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Graph Neural Networks (GNNs) extend the success of neural networks to graph-structured data by accounting for their intrinsic geometry. While extensive research has been done on developing GNN models with superior performance according to a…

Neural Architecture Representation Learning aims to transform network models into feature representations for predicting network attributes, playing a crucial role in deploying and designing networks for real-world applications. Recently,…

Machine Learning · Computer Science 2025-06-10 Haizhao Jing , Haokui Zhang , Zhenhao Shang , Rong Xiao , Peng Wang , Yanning Zhang

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.…

Graph foundation models represent a transformative paradigm for learning transferable representations across diverse graph domains. Recent methods leverage large language models to unify graph and text modalities into a shared…

Machine Learning · Computer Science 2025-12-23 Heng Zhang , Tianyi Zhang , Yuling Shi , Xiaodong Gu , Yaomin Shen , Haochen You , Zijian Zhang , Yilei Yuan , Jin Huang

Graph Transformers excel in long-range dependency modeling, but generally require quadratic memory complexity in the number of nodes in an input graph, and hence have trouble scaling to large graphs. Sparse attention variants such as…

Machine Learning · Computer Science 2024-11-26 Hamed Shirzad , Honghao Lin , Balaji Venkatachalam , Ameya Velingker , David Woodruff , Danica Sutherland

Recently, transformers have shown promising performance in learning graph representations. However, there are still some challenges when applying transformers to real-world scenarios due to the fact that deep transformers are hard to train…

Machine Learning · Computer Science 2022-05-13 Sixiao Zhang , Hongxu Chen , Haoran Yang , Xiangguo Sun , Philip S. Yu , Guandong Xu

Transformers have become pivotal in Natural Language Processing, demonstrating remarkable success in applications like Machine Translation and Summarization. Given their widespread adoption, several works have attempted to analyze the…

Machine Learning · Computer Science 2024-09-02 Swaroop Nath , Harshad Khadilkar , Pushpak Bhattacharyya

Despite recent successes in natural language processing and computer vision, Transformer suffers from the scalability problem when dealing with graphs. The computational complexity is unacceptable for large-scale graphs, e.g., knowledge…

Machine Learning · Computer Science 2022-02-23 Lingbing Guo , Qiang Zhang , Huajun Chen

In the last decade or so, we have witnessed deep learning reinvigorating the machine learning field. It has solved many problems in the domains of computer vision, speech recognition, natural language processing, and various other tasks…

Machine Learning · Computer Science 2021-09-09 Lilapati Waikhom , Ripon Patgiri

Graph Neural Networks (GNNs) are a powerful representational tool for solving problems on graph-structured inputs. In almost all cases so far, however, they have been applied to directly recovering a final solution from raw inputs, without…

Machine Learning · Statistics 2020-01-16 Petar Veličković , Rex Ying , Matilde Padovano , Raia Hadsell , Charles Blundell

This work focuses on training graph foundation models (GFMs) that have strong generalization ability in graph-level tasks such as graph classification. Effective GFM training requires capturing information consistent across different…

Machine Learning · Computer Science 2026-03-10 Ziheng Sun , Qi Feng , Lehao Lin , Chris Ding , Jicong Fan

Transformers have achieved great success in several domains, including Natural Language Processing and Computer Vision. However, its application to real-world graphs is less explored, mainly due to its high computation cost and its poor…

Machine Learning · Computer Science 2023-01-31 Weilin Cong , Yanhong Wu , Yuandong Tian , Mengting Gu , Yinglong Xia , Chun-cheng Jason Chen , Mehrdad Mahdavi

Graph neural networks have been extensively studied for learning with inter-connected data. Despite this, recent evidence has revealed GNNs' deficiencies related to over-squashing, heterophily, handling long-range dependencies, edge…

Machine Learning · Computer Science 2023-06-16 Qitian Wu , Wentao Zhao , Zenan Li , David Wipf , Junchi Yan

Graph neural networks (GNNs) are effective machine learning models for various graph learning problems. Despite their empirical successes, the theoretical limitations of GNNs have been revealed recently. Consequently, many GNN models have…

Machine Learning · Computer Science 2020-10-19 Ryoma Sato

Transformers have achieved remarkable success in time series modeling, yet their internal mechanisms remain opaque. This work demystifies the Transformer encoder by establishing its fundamental equivalence to a Graph Convolutional Network…

Machine Learning · Computer Science 2025-10-21 Chen Zhang , Weixin Bu , Wendong Xu , Runsheng Yu , Yik-Chung Wu , Ngai Wong

Graph neural networks are powerful architectures for structured datasets. However, current methods struggle to represent long-range dependencies. Scaling the depth or width of GNNs is insufficient to broaden receptive fields as larger GNNs…

Machine Learning · Computer Science 2022-01-24 Zhanghao Wu , Paras Jain , Matthew A. Wright , Azalia Mirhoseini , Joseph E. Gonzalez , Ion Stoica

Graphs serve as fundamental descriptors for systems composed of interacting elements, capturing a wide array of data types, from molecular interactions to social networks and knowledge graphs. In this paper, we present an exhaustive review…

Machine Learning · Computer Science 2024-11-13 Chenqing Hua

Graph Transformers have recently been successful in various graph representation learning tasks, providing a number of advantages over message-passing Graph Neural Networks. Utilizing Graph Transformers for learning the representation of…

Neurons and Cognition · Quantitative Biology 2023-12-27 Byung-Hoon Kim , Jungwon Choi , EungGu Yun , Kyungsang Kim , Xiang Li , Juho Lee

Graph Neural Networks (GNNs) have exploded onto the machine learning scene in recent years owing to their capability to model and learn from graph-structured data. Such an ability has strong implications in a wide variety of fields whose…

Machine Learning · Computer Science 2021-07-26 Sergi Abadal , Akshay Jain , Robert Guirado , Jorge López-Alonso , Eduard Alarcón

Graphs are the natural data structure to represent relational and structural information in many domains. To cover the broad range of graph-data applications including graph classification as well as graph generation, it is desirable to…

Machine Learning · Computer Science 2020-06-11 Sanghyun Yoo , Young-Seok Kim , Kang Hyun Lee , Kuhwan Jeong , Junhwi Choi , Hoshik Lee , Young Sang Choi
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