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Directed graphs are a natural model for many phenomena, in particular scientific knowledge graphs such as molecular interaction or chemical reaction networks that define cellular signaling relationships. In these situations, source nodes…

Graph autoencoders (GAEs) and graph contrastive learning (GCL) are two major paradigms for self-supervised representation learning on graphs, yet they are often studied in isolation and treated as fundamentally different approaches. In this…

Machine Learning · Computer Science 2026-05-28 Jintang Li , Ruofan Wu , Yuchang Zhu , Huizhe Zhang , Zulun Zhu , Liang Chen

The rise of graph representation learning as the primary solution for many different network science tasks led to a surge of interest in the fairness of this family of methods. Link prediction, in particular, has a substantial social…

Machine Learning · Computer Science 2023-02-23 Indro Spinelli , Riccardo Bianchini , Simone Scardapane

Structured variational autoencoders (SVAEs) combine probabilistic graphical model priors on latent variables, deep neural networks to link latent variables to observed data, and structure-exploiting algorithms for approximate posterior…

Machine Learning · Statistics 2023-05-29 Yixiu Zhao , Scott W. Linderman

The Transformer architecture has recently gained considerable attention in the field of graph representation learning, as it naturally overcomes several limitations of Graph Neural Networks (GNNs) with customized attention mechanisms or…

Machine Learning · Computer Science 2025-04-01 Jianqing Liang , Min Chen , Jiye Liang

Directed graphs naturally model systems with asymmetric, ordered relationships, essential to applications in biology, transportation, social networks, and visual understanding. Generating such graphs enables tasks such as simulation, data…

Machine Learning · Computer Science 2026-02-20 Alba Carballo-Castro , Manuel Madeira , Yiming Qin , Dorina Thanou , Pascal Frossard

Generative models of graph structure have applications in biology and social sciences. The state of the art is GraphRNN, which decomposes the graph generation process into a series of sequential steps. While effective for modest sizes, it…

Machine Learning · Computer Science 2019-10-18 Tony Duan , Juho Lee

The variational autoencoder (VAE; Kingma, Welling (2014)) is a recently proposed generative model pairing a top-down generative network with a bottom-up recognition network which approximates posterior inference. It typically makes strong…

Machine Learning · Computer Science 2016-11-08 Yuri Burda , Roger Grosse , Ruslan Salakhutdinov

Variational Graph Autoencoders (VGAEs) are powerful models for unsupervised learning of node representations from graph data. In this work, we systematically analyze modeling node attributes in VGAEs and show that attribute decoding is…

Machine Learning · Computer Science 2022-12-06 Xiaohui Chen , Xi Chen , Liping Liu

Although graph-based learning has attracted a lot of attention, graph representation learning is still a challenging task whose resolution may impact key application fields such as chemistry or biology. To this end, we introduce GRALE, a…

Machine Learning · Computer Science 2025-10-21 Paul Krzakala , Gabriel Melo , Charlotte Laclau , Florence d'Alché-Buc , Rémi Flamary

Classical graph modeling approaches such as Erd\H{o}s R\'{e}nyi (ER) random graphs or Barab\'asi-Albert (BA) graphs, here referred to as stylized models, aim to reproduce properties of real-world graphs in an interpretable way. While…

Social and Information Networks · Computer Science 2021-05-05 Cristina Guzman , Daphna Keidar , Tristan Meynier , Andreas Opedal , Niklas Stoehr

Adversarial training is an approach for increasing model's resilience against adversarial perturbations. Such approaches have been demonstrated to result in models with feature representations that generalize better. However, limited works…

Machine Learning · Computer Science 2021-08-05 Tianjin Huang , Yulong Pei , Vlado Menkovski , Mykola Pechenizkiy

Graph embedding is a transformation of nodes of a graph into a set of vectors. A~good embedding should capture the graph topology, node-to-node relationship, and other relevant information about the graph, its subgraphs, and nodes. If these…

Social and Information Networks · Computer Science 2022-06-22 Arash Dehghan-Kooshkghazi , Bogumił Kamiński , Łukasz Kraiński , Paweł Prałat , François Théberge

Graph neural networks (GNNs) have emerged as a powerful framework for a wide range of node-level graph learning tasks. However, their performance typically depends on random or minimally informed initial feature representations, where poor…

Machine Learning · Computer Science 2026-02-24 Shiyu Chen , Cencheng Shen , Youngser Park , Carey E. Priebe

Graph Neural Networks (GNNs) and Variational Autoencoders (VAEs) have been widely used in modeling and generating graphs with latent factors. However, there is no clear explanation of what these latent factors are and why they perform well.…

Machine Learning · Computer Science 2020-11-19 Jia Li , Tomasyu Yu , Jiajin Li , Honglei Zhang , Kangfei Zhao , YU Rong , Hong Cheng , Junzhou Huang

Anomaly detection without priors of the anomalies is challenging. In the field of unsupervised anomaly detection, traditional auto-encoder (AE) tends to fail based on the assumption that by training only on normal images, the model will not…

Computer Vision and Pattern Recognition · Computer Science 2024-08-15 Yajie Cui , Zhaoxiang Liu , Shiguo Lian

Distance based knowledge graph embedding methods show promising results on link prediction task, on which two topics have been widely studied: one is the ability to handle complex relations, such as N-to-1, 1-to-N and N-to-N, the other is…

Computation and Language · Computer Science 2021-05-19 Linlin Chao , Jianshan He , Taifeng Wang , Wei Chu

The recent proliferation of publicly available graph-structured data has sparked an interest in machine learning algorithms for graph data. Since most traditional machine learning algorithms assume data to be tabular, embedding algorithms…

Machine Learning · Computer Science 2019-08-09 Sourav Mukherjee , Tim Oates , Ryan Wright

Graph auto-encoders have proved to be useful in network embedding task. However, current models only consider explicit structures and fail to explore the informative latent structures cohered in networks. To address this issue, we propose a…

Machine Learning · Computer Science 2021-10-01 Minglong Lei , Yong Shi , Lingfeng Niu

Understanding stock market instability is a key question in financial management as practitioners seek to forecast breakdowns in asset co-movements which expose portfolios to rapid and devastating collapses in value. The structure of these…

Computational Engineering, Finance, and Science · Computer Science 2022-12-12 Dragos Gorduza , Xiaowen Dong , Stefan Zohren
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