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Graph foundation models have recently attracted significant attention due to its strong generalizability. Although existing methods resort to language models to learn unified semantic representations across domains, they disregard the…

Machine Learning · Computer Science 2025-10-17 Yao Cheng , Yige Zhao , Jianxiang Yu , Xiang Li

Combinatorial and topological structures, such as graphs, simplicial complexes, and cell complexes, form the foundation of geometric and topological deep learning (GDL and TDL) architectures. These models aggregate signals over such…

Machine Learning · Computer Science 2026-05-28 Chuan-Shen Hu

Attributed Graph Clustering (AGC) is a fundamental unsupervised task that partitions nodes into cohesive groups by jointly modeling structural topology and node attributes. While the advent of graph neural networks and self-supervised…

Machine Learning · Computer Science 2026-03-24 Yunhui Liu , Yue Liu , Yongchao Liu , Tao Zheng , Stan Z. Li , Xinwang Liu , Tieke He

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

We develop a language for describing the relationship among observations, mathematical models, and the underlying principles from which they are derived. Using Information Geometry, we consider geometric properties of statistical models for…

Data Analysis, Statistics and Probability · Physics 2016-07-14 Mark K. Transtrum , Gus Hart , Peng Qiu

Networks describe a range of social, biological and technical phenomena. An important property of a network is its degree correlation or assortativity, describing how nodes in the network associate based on their number of connections.…

Social and Information Networks · Computer Science 2017-02-06 David N Fisher , Matthew J Silk , Daniel W Franks

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

Decentralized learning has recently been attracting increasing attention for its applications in parallel computation and privacy preservation. Many recent studies stated that the underlying network topology with a faster consensus rate…

Machine Learning · Computer Science 2023-10-17 Yuki Takezawa , Ryoma Sato , Han Bao , Kenta Niwa , Makoto Yamada

Community detection is one of the most active fields in complex networks analysis, due to its potential value in practical applications. Many works inspired by different paradigms are devoted to the development of algorithmic solutions…

Social and Information Networks · Computer Science 2012-08-16 Günce Orman , Vincent Labatut , Hocine Cherifi

Real world complex networks are scale free and possess meso-scale properties like core-periphery and community structure. We study evolution of the core over time in real world networks. This paper proposes evolving models for both…

Social and Information Networks · Computer Science 2015-12-01 Akrati Saxena , S. R. S. Iyengar

Looking to overcome the limitations of traditional networks, the network science community has lately given much attention to the so-called higher-order networks, where group interactions are modeled alongside pairwise ones. While degree…

Physics and Society · Physics 2022-07-11 Demival Vasques Filho

The transition of the power grid requires new technologies and methodologies, which can only be developed and tested in simulations. Especially larger simulation setups with many levels of detail can become quite slow. Therefore, the number…

Signal Processing · Electrical Eng. & Systems 2020-06-23 Stephan Balduin , Tom Westermann , Erika Puiutta

In the context of Border Gateway Protocol (BGP), inbound inter-domain traffic engineering (TE) remains a difficult problem without panacea. Each of previously investigated method solves a part of the problem. In this study, we try to…

Networking and Internet Architecture · Computer Science 2015-11-30 Wenqin Shao , Francois Devienne , Luigi Iannone , Jean-Louis Rougier

Core-periphery (CP) structure is an important meso-scale network property where nodes group into a small, densely interconnected {core} and a sparse {periphery} whose members primarily connect to the core rather than to each other. While…

Methodology · Statistics 2025-08-08 Eric Yanchenko , Srijan Sengupta , Diganta Mukherjee

Many network analysis and graph learning techniques are based on models of random walks which require to infer transition matrices that formalize the underlying stochastic process in an observed graph. For weighted graphs, it is common to…

Methodology · Statistics 2022-10-28 Vincenzo Perri , Luka V. Petrović , Ingo Scholtes

Topological deep learning is a rapidly growing field that pertains to the development of deep learning models for data supported on topological domains such as simplicial complexes, cell complexes, and hypergraphs, which generalize many…

The topological (graph) structure of complex networks often provides valuable information about the performance and vulnerability of the network. However, there are multiple ways to represent a given network as a graph. Electric power…

Physics and Society · Physics 2014-05-20 Eduardo Cotilla-Sanchez , Paul D. H. Hines , Clayton Barrows , Seth Blumsack

The concept of 'complexity' plays a central role in complex network science. Traditionally, this term has been taken to express heterogeneity of the node degrees of a therefore complex network. However, given that the degree distribution is…

Physics and Society · Physics 2021-07-01 Éverton F. da Cunha , Luciano da F. Costa

We use mathematical methods from the theory of tailored random graphs to study systematically the effects of sampling on topological features of large biological signalling networks. Our aim in doing so is to increase our quantitative…

Quantitative Methods · Quantitative Biology 2011-06-02 A. Annibale , A. C. C. Coolen

Inferring the parameters of models describing biological systems is an important problem in the reverse engineering of the mechanisms underlying these systems. Much work has focused on parameter inference of stochastic and ordinary…

Quantitative Methods · Quantitative Biology 2021-11-09 Thomas Thorne , Paul D. W. Kirk , Heather A. Harrington
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