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Advanced graph neural networks have shown great potentials in graph classification tasks recently. Different from node classification where node embeddings aggregated from local neighbors can be directly used to learn node labels, graph…

Machine Learning · Computer Science 2022-03-16 Hao Jia , Junzhong Ji , Minglong Lei

We present a novel graph neural network (GNN) architecture for retrieval-augmented generation (RAG) that leverages query-aware attention mechanisms and learned scoring heads to improve retrieval accuracy on complex, multi-hop questions.…

Information Retrieval · Computer Science 2025-08-11 Vibhor Agrawal , Fay Wang , Rishi Puri

Most deep neural networks are trained under fixed network architectures and require retraining when the architecture changes. If expanding the network's size is needed, it is necessary to retrain from scratch, which is expensive. To avoid…

Machine Learning · Computer Science 2023-11-09 Chau Pham , Piotr Teterwak , Soren Nelson , Bryan A. Plummer

Recent advances in deep learning have accelerated its use in various applications, such as cellular image analysis and molecular discovery. In molecular discovery, a generative adversarial network (GAN), which comprises a discriminator to…

Machine Learning · Computer Science 2023-04-13 Daniel Manu , Jingjing Yao , Wuji Liu , Xiang Sun

Large language models (LLMs) often struggle with knowledge-intensive tasks due to hallucinations and outdated parametric knowledge. While Retrieval-Augmented Generation (RAG) addresses this by integrating external corpora, its effectiveness…

Computation and Language · Computer Science 2026-02-04 Su Dong , Qinggang Zhang , Yilin Xiao , Shengyuan Chen , Chuang Zhou , Xiao Huang

Recent years have seen a rapid growth of utilizing graph neural networks (GNNs) in the biomedical domain for tackling drug-related problems. However, like any other deep architectures, GNNs are data hungry. While requiring labels in real…

Biological Physics · Physics 2022-05-03 Mengying Sun , Jing Xing , Huijun Wang , Bin Chen , Jiayu Zhou

Graph neural networks (GNNs) emerged recently as a standard toolkit for learning from data on graphs. Current GNN designing works depend on immense human expertise to explore different message-passing mechanisms, and require manual…

Machine Learning · Computer Science 2021-06-25 Shaofei Cai , Liang Li , Jincan Deng , Beichen Zhang , Zheng-Jun Zha , Li Su , Qingming Huang

Graph data often exhibits complex geometric heterogeneity, where structures with varying local curvature, such as tree-like hierarchies and dense communities, coexist within a single network. Existing geometric GNNs, which embed graphs into…

Machine Learning · Computer Science 2026-01-21 Xudong Wang , Chris Ding , Tongxin Li , Jicong Fan

While Annealing Machines (AM) have shown increasing capabilities in solving complex combinatorial problems, positioning themselves as a more immediate alternative to the expected advances of future fully quantum solutions, there are still…

Artificial Intelligence · Computer Science 2025-01-13 Pablo Loyola , Kento Hasegawa , Andres Hoyos-Idobro , Kazuo Ono , Toyotaro Suzumura , Yu Hirate , Masanao Yamaoka

Recent advances in graph learning have paved the way for innovative retrieval-augmented generation (RAG) systems that leverage the inherent relational structures in graph data. However, many existing approaches suffer from rigid, fixed…

Information Retrieval · Computer Science 2025-03-26 Yuan Li , Jun Hu , Jiaxin Jiang , Zemin Liu , Bryan Hooi , Bingsheng He

We propose a new neural network framework, termed Neural Network Machine Regression (NNMR), which integrates trainable input gating and adaptive depth regularization to jointly perform feature selection and function estimation in an…

Methodology · Statistics 2026-02-03 Jiuchen Zhang , Ling Zhou , Peter Song

Graph neural networks for molecular property prediction are frequently underspecified by data and fail to generalise to new scaffolds at test time. A potential solution is Bayesian learning, which can capture our uncertainty in the model…

Biomolecules · Quantitative Biology 2020-12-04 George Lamb , Brooks Paige

Subgraph matching is a fundamental problem in various fields that use graph structured data. Subgraph matching algorithms enumerate all isomorphic embeddings of a query graph q in a data graph G. An important branch of matching algorithms…

Machine Learning · Computer Science 2022-04-01 Hanchen Wang , Ying Zhang , Lu Qin , Wei Wang , Wenjie Zhang , Xuemin Lin

Graph Neural Networks (GNNs) have been popularly used for analyzing non-Euclidean data such as social network data and biological data. Despite their success, the design of graph neural networks requires a lot of manual work and domain…

Machine Learning · Computer Science 2020-11-03 Yang Gao , Hong Yang , Peng Zhang , Chuan Zhou , Yue Hu

Neural Architecture Search (NAS) automates the design of high-performing neural networks but typically targets a single predefined task, thereby restricting its real-world applicability. To address this, Meta Neural Architecture Search…

Machine Learning · Computer Science 2025-08-14 Zijun Sun , Yanning Shen

Machine learning techniques paired with the availability of massive datasets dramatically enhance our ability to explore the chemical compound space by providing fast and accurate predictions of molecular properties. However, learning on…

Graph Neural Networks (GNNs) have become essential in interpreting relational data across various domains, yet, they often struggle to generalize to unseen graph data that differs markedly from training instances. In this paper, we…

Machine Learning · Computer Science 2024-12-10 Xinke Jiang , Rihong Qiu , Yongxin Xu , Wentao Zhang , Yichen Zhu , Ruizhe Zhang , Yuchen Fang , Xu Chu , Junfeng Zhao , Yasha Wang

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 neural networks (GNNs) are a class of deep models that operate on data with arbitrary topology represented as graphs. We introduce an efficient memory layer for GNNs that can jointly learn node representations and coarsen the graph.…

Machine Learning · Computer Science 2020-06-11 Amir Hosein Khasahmadi , Kaveh Hassani , Parsa Moradi , Leo Lee , Quaid Morris

We study the graph matching problem in the presence of vertex feature information using shallow graph neural networks. Specifically, given two graphs that are independent perturbations of a single random geometric graph with sparse binary…

Machine Learning · Computer Science 2025-03-12 Suqi Liu , Morgane Austern