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Molecular property prediction is a critical task in computational drug discovery. While recent advances in Graph Neural Networks (GNNs) and Transformers have shown to be effective and promising, they face the following limitations:…

Four adaptations of the smoothed aggregation algebraic multigrid (SA-AMG) method are proposed with an eye towards improving the convergence and robustness of the solver in situations when the discretization matrix contains many weak…

Numerical Analysis · Mathematics 2021-03-22 Jonathan J. Hu , Chris Siefert , Raymond S. Tuminaro

Most Graph Neural Networks (GNNs) propagate messages by treating node embeddings as holistic feature vectors, implicitly assuming uniform relevance across feature dimensions. This limits their ability to selectively transmit informative…

Machine Learning · Computer Science 2025-12-24 Longlong Li , Mengyang Zhao , Guanghui Wang , Cunquan Qu

Learning correspondences aims to find correct correspondences (inliers) from the initial correspondence set with an uneven correspondence distribution and a low inlier rate, which can be regarded as graph data. Recent advances usually use…

Computer Vision and Pattern Recognition · Computer Science 2024-01-11 Luanyuan Dai , Xiaoyu Du , Hanwang Zhang , Jinhui Tang

We analyze graph smoothing with \emph{mean aggregation}, where each node successively receives the average of the features of its neighbors. Indeed, it has quickly been observed that Graph Neural Networks (GNNs), which generally follow some…

Machine Learning · Statistics 2022-10-11 Nicolas Keriven

In many machine learning tasks, models are trained to predict structure data such as graphs. For example, in natural language processing, it is very common to parse texts into dependency trees or abstract meaning representation (AMR)…

Computation and Language · Computer Science 2022-01-25 Hoang Thanh Lam , Gabriele Picco , Yufang Hou , Young-Suk Lee , Lam M. Nguyen , Dzung T. Phan , Vanessa López , Ramon Fernandez Astudillo

We study the generalization capabilities of Message Passing Neural Networks (MPNNs), a prevalent class of Graph Neural Networks (GNN). We derive generalization bounds specifically for MPNNs with normalized sum aggregation and mean…

Machine Learning · Computer Science 2024-04-05 Sohir Maskey , Gitta Kutyniok , Ron Levie

Under circumstances of heterophily, where nodes with different labels tend to be connected based on semantic meanings, Graph Neural Networks (GNNs) often exhibit suboptimal performance. Current studies on graph heterophily mainly focus on…

Machine Learning · Computer Science 2024-11-13 Yilun Zheng , Jiahao Xu , Lihui Chen

There has been significant progress in improving the performance of graph neural networks (GNNs) through enhancements in graph data, model architecture design, and training strategies. For fairness in graphs, recent studies achieve fair…

Machine Learning · Computer Science 2023-12-20 Zhimeng Jiang , Xiaotian Han , Chao Fan , Zirui Liu , Na Zou , Ali Mostafavi , Xia Hu

Sequence set is a widely-used type of data source in a large variety of fields. A typical example is protein structure prediction, which takes an multiple sequence alignment (MSA) as input and aims to infer structural information from it.…

Biomolecules · Quantitative Biology 2019-06-27 Fusong Ju , Jianwei Zhu , Guozheng Wei , Qi Zhang , Shiwei Sun , Dongbo Bu

Graph contrastive learning is usually performed by first conducting Graph Data Augmentation (GDA) and then employing a contrastive learning pipeline to train GNNs. As we know that GDA is an important issue for graph contrastive learning.…

Machine Learning · Computer Science 2024-01-09 Ziyan Zhang , Bo Jiang , Jin Tang , Bin Luo

The expressive power of message-passing graph neural networks (MPNNs) is reasonably well understood, primarily through combinatorial techniques from graph isomorphism testing. However, MPNNs' generalization abilities -- making meaningful…

Machine Learning · Computer Science 2024-12-11 Antonis Vasileiou , Ben Finkelshtein , Floris Geerts , Ron Levie , Christopher Morris

Session-based recommendation systems suggest relevant items to users by modeling user behavior and preferences using short-term anonymous sessions. Existing methods leverage Graph Neural Networks (GNNs) that propagate and aggregate…

Information Retrieval · Computer Science 2022-01-10 Sai Mitheran , Abhinav Java , Surya Kant Sahu , Arshad Shaikh

Graph deep learning models, a class of AI-driven approaches employing a message aggregation mechanism, have gained popularity for analyzing the functional brain connectome in neuroimaging. However, their actual effectiveness remains…

Neural and Evolutionary Computing · Computer Science 2026-02-10 Keqi Han , Yao Su , Lifang He , Liang Zhan , Sergey Plis , Vince Calhoun , Carl Yang

Graphs model latent variable relationships in many real-world systems, and Message Passing Neural Networks (MPNNs) are widely used to learn such structures for downstream tasks. While edge-based MPNNs effectively capture local interactions,…

Machine Learning · Computer Science 2025-11-27 Thomas Bailie , Yun Sing Koh , Karthik Mukkavilli

Crowd counting is an important yet challenging task due to the large scale and density variation. Recent investigations have shown that distilling rich relations among multi-scale features and exploiting useful information from the…

Computer Vision and Pattern Recognition · Computer Science 2020-02-04 Ao Luo , Fan Yang , Xin Li , Dong Nie , Zhicheng Jiao , Shangchen Zhou , Hong Cheng

Message-passing neural networks (MPNNs) are the leading architecture for deep learning on graph-structured data, in large part due to their simplicity and scalability. Unfortunately, it was shown that these architectures are limited in…

The collaborative filtering (CF) problem with only user-item interaction information can be solved by graph signal processing (GSP), which uses low-pass filters to smooth the observed interaction signals on the similarity graph to obtain…

Information Retrieval · Computer Science 2023-02-07 Jiahao Liu , Dongsheng Li , Hansu Gu , Tun Lu , Peng Zhang , Li Shang , Ning Gu

Graph neural networks (GNNs) have achieved significant success in various applications. Most GNNs learn the node features with information aggregation of its neighbors and feature transformation in each layer. However, the node features…

Machine Learning · Computer Science 2024-07-30 Dongzhuoran Zhou , Hui Yang , Bo Xiong , Yue Ma , Evgeny Kharlamov

Receiver algorithms which combine belief propagation (BP) with the mean field (MF) approximation are well-suited for inference of both continuous and discrete random variables. In wireless scenarios involving detection of multiple signals,…

Information Theory · Computer Science 2016-04-19 Daniel J. Jakubisin , R. Michael Buehrer , Claudio R. C. M. da Silva
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