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Message passing neural networks (MPNN) have seen a steep rise in popularity since their introduction as generalizations of convolutional neural networks to graph-structured data, and are now considered state-of-the-art tools for solving a…

Machine Learning · Computer Science 2022-08-05 Sohir Maskey , Ron Levie , Yunseok Lee , Gitta Kutyniok

Graph Neural Networks (GNNs) have shown advantages in various graph-based applications. Most existing GNNs assume strong homophily of graph structure and apply permutation-invariant local aggregation of neighbors to learn a representation…

Machine Learning · Computer Science 2022-01-04 Tianmeng Yang , Yujing Wang , Zhihan Yue , Yaming Yang , Yunhai Tong , Jing Bai

Graph neural networks excel at graph representation learning but struggle with heterophilous data and long-range dependencies. And graph transformers address these issues through self-attention, yet face scalability and noise challenges on…

Machine Learning · Computer Science 2025-02-13 Xuanze Chen , Jiajun Zhou , Shanqing Yu , Qi Xuan

Graph Neural Networks (GNNs) are limited in their propagation operators. In many cases, these operators often contain non-negative elements only and are shared across channels, limiting the expressiveness of GNNs. Moreover, some GNNs suffer…

Machine Learning · Computer Science 2023-05-08 Moshe Eliasof , Lars Ruthotto , Eran Treister

Graph Neural Networks (GNNs) have emerged as a promising approach for ``learning to branch'' in Mixed-Integer Linear Programming (MILP). While standard Message-Passing GNNs (MPNNs) are efficient, they theoretically lack the expressive power…

Machine Learning · Computer Science 2025-12-11 Junru Zhou , Yicheng Wang , Pan Li

It is well established that graph neural networks (GNNs) can be interpreted and designed from the perspective of optimization objective. With this clear optimization objective, the deduced GNNs architecture has sound theoretical foundation,…

Machine Learning · Computer Science 2022-05-25 Yuling Wang , Hao Xu , Yanhua Yu , Mengdi Zhang , Zhenhao Li , Yuji Yang , Wei Wu

Message Passing Graph Neural Networks are known to suffer from two problems that are sometimes believed to be diametrically opposed: over-squashing and over-smoothing. The former results from topological bottlenecks that hamper the…

Machine Learning · Computer Science 2024-10-31 Adarsh Jamadandi , Celia Rubio-Madrigal , Rebekka Burkholz

Hypergraphs are a generalized data structure of graphs to model higher-order correlations among entities, which have been successfully adopted into various research domains. Meanwhile, HyperGraph Neural Network (HGNN) is currently the…

Computer Vision and Pattern Recognition · Computer Science 2021-05-04 Jing Huang , Xiaolin Huang , Jie Yang

Graph Neural Networks (GNNs) with equivariant properties have achieved significant success in modeling complex dynamic systems and molecular properties. However, their expressiveness ability is limited by: (1) Existing methods often…

Machine Learning · Computer Science 2025-11-04 Yingxu Wang , Nan Yin , Mingyan Xiao , Xinhao Yi , Siwei Liu , Shangsong Liang

The spatial convolution layer which is widely used in the Graph Neural Networks (GNNs) aggregates the feature vector of each node with the feature vectors of its neighboring nodes. The GNN is not aware of the locations of the nodes in the…

Machine Learning · Computer Science 2019-10-04 Mostafa Rahmani , Ping Li

The algorithms based on message passing neural networks (MPNNs) on graphs have recently achieved great success for various graph applications. However, studies find that these methods always propagate the information to very limited…

Artificial Intelligence · Computer Science 2026-02-10 Mingcan Wang , Junchang Xin , Zhongming Yao , Kaifu Long , Zhiqiong Wang

Graph neural networks (GNNs) manifest pathologies including over-smoothing and limited discriminating power as a result of suboptimally expressive aggregating mechanisms. We herein present a unifying framework for stochastic aggregation…

Machine Learning · Statistics 2021-03-01 Yuanqing Wang , Theofanis Karaletsos

Graph neural networks (GNNs) are widely used for learning node embeddings in graphs, typically adopting a message-passing scheme. This approach, however, leads to the neighbor explosion problem, with exponentially growing computational and…

Machine Learning · Computer Science 2025-07-08 Zichao Yue , Chenhui Deng , Zhiru Zhang

Graph neural networks (GNNs) have exhibited state-of-the-art performance across wide-range of domains such as recommender systems, material design, and drug repurposing. Yet message-passing GNNs suffer from over-squashing -- exponential…

Machine Learning · Computer Science 2025-08-14 Danial Saber , Amirali Salehi-Abari

We present a novel edge-level ego-network encoding for learning on graphs that can boost Message Passing Graph Neural Networks (MP-GNNs) by providing additional node and edge features or extending message-passing formats. The proposed…

Machine Learning · Computer Science 2024-05-03 Nurudin Alvarez-Gonzalez , Andreas Kaltenbrunner , Vicenç Gómez

In this paper, we explore the approximation theory of functions defined on graphs. Our study builds upon the approximation results derived from the $K$-functional. We establish a theoretical framework to assess the lower bounds of…

Machine Learning · Computer Science 2024-08-06 Guangrui Yang , Jianfei Li , Ming Li , Han Feng , Ding-Xuan Zhou

The message-passing paradigm of Graph Neural Networks often struggles with exchanging information across distant nodes typically due to structural bottlenecks in certain graph regions, a limitation known as \textit{over-squashing}. To…

Machine Learning · Computer Science 2025-06-23 Langzhang Liang , Fanchen Bu , Zixing Song , Zenglin Xu , Shirui Pan , Kijung Shin

Message passing neural networks iteratively generate node embeddings by aggregating information from neighboring nodes. With increasing depth, information from more distant nodes is included. However, node embeddings may be unable to…

Machine Learning · Computer Science 2024-03-29 Franka Bause , Samir Moustafa , Johannes Langguth , Wilfried N. Gansterer , Nils M. Kriege

Graph Neural Networks (GNNs) leverage the graph structure to transmit information between nodes, typically through the message-passing mechanism. While these models have found a wide variety of applications, they are known to suffer from…

Machine Learning · Computer Science 2025-10-23 Hugh Blayney , Álvaro Arroyo , Xiaowen Dong , Michael M. Bronstein

A common issue in Graph Neural Networks (GNNs) is known as over-smoothing. By increasing the number of iterations within the message-passing of GNNs, the nodes' representations of the input graph align with each other and become…

Machine Learning · Computer Science 2021-10-22 Christian M. M. Frey , Yunpu Ma , Matthias Schubert