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We consider graph representation learning in a self-supervised manner. Graph neural networks (GNNs) use neighborhood aggregation as a core component that results in feature smoothing among nodes in proximity. While successful in various…

Machine Learning · Computer Science 2021-07-20 Wei Zhuo , Guang Tan

Motivation: Molecular interaction networks summarize complex biological processes as graphs, whose structure is informative of biological function at multiple scales. Simultaneously, omics technologies measure the variation or activity of…

Quantitative Methods · Quantitative Biology 2020-12-24 Ramin Hasibi , Tom Michoel

Entity alignment (EA) which links equivalent entities across different knowledge graphs (KGs) plays a crucial role in knowledge fusion. In recent years, graph neural networks (GNNs) have been successfully applied in many embedding-based EA…

Computation and Language · Computer Science 2023-05-01 Feng Xie , Xiang Zeng , Bin Zhou , Yusong Tan

Generating realistic graph-structured data is challenging due to discrete connectivity, varying graph sizes, and class-specific structural patterns. Recent Generative Adversarial Networks (GAN)-based graph generation methods improve edge…

Machine Learning · Computer Science 2026-05-29 James Sargant , Seyedeh Ava Razi Razavi , Renata Dividino , Sheridan Houghten

Recent years have witnessed great success in handling graph-related tasks with Graph Neural Networks (GNNs). Despite their great academic success, Multi-Layer Perceptrons (MLPs) remain the primary workhorse for practical industrial…

Machine Learning · Computer Science 2024-03-07 Lirong Wu , Haitao Lin , Zhangyang Gao , Guojiang Zhao , Stan Z. Li

Attributed graph embedding, which learns vector representations from graph topology and node features, is a challenging task for graph analysis. Recently, methods based on graph convolutional networks (GCNs) have made great progress on this…

Machine Learning · Computer Science 2020-07-06 Ganqu Cui , Jie Zhou , Cheng Yang , Zhiyuan Liu

Contrastive deep graph clustering (CDGC) leverages the power of contrastive learning to group nodes into different clusters. The quality of contrastive samples is crucial for achieving better performance, making augmentation techniques a…

Machine Learning · Computer Science 2024-08-07 Xihong Yang , Erxue Min , Ke Liang , Yue Liu , Siwei Wang , Sihang Zhou , Huijun Wu , Xinwang Liu , En Zhu

The key to device-edge co-inference paradigm is to partition models into computation-friendly and computation-intensive parts across the device and the edge, respectively. However, for Graph Neural Networks (GNNs), we find that simply…

Machine Learning · Computer Science 2024-04-09 Ao Zhou , Jianlei Yang , Tong Qiao , Yingjie Qi , Zhi Yang , Weisheng Zhao , Chunming Hu

Heterogeneous graph neural networks have seen rapid progress in web applications such as social networks, knowledge graphs, and recommendation systems, driven by the inherent heterogeneity of web data. However, existing methods typically…

Machine Learning · Computer Science 2025-10-21 Guiquan Sun , Xikun Zhang , Jingchao Ni , Dongjin Song

We propose a novel iterative method to adapt a a graph to d-dimensional image data. The method drives the nodes of the graph towards image features. The adaptation process naturally lends itself to a measure of feature saliency which can…

Computer Vision and Pattern Recognition · Computer Science 2019-09-06 Alberto Gomez , Veronika A. Zimmer , Bishesh Khanal , Nicolas Toussaint , Julia A. Schnabel

While deep models have proved successful in learning rich knowledge from massive well-annotated data, they may pose a privacy leakage risk in practical deployment. It is necessary to find an effective trade-off between high utility and…

Machine Learning · Computer Science 2024-09-05 Shiming Ge , Bochao Liu , Pengju Wang , Yong Li , Dan Zeng

For graph self-supervised learning (GSSL), masked autoencoder (MAE) follows the generative paradigm and learns to reconstruct masked graph edges or node features. Contrastive Learning (CL) maximizes the similarity between augmented views of…

Machine Learning · Computer Science 2023-10-25 Yuxiang Wang , Xiao Yan , Chuang Hu , Fangcheng Fu , Wentao Zhang , Hao Wang , Shuo Shang , Jiawei Jiang

Graph Convolutional Neural Networks (GCNs) possess strong capabilities for processing graph data in non-grid domains. They can capture the topological logical structure and node features in graphs and integrate them into nodes' final…

Machine Learning · Computer Science 2024-03-26 Yinwei Wu

Knowledge distillation (KD) transfers knowledge from a teacher network to a student by enforcing the student to mimic the outputs of the pretrained teacher on training data. However, data samples are not always accessible in many cases due…

Machine Learning · Computer Science 2021-11-30 Xiang Deng , Zhongfei Zhang

In the real world, networks often contain multiple relationships among nodes, manifested as the heterogeneity of the edges in the networks. We convert the heterogeneous networks into multiple views by using each view to describe a specific…

Social and Information Networks · Computer Science 2021-03-15 Lu Wang , Yu Song , Hong Huang , Fanghua Ye , Xuanhua Shi , Hai Jin

We present two instances, L-GAE and L-VGAE, of the variational graph auto-encoding family (VGAE) based on separating feature propagation operations from graph convolution layers typically found in graph learning methods to a single linear…

Machine Learning · Computer Science 2019-10-22 Paul Scherer , Helena Andres-Terre , Pietro Lio , Mateja Jamnik

Graph neural networks (GNNs) encounter significant computational challenges when handling large-scale graphs, which severely restricts their efficacy across diverse applications. To address this limitation, graph condensation has emerged as…

Machine Learning · Computer Science 2023-12-12 Xinyi Gao , Tong Chen , Yilong Zang , Wentao Zhang , Quoc Viet Hung Nguyen , Kai Zheng , Hongzhi Yin

Auto-encoder models that preserve similarities in the data are a popular tool in representation learning. In this paper we introduce several auto-encoder models that preserve local distances when mapping from the data space to the latent…

Machine Learning · Computer Science 2022-10-03 Nutan Chen , Patrick van der Smagt , Botond Cseke

Graph condensation aims to reduce the size of a large-scale graph dataset by synthesizing a compact counterpart without sacrificing the performance of Graph Neural Networks (GNNs) trained on it, which has shed light on reducing the…

Machine Learning · Computer Science 2024-06-19 Yuchen Zhang , Tianle Zhang , Kai Wang , Ziyao Guo , Yuxuan Liang , Xavier Bresson , Wei Jin , Yang You

Many real-world problems require reasoning across multiple scales, demanding models which operate not on single data points, but on entire distributions. We introduce generative distribution embeddings (GDE), a framework that lifts…

Machine Learning · Computer Science 2026-02-23 Nic Fishman , Gokul Gowri , Peng Yin , Jonathan Gootenberg , Omar Abudayyeh
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