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Our ability to uncover complex network structure and dynamics from data is fundamental to understanding and controlling collective dynamics in complex systems. Despite recent progress in this area, reconstructing networks with stochastic…

Physics and Society · Physics 2014-07-18 Zhesi Shen , Wen-Xu Wang , Ying Fan , Zengru Di , Ying-Cheng Lai

In this paper, we propose REASON, a novel framework that enables the automatic discovery of both intra-level (i.e., within-network) and inter-level (i.e., across-network) causal relationships for root cause localization. REASON consists of…

Machine Learning · Computer Science 2023-02-07 Dongjie Wang , Zhengzhang Chen , Jingchao Ni , Liang Tong , Zheng Wang , Yanjie Fu , Haifeng Chen

Transformations to create more sustainable social-ecological systems are urgently needed. Structural change is a feature of transformations of social-ecological systems that is of critical importance but is little understood. Here, we…

Adaptation and Self-Organizing Systems · Physics 2017-04-21 Steven J. Lade , Örjan Bodin , Jonathan F. Donges , Elin Enfors Kautsky , Diego Galafassi , Per Olsson , Maja Schlüter

First principle network models are crucial to make sense of the intricate topology of real complex networks. While modeling efforts have been quite successful in undirected networks, generative models for networks with asymmetric…

Physics and Society · Physics 2023-02-20 Antoine Allard , M. Ángeles Serrano , Marián Boguñá

We consider the slow and athermal deformations of amorphous solids and show how the ensuing sequence of discrete plastic rearrangements can be mapped onto a directed network. The network topology reveals a set of highly connected regions…

Soft Condensed Matter · Physics 2019-11-06 Muhittin Mungan , Srikanth Sastry , Karin Dahmen , Ido Regev

We study the identifiability of nonlinear network systems with partial excitation and partial measurement when the network dynamics is linear on the edges and nonlinear on the nodes. We assume that the graph topology and the nonlinear…

Optimization and Control · Mathematics 2025-05-21 Martina Vanelli , Julien M. Hendrickx

The response of complex networks to perturbations is of utmost importance in areas as diverse as ecosystem management, emergency response, and cell reprogramming. A fundamental property of networks is that the perturbation of one node can…

Molecular Networks · Quantitative Biology 2011-05-20 Sean P. Cornelius , William L. Kath , Adilson E. Motter

The network structure (or topology) of a dynamical network is often unavailable or uncertain. Hence, we consider the problem of network reconstruction. Network reconstruction aims at inferring the topology of a dynamical network using…

Optimization and Control · Mathematics 2018-09-26 Henk J. van Waarde , Pietro Tesi , M. Kanat Camlibel

Understanding how network function constrains neural connectivity is a central challenge in neuroscience. An influential approach is to train neural networks with gradient descent on cognitive tasks and characterize the resulting…

Neurons and Cognition · Quantitative Biology 2026-05-26 Ludwig Hruza , Srdjan Ostojic

This work examines the problem of topology inference over discrete-time nonlinear stochastic networked dynamical systems. The goal is to recover the underlying digraph linking the network agents, from observations of their state-evolution.…

Multiagent Systems · Computer Science 2019-06-24 Augusto Santos , Vincenzo Matta , Ali H. Sayed

We show that an interesting class of feed-forward neural networks can be understood as quantitative argumentation frameworks. This connection creates a bridge between research in Formal Argumentation and Machine Learning. We generalize the…

Neural and Evolutionary Computing · Computer Science 2020-12-11 Nico Potyka

Despite their widespread utility across domains, basic network models face fundamental limitations when applied to complex biological systems, particularly in neuroscience. This paper critically examines these limitations and explores…

Other Quantitative Biology · Quantitative Biology 2024-11-07 Luiz Pessoa

Links in most real networks often change over time. Such temporality of links encodes the ordering and causality of interactions between nodes and has a profound effect on network dynamics and function. Empirical evidences have shown that…

Social and Information Networks · Computer Science 2020-07-10 Disheng Tang , Wenbo Du , Louis Shekhtman , Yijie Wang , Shlomo Havlin , Xianbin Cao , Gang Yan

Provenance, or information about the sources, derivation, custody or history of data, has been studied recently in a number of contexts, including databases, scientific workflows and the Semantic Web. Many provenance mechanisms have been…

Programming Languages · Computer Science 2010-04-20 James Cheney

In many areas such as computational biology, finance or social sciences, knowledge of an underlying graph explaining the interactions between agents is of paramount importance but still challenging. Considering that these interactions may…

Signal Processing · Electrical Eng. & Systems 2021-04-29 Mircea Moscu , Ricardo A. Borsoi , Cédric Richard , José-Carlos M. Bermudez

Food webs are complex ecological networks whose structure is both ecologically and statistically constrained, with many network properties being correlated with each other. Despite the recognition of these invariable relationships in food…

Quantitative Methods · Quantitative Biology 2023-01-18 Francis Banville , Dominique Gravel , Timothée Poisot

Though a belief network (a representation of the joint probability distribution, see [3]) and a causal network (a representation of causal relationships [14]) are intended to mean different things, they are closely related. Both assume an…

Artificial Intelligence · Computer Science 2017-05-30 Mieczysław Kłopotek

Scale-free and non-computable characteristics of natural networks are found to result from the least-time dispersal of energy. To consider a network as a thermodynamic system is motivated since ultimately everything that exists can be…

General Physics · Physics 2011-06-22 Tuomo Hartonen , Arto Annila

Research on the vulnerability of electric networks with a complex network approach has produced significant results in the last decade, especially for transmission networks. These studies have shown that there are causal relations between…

Physics and Society · Physics 2024-09-11 Bálint Hartmann , Tamás Soha , Michelle T. Cirunay , Tímea Erdei

In evolutionary biology, phylogenetic networks are graphs that provide a flexible framework for representing complex evolutionary histories that involve reticulate evolutionary events. Recently phylogenetic studies have started to focus on…

Populations and Evolution · Quantitative Biology 2025-11-17 Niels Holtgrefe , Katharina T. Huber , Leo van Iersel , Mark Jones , Vincent Moulton