danielle S. Bassett , Scott T. Grafton , Ambuj K. Singh

Systematic relations between multiple objects that occur in various fields can be represented as networks. Real-world networks typically exhibit complex topologies whose structural properties are key factors in characterizing and further…

Physics and Society · Physics 2021-04-09 Yoshihisa Tanaka , Ryosuke Kojima , Shoichi Ishida , Fumiyoshi Yamashita , Yasushi Okuno

We introduce novel sets of measures with the goal of describing dynamical properties of force networks in dense particulate systems. The presented approach is based on persistent homology and allows for extracting precise, quantitative…

Data Analysis, Statistics and Probability · Physics 2015-06-19 Miroslav Kramar , Arnaud Goullet , Lou Kondic , Konstantin Mischaikow

The network characteristics based on the phonological similarities in the lexicons of several languages were examined. These languages differed widely in their history and linguistic structure, but commonalities in the network…

Physics and Society · Physics 2015-05-13 Samuel Arbesman , Steven H. Strogatz , Michael S. Vitevitch

Empirical studies of graphs have contributed enormously to our understanding of complex systems. Known today as network science, what was originally a theoretical study of graphs has grown into a more scientific exploration of communities…

Quantitative Methods · Quantitative Biology 2020-01-01 Ryan E. Langendorf , Debra S. Goldberg

Complex distribution networks are pervasive in biology. Examples include nutrient transport in the slime mold \emph{Physarum polycephalum} as well as mammalian and plant venation. Adaptive rules are believed to guide development of these…

Adaptation and Self-Organizing Systems · Physics 2019-12-16 Henrik Ronellenfitsch , Eleni Katifori

Real-world networks in technology, engineering and biology often exhibit dynamics that cannot be adequately reproduced using network models given by smooth dynamical systems and a fixed network topology. Asynchronous networks give a…

Dynamical Systems · Mathematics 2017-02-07 Christian Bick , Michael Field

Techniques from computational topology, in particular persistent homology, are becoming increasingly relevant for data analysis. Their stable metrics permit the use of many distance-based data analysis methods, such as multidimensional…

Algebraic Topology · Mathematics 2021-01-20 Bastian Rieck , Filip Sadlo , Heike Leitte

Networks are widely used in the biological, physical, and social sciences as a concise mathematical representation of the topology of systems of interacting components. Understanding the structure of these networks is one of the outstanding…

Data Analysis, Statistics and Probability · Physics 2007-06-21 M. E. J. Newman , E. A. Leicht

The relation between network structure and dynamics is determinant for the behavior of complex systems in numerous domains. An important long-standing problem concerns the properties of the networks that optimize the dynamics with respect…

Adaptation and Self-Organizing Systems · Physics 2017-12-07 Takashi Nishikawa , Jie Sun , Adilson E. Motter

Recent developments in network neuroscience have highlighted the importance of developing techniques for analyzing and modeling brain networks. A particularly powerful approach for studying complex neural systems is to formulate generative…

Neurons and Cognition · Quantitative Biology 2022-09-09 Viplove Arora , Enrico Amico , Joaquín Goñi , Mario Ventresca

Many complex networks, ranging from social to biological systems, exhibit structural patterns consistent with an underlying hyperbolic geometry. Revealing the dimensionality of this latent space can disentangle the structural complexity of…

Modeling the associations between real world entities from their multivariate cross-sectional profiles can provide cues into the concerted working of these entities as a system. Several techniques have been proposed for deciphering these…

Machine Learning · Computer Science 2025-01-07 Radha Nagarajan , Marco Scutari

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

Functions correspond to one of the key concepts in mathematics and science, allowing the representation and modeling of several types of signals and systems. The present work develops an approach for characterizing the coverage and…

Discrete Mathematics · Computer Science 2021-02-08 Luciano da F. Costa

Persistent Homology is a powerful tool in Topological Data Analysis (TDA) to capture topological properties of data succinctly at different spatial resolutions. For graphical data, shape, and structure of the neighborhood of individual data…

Social and Information Networks · Computer Science 2018-11-12 Sumit Bhatia , Bapi Chatterjee , Deepak Nathani , Manohar Kaul

To understand collective network behavior in the complex human brain, pairwise correlation networks alone are insufficient for capturing the high-order interactions that extend beyond pairwise interactions and play a crucial role in brain…

Neurons and Cognition · Quantitative Biology 2025-07-01 Qiang Li , Jingyu Liu , Vince D. Calhoun

Though modern neural networks have achieved impressive performance in both vision and language tasks, we know little about the functions that they implement. One possibility is that neural networks implicitly break down complex tasks into…

Computation and Language · Computer Science 2023-11-08 Michael A. Lepori , Thomas Serre , Ellie Pavlick

Active biological flow networks pervade nature and span a wide range of scales, from arterial blood vessels and bronchial mucus transport in humans to bacterial flow through porous media or plasmodial shuttle streaming in slime molds.…

Biological Physics · Physics 2016-07-28 Francis G. Woodhouse , Aden Forrow , Joanna B. Fawcett , Jörn Dunkel

Protein-Protein Interaction Networks aim to model the interactome, providing a powerful tool for understanding the complex relationships governing cellular processes. These networks have numerous applications, including functional…

Molecular Networks · Quantitative Biology 2023-10-05 Rodrigo Henrique Ramos , Cynthia de Oliveira Lage Ferreira , Adenilso Simao