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Accurate identification of protein binding sites is crucial for understanding biomolecular interaction mechanisms and for the rational design of drug targets. Traditional predictive methods often struggle to balance prediction accuracy with…

Machine Learning · Computer Science 2026-01-06 Weisen Yang , Hanqing Zhang , Wangren Qiu , Xuan Xiao , Weizhong Lin

Lots of neural network architectures have been proposed to deal with learning tasks on graph-structured data. However, most of these models concentrate on only node features during the learning process. The edge features, which usually play…

Machine Learning · Computer Science 2021-01-20 Jun Chen , Haopeng Chen

Accurate phase equilibria are foundational to alloy design because they encode the underlying thermodynamics governing stability, transformations, and processing windows. However, while the CALculation of Phase Diagrams (CALPHAD) provides a…

Machine Learning · Computer Science 2026-04-21 Eunjeong Park , Amrita Basak

Graph convolutional network (GCN) is generalization of convolutional neural network (CNN) to work with arbitrarily structured graphs. A binary adjacency matrix is commonly used in training a GCN. Recently, the attention mechanism allows the…

Machine Learning · Statistics 2022-03-03 Chao Shang , Qinqing Liu , Ko-Shin Chen , Jiangwen Sun , Jin Lu , Jinfeng Yi , Jinbo Bi

Graph Attention Networks(GATs) are useful deep learning models to deal with the graph data. However, recent works show that the classical GAT is vulnerable to adversarial attacks. It degrades dramatically with slight perturbations.…

Machine Learning · Computer Science 2022-08-05 Xianchen Zhou , Yaoyun Zeng , Hongxia Wang

Graph Neural Networks (GNNs) have shown remarkable success in graph representation learning. Unfortunately, current weight assignment schemes in standard GNNs, such as the calculation based on node degrees or pair-wise representations, can…

Machine Learning · Computer Science 2024-07-02 Junfu Wang , Yuanfang Guo , Liang Yang , Yunhong Wang

There has been a recent surge in transformer-based architectures for learning on graphs, mainly motivated by attention as an effective learning mechanism and the desire to supersede handcrafted operators characteristic of message passing…

Machine Learning · Computer Science 2025-06-10 David Buterez , Jon Paul Janet , Dino Oglic , Pietro Lio

Learning-based methods have become increasingly popular for solving vehicle routing problems due to their near-optimal performance and fast inference speed. Among them, the combination of deep reinforcement learning and graph representation…

Machine Learning · Computer Science 2024-05-22 Zhenwei Wang , Ruibin Bai , Fazlullah Khan , Ender Ozcan , Tiehua Zhang

Graph Attention Network (GAT) is one of the most popular Graph Neural Network (GNN) architecture, which employs the attention mechanism to learn edge weights and has demonstrated promising performance in various applications. However, since…

Machine Learning · Computer Science 2024-03-05 Qincheng Lu , Jiaqi Zhu , Sitao Luan , Xiao-Wen Chang

A large number of real-world networks include multiple types of nodes and edges. Graph Neural Network (GNN) emerged as a deep learning framework to generate node and graph embeddings for downstream machine learning tasks. However, popular…

Machine Learning · Computer Science 2024-11-26 Ziynet Nesibe Kesimoglu , Serdar Bozdag

We propose an extension to the transformer neural network architecture for general-purpose graph learning by adding a dedicated pathway for pairwise structural information, called edge channels. The resultant framework - which we call…

Machine Learning · Computer Science 2022-06-06 Md Shamim Hussain , Mohammed J. Zaki , Dharmashankar Subramanian

We present graph attention networks (GATs), novel neural network architectures that operate on graph-structured data, leveraging masked self-attentional layers to address the shortcomings of prior methods based on graph convolutions or…

Machine Learning · Statistics 2018-02-06 Petar Veličković , Guillem Cucurull , Arantxa Casanova , Adriana Romero , Pietro Liò , Yoshua Bengio

This paper presents a novel graph-based deep learning model for tasks involving relations between two nodes (edge-centric tasks), where the focus lies on predicting relationships and interactions between pairs of nodes rather than node…

Machine Learning · Computer Science 2025-07-08 Eugenio Borzone , Leandro Di Persia , Matias Gerard

Spotting graphical symbols from the computer-aided design (CAD) drawings is essential to many industrial applications. Different from raster images, CAD drawings are vector graphics consisting of geometric primitives such as segments, arcs,…

Computer Vision and Pattern Recognition · Computer Science 2022-01-11 Zhaohua Zheng , Jianfang Li , Lingjie Zhu , Honghua Li , Frank Petzold , Ping Tan

Graph anomaly detection on attributed networks has become a prevalent research topic due to its broad applications in many influential domains. In real-world scenarios, nodes and edges in attributed networks usually display distinct…

Social and Information Networks · Computer Science 2022-08-18 Shujie Yang , Binchi Zhang , Shangbin Feng , Zhaoxuan Tan , Qinghua Zheng , Jun Zhou , Minnan Luo

Machine learning (ML) methods have gained increasing popularity in exploring and developing new materials. More specifically, graph neural network (GNN) has been applied in predicting material properties. In this work, we develop a novel…

Computational Physics · Physics 2020-08-18 Steph-Yves Louis , Yong Zhao , Alireza Nasiri , Xiran Wong , Yuqi Song , Fei Liu , Jianjun Hu

We propose the Quantum Graph Attention Network (QGAT), a hybrid graph neural network that integrates variational quantum circuits into the attention mechanism. At its core, QGAT employs strongly entangling quantum circuits with…

Machine Learning · Computer Science 2025-08-29 An Ning , Tai Yue Li , Nan Yow Chen

Knowledge graph embedding methods learn embeddings of entities and relations in a low dimensional space which can be used for various downstream machine learning tasks such as link prediction and entity matching. Various graph convolutional…

Machine Learning · Computer Science 2021-02-16 Nasrullah Sheikh , Xiao Qin , Berthold Reinwald , Christoph Miksovic , Thomas Gschwind , Paolo Scotton

Graph neural network, as a powerful graph representation technique based on deep learning, has shown superior performance and attracted considerable research interest. However, it has not been fully considered in graph neural network for…

Social and Information Networks · Computer Science 2021-01-21 Xiao Wang , Houye Ji , Chuan Shi , Bai Wang , Peng Cui , P. Yu , Yanfang Ye

Since their introduction, graph attention networks achieved outstanding results in graph representation learning tasks. However, these networks consider only pairwise relationships among nodes and then they are not able to fully exploit…

Machine Learning · Computer Science 2022-09-20 Lorenzo Giusti , Claudio Battiloro , Lucia Testa , Paolo Di Lorenzo , Stefania Sardellitti , Sergio Barbarossa
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