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Analysis of single-cell RNA sequencing data is often conducted through network projections such as coexpression networks, primarily due to the abundant availability of network analysis tools for downstream tasks. However, this approach has…

Quantitative Methods · Quantitative Biology 2025-12-24 Wan He , Daniel I. Bolnick , Samuel V. Scarpino , Tina Eliassi-Rad

From social to biological systems, many real-world systems are characterized by higher-order, non-dyadic interactions. Such systems are conveniently described by hypergraphs, where hyperedges encode interactions among an arbitrary number of…

Going beyond networks, to include higher-order interactions of arbitrary sizes, is a major step to better describe complex systems. In the resulting hypergraph representation, tools to identify structures and central nodes are scarce. We…

Physics and Society · Physics 2023-10-11 Marco Mancastroppa , Iacopo Iacopini , Giovanni Petri , Alain Barrat

Groups with complex set intersection relations are a natural way to model a wide array of data, from the formation of social groups to the complex protein interactions which form the basis of biological life. One approach to representing…

Machine Learning · Computer Science 2025-01-15 Sepideh Maleki , Josh Vekhter , Keshav Pingali

Representing nodes in a network as dense vectors node embeddings is important for understanding a given network and solving many downstream tasks. In particular, for weighted homophilous graphs where similar nodes are connected with larger…

Social and Information Networks · Computer Science 2023-08-14 Jun Hee Kim , Jaeman Son , Hyunsoo Kim , Eunjo Lee

To connect structure, dynamics and function in systems with multibody interactions, network scientists model random walks on hypergraphs and identify communities that confine the walks for a long time. The two flow-based community-detection…

Physics and Society · Physics 2022-06-02 Anton Eriksson , Timoteo Carletti , Renaud Lambiotte , Alexis Rojas , Martin Rosvall

Message-passing graph neural networks (GNNs) excel at capturing local relationships but struggle with long-range dependencies in graphs. In contrast, graph transformers (GTs) enable global information exchange but often oversimplify the…

Machine Learning · Computer Science 2024-10-08 Dexiong Chen , Till Hendrik Schulz , Karsten Borgwardt

A deluge of new data on social, technological and biological networked systems suggests that a large number of interactions among system units are not limited to pairs, but rather involve a higher number of nodes. To properly encode such…

Physics and Society · Physics 2023-11-08 Quintino Francesco Lotito , Federico Musciotto , Alberto Montresor , Federico Battiston

The number of triangles in a graph is useful to deduce a plethora of important features of the network that the graph is modeling. However, finding the exact value of this number is computationally expensive. Hence, a number of…

Data Structures and Algorithms · Computer Science 2017-10-30 Duru Türkoğlu , Ata Turk

Graph-limit theory focuses on the convergence of sequences of graphs when the number of nodes becomes arbitrarily large. This framework defines a continuous version of graphs allowing for the study of dynamical systems on very large graphs,…

Probability · Mathematics 2020-05-20 Julien Petit , Renaud Lambiotte , Timoteo Carletti

Our objective is to sample the node set of a large unknown graph via crawling, to accurately estimate a given metric of interest. We design a random walk on an appropriately defined weighted graph that achieves high efficiency by…

Social and Information Networks · Computer Science 2011-03-29 M. Kurant , M. Gjoka , C. T. Butts , A. Markopoulou

Link partitioning is a popular approach in network science used for discovering overlapping communities by identifying clusters of strongly connected links. Current link partitioning methods are specifically designed for networks modelled…

Social and Information Networks · Computer Science 2022-10-12 Xinyi Wu , Arnab Sarker , Ali Jadbabaie

Community structures are critical for understanding the mesoscopic organization of networks, bridging local and global patterns. While methods such as DeepWalk and node2vec capture local positional information through random walks, they…

Social and Information Networks · Computer Science 2024-12-19 He Yu , Jing Liu

Network representation learning (NRL) technique has been successfully adopted in various data mining and machine learning applications. Random walk based NRL is one popular paradigm, which uses a set of random walks to capture the network…

Machine Learning · Computer Science 2021-01-12 Xingyu Yao , Yingxia Shao , Bin Cui , Lei Chen

Algorithms for mining very large graphs, such as those representing online social networks, to discover the relative frequency of small subgraphs within them are of high interest to sociologists, computer scientists and marketeers alike.…

Social and Information Networks · Computer Science 2017-06-16 Guyue Han , Harish Sethu

With the increasing relevance of large networks in important areas such as the study of contact networks for spread of disease, or social networks for their impact on geopolitics, it has become necessary to study machine learning tools that…

Social and Information Networks · Computer Science 2021-11-10 Aman Barot , Shankar Bhamidi , Souvik Dhara

Modeling higher-order interactions (HOI) has emerged as a crucial challenge in complex systems analysis, as many phenomena cannot be fully captured by pairwise relationships alone. Hypergraphs, which generalize graphs by allowing…

Applications · Statistics 2026-03-31 Catherine Matias

Graph neural networks (GNNs) learn to represent nodes by aggregating information from their neighbors. As GNNs increase in depth, their receptive field grows exponentially, leading to high memory costs. Several existing methods address this…

Machine Learning · Computer Science 2025-07-16 Taraneh Younesian , Daniel Daza , Emile van Krieken , Thiviyan Thanapalasingam , Peter Bloem

In this paper we consider aspects of geometric observability for hypergraphs, extending our earlier work from the uniform to the nonuniform case. Hypergraphs, a generalization of graphs, allow hyperedges to connect multiple nodes and…

Dynamical Systems · Mathematics 2024-04-12 Joshua Pickard , Cooper Stansbury , Amit Surana , Indika Rajapakse , Anthony Bloch

Despite the recently exhibited importance of higher-order interactions for various processes, few flexible (null) models are available. In particular, most studies on hypergraphs focus on a small set of theoretical models. Here, we…

Statistical Mechanics · Physics 2022-12-28 Marc Barthelemy
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