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Graph neural network (GNN) inference faces significant bottlenecks in preprocessing, which often dominate overall inference latency. We introduce AutoGNN, an FPGA-based accelerator designed to address these challenges by leveraging FPGA's…

Graph neural networks (GNNs) are powerful tools for exploring and learning from graph structures and features. As such, achieving high-performance execution for GNNs becomes crucially important. Prior works have proposed to explore the…

Distributed, Parallel, and Cluster Computing · Computer Science 2023-05-30 Yangjie Zhou , Yaoxu Song , Jingwen Leng , Zihan Liu , Weihao Cui , Zhendong Zhang , Cong Guo , Quan Chen , Li Li , Minyi Guo

Graph neural networks (GNNs) have gained significant interest for applications such as citation network analysis and drug discovery due to their ability to apply machine learning techniques on graph-structured data. GNNs typically employ a…

Hardware Architecture · Computer Science 2026-05-28 Siddhartha Raman Sundara Raman , Lizy John , Jaydeep P. Kulkarni

Molecular dynamics simulations can generate atomically detailed trajectories of complex systems, but analyzing these dynamics can be challenging when systems lack well-established quantitative descriptors (features). Graph neural networks…

Machine Learning · Computer Science 2025-12-09 Zihan Pengmei , Spencer C. Guo , Chatipat Lorpaiboon , Aaron R. Dinner

Machine learning over graphs have been emerging as powerful learning tools for graph data. However, it is challenging for industrial communities to leverage the techniques, such as graph neural networks (GNNs), and solve real-world problems…

Social and Information Networks · Computer Science 2020-03-17 Dalong Zhang , Xin Huang , Ziqi Liu , Zhiyang Hu , Xianzheng Song , Zhibang Ge , Zhiqiang Zhang , Lin Wang , Jun Zhou , Yang Shuang , Yuan Qi

Effectively predicting molecular interactions has the potential to accelerate molecular dynamics by multiple orders of magnitude and thus revolutionize chemical simulations. Graph neural networks (GNNs) have recently shown great successes…

Computational Physics · Physics 2024-06-25 Johannes Gasteiger , Florian Becker , Stephan Günnemann

Time series forecasting lies at the core of important real-world applications in many fields of science and engineering. The abundance of large time series datasets that consist of complex patterns and long-term dependencies has led to the…

Machine Learning · Computer Science 2023-12-01 Nancy Xu , Chrysoula Kosma , Michalis Vazirgiannis

We propose a mask pretraining method for Graph Neural Networks (GNNs) to improve their performance on fitting potential energy surfaces, particularly in water systems. GNNs are pretrained by recovering spatial information related to…

Machine Learning · Computer Science 2024-06-21 Zehua Zhang , Zijie Li , Amir Barati Farimani

The advent of machine learning in materials science opens the way for exciting and ambitious simulations of large systems and long time scales with the accuracy of ab-initio calculations. Recently, several pre-trained universal machine…

Materials Science · Physics 2024-06-28 Luis Casillas-Trujillo , Abhijith S. Parackal , Rickard Armiento , Björn Alling

Machine-learned interatomic potentials have revolutionized molecular dynamics simulations by providing quantum-mechanical accuracy at empirical-potential speeds. The graphics processing unit molecular dynamics (GPUMD) package, featuring the…

Generative models generate vast numbers of hypothetical materials, necessitating fast, accurate models for property prediction. Graph Neural Networks (GNNs) excel in this domain but face challenges like high training costs, domain…

Materials Science · Physics 2025-01-08 Hongwei Du , Jiamin Wang , Jian Hui , Lanting Zhang , Hong Wang

The development of machine learning interatomic potentials has immensely contributed to the accuracy of simulations of molecules and crystals. However, creating interatomic potentials for magnetic systems that account for both magnetic…

Computational Physics · Physics 2024-04-30 Hongyu Yu , Yang Zhong , Liangliang Hong , Changsong Xu , Wei Ren , Xingao Gong , Hongjun Xiang

Machine-learning interatomic potentials have revolutionized materials modeling at the atomic scale. Thanks to these, it is now indeed possible to perform simulations of \abinitio quality over very large time and length scales. More…

Materials Science · Physics 2024-07-23 Haochen Yu , Matteo Giantomassi , Giuliana Materzanini , Junjie Wang , Gian-Marco Rignanese

Many real world graphs contain time domain information. Temporal Graph Neural Networks capture temporal information as well as structural and contextual information in the generated dynamic node embeddings. Researchers have shown that these…

Machine Learning · Computer Science 2022-07-04 Hongkuan Zhou , Da Zheng , Israt Nisa , Vasileios Ioannidis , Xiang Song , George Karypis

Graph Convolutional Networks (GCNs) are widely used in graph-based applications, such as social networks and recommendation systems. Nevertheless, large-scale graphs or deep aggregation layers in full-batch GCNs consume significant GPU…

Machine Learning · Computer Science 2024-10-15 Shengwei Ji , Yujie Tian , Fei Liu , Xinlu Li , Le Wu

Graph Convolutional Networks (GCNs) have emerged as the state-of-the-art deep learning model for representation learning on graphs. It is challenging to accelerate training of GCNs, due to (1) substantial and irregular data communication to…

Distributed, Parallel, and Cluster Computing · Computer Science 2020-01-09 Hanqing Zeng , Viktor Prasanna

Graph Neural Networks (GNNs) is a promising approach for applications with nonEuclidean data. However, training GNNs on large scale graphs with hundreds of millions nodes is both resource and time consuming. Different from DNNs, GNNs…

Machine Learning · Computer Science 2023-02-20 Yuxin Ma , Ping Gong , Jun Yi , Zhewei Yao , Cheng Li , Yuxiong He , Feng Yan

With the advent of system-in-package (SiP) chiplet-based design and heterogeneous 2.5D/3D integration, thermal-induced warpage has become a critical reliability concern. While conventional numerical approaches can deliver highly accurate…

Hardware Architecture · Computer Science 2026-03-20 Haotian Lu , Jincong Lu , Sachin Sachdeva , Sheldon X. -D. Tan

Nonlinear finite element crash simulations are accurate but computationally expensive, limiting their use in iterative design optimisation. Machine-learning surrogate models based on graph neural networks (GNNs) offer a faster alternative.…

Machine Learning · Computer Science 2026-05-18 Haoran Li , Tobias Lehrer , Yingxue Zhao , Haosu Zhou , Philipp Stocker , Tobias Pfaff , Nan Li

Foundation models of interatomic potentials, so called universal potentials, may require fine-tuning or residual corrections when applied to specific subclasses of materials. In the present work, we demonstrate how such augmentation can be…

Materials Science · Physics 2025-05-12 Mads-Peter Verner Christiansen , Bjørk Hammer
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