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Transformers are increasingly employed for graph data, demonstrating competitive performance in diverse tasks. To incorporate graph information into these models, it is essential to enhance node and edge features with positional encodings.…

Unsupervised graph representation learning aims to learn low-dimensional node embeddings without supervision while preserving graph topological structures and node attributive features. Previous graph neural networks (GNN) require a large…

Machine Learning · Computer Science 2020-09-04 Yanqiao Zhu , Yichen Xu , Feng Yu , Shu Wu , Liang Wang

Message passing-based graph neural networks (GNNs) have achieved great success in many real-world applications. For a sampled mini-batch of target nodes, the message passing process is divided into two parts: message passing between nodes…

Machine Learning · Computer Science 2025-02-28 Zhihao Shi , Jie Wang , Zhiwei Zhuang , Xize Liang , Bin Li , Feng Wu

We present Gradient Gating (G$^2$), a novel framework for improving the performance of Graph Neural Networks (GNNs). Our framework is based on gating the output of GNN layers with a mechanism for multi-rate flow of message passing…

Graph Neural Networks (GNNs) have recently been used for node and graph classification tasks with great success, but GNNs model dependencies among the attributes of nearby neighboring nodes rather than dependencies among observed node…

Machine Learning · Computer Science 2020-09-30 Mengyue Hang , Jennifer Neville , Bruno Ribeiro

Graph neural networks (GNNs) have been widely used in representation learning on graphs and achieved state-of-the-art performance in tasks such as node classification and link prediction. However, most existing GNNs are designed to learn…

Machine Learning · Computer Science 2020-02-06 Seongjun Yun , Minbyul Jeong , Raehyun Kim , Jaewoo Kang , Hyunwoo J. Kim

Despite much research, Graph Neural Networks (GNNs) still do not display the favorable scaling properties of other deep neural networks such as Convolutional Neural Networks and Transformers. Previous work has identified issues such as…

Machine Learning · Computer Science 2023-12-19 Ameen Ali , Hakan Cevikalp , Lior Wolf

Link Prediction (LP) is a crucial problem in graph-structured data. Graph Neural Networks (GNNs) have gained prominence in LP, with Graph AutoEncoders (GAEs) being a notable representation. However, our empirical findings reveal that GAEs'…

Machine Learning · Computer Science 2025-02-11 Yunhui Liu , Huaisong Zhang , Xinyi Gao , Liuye Guo , Zhen Tao , Tieke He

Graph neural networks (GNNs) have been successfully applied to learning representation on graphs in many relational tasks. Recently, researchers study neural architecture search (NAS) to reduce the dependence of human expertise and explore…

Machine Learning · Computer Science 2021-09-06 Shaofei Cai , Liang Li , Xinzhe Han , Zheng-jun Zha , Qingming Huang

Graphs are pervasive in the real-world, such as social network analysis, bioinformatics, and knowledge graphs. Graph neural networks (GNNs) have great ability in node classification, a fundamental task on graphs. Unfortunately, conventional…

Machine Learning · Computer Science 2024-09-05 Quan Li , Tianxiang Zhao , Lingwei Chen , Junjie Xu , Suhang Wang

In an ego-network, an individual (ego) organizes its friends (alters) in different groups (social circles). This social network can be efficiently analyzed after learning representations of the ego and its alters in a low-dimensional, real…

Social and Information Networks · Computer Science 2020-02-18 Fatemeh Salehi Rizi , Michael Granitzer , Konstantin Ziegler

Subgraph GNNs enhance message-passing GNNs expressivity by representing graphs as sets of subgraphs, demonstrating impressive performance across various tasks. However, their scalability is hindered by the need to process large numbers of…

Machine Learning · Computer Science 2025-06-02 Guy Bar-Shalom , Yam Eitan , Fabrizio Frasca , Haggai Maron

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

Quantum machine learning is a fast-emerging field that aims to tackle machine learning using quantum algorithms and quantum computing. Due to the lack of physical qubits and an effective means to map real-world data from Euclidean space to…

Quantum Physics · Physics 2024-01-22 Xing Ai , Zhihong Zhang , Luzhe Sun , Junchi Yan , Edwin Hancock

GraphRAG conditions language models on subgraphs retrieved from knowledge graphs, encoded via message-passing GNNs. Because these encoders entangle node contributions through iterated neighborhood aggregation, there is no closed-form way to…

Machine Learning · Computer Science 2026-05-22 Yoav Kor Sade , Arvindh Arun , Rishi Puri , Steffen Staab , Maya Bechler-Speicher

In this article, we utilize the concept of average controllability in graphs, along with a novel rank encoding method, to enhance the performance of Graph Neural Networks (GNNs) in social network classification tasks. GNNs have proven…

Machine Learning · Computer Science 2025-07-23 Anwar Said , Yifan Wei , Obaid Ullah Ahmad , Mudassir Shabbir , Waseem Abbas , Xenofon Koutsoukos

Graph are a ubiquitous data representation, as they represent a flexible and compact representation. For instance, the 3D structure of RNA can be efficiently represented as $\textit{2.5D graphs}$, graphs whose nodes are nucleotides and…

Machine Learning · Computer Science 2021-09-21 Vincent Mallet , Carlos G. Oliver , William L. Hamilton

Graph neural networks have become an important tool for modeling structured data. In many real-world systems, intricate hidden information may exist, e.g., heterogeneity in nodes/edges, static node/edge attributes, and spatiotemporal…

Machine Learning · Computer Science 2020-10-12 Yucheng Lin , Huiting Hong , Xiaoqing Yang , Xiaodi Yang , Pinghua Gong , Jieping Ye

Graph Neural Networks are notorious for its memory consumption. A recent Transformer-based GNN called Graph Transformer is shown to obtain superior performances when long range dependencies exist. However, combining graph data and…

Machine Learning · Computer Science 2024-03-25 Eugene Ku

Theoretical studies on the representation power of GNNs have been centered around understanding the equivalence of GNNs, using WL-Tests for detecting graph isomorphism. In this paper, we argue that such equivalence ignores the accompanying…

Machine Learning · Computer Science 2024-08-26 P. Krishna Kumar a , Harish G. Ramaswamy
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