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Exploring chemical space to find novel molecules that simultaneously satisfy multiple properties is crucial in drug discovery. However, existing methods often struggle with trading off multiple properties due to the conflicting or…

机器学习 · 计算机科学 2025-03-04 Yifan Niu , Ziqi Gao , Tingyang Xu , Yang Liu , Yatao Bian , Yu Rong , Junzhou Huang , Jia Li

Graph Neural Networks have emerged as an effective machine learning tool for multi-disciplinary tasks such as pharmaceutical molecule classification and chemical reaction prediction, because they can model non-euclidean relationships…

机器学习 · 计算机科学 2023-07-27 Tongya Zheng , Tianli Zhang , Qingzheng Guan , Wenjie Huang , Zunlei Feng , Mingli Song , Chun Chen

Predicting molecular properties is essential for drug discovery, and computational methods can greatly enhance this process. Molecular graphs have become a focus for representation learning, with Graph Neural Networks (GNNs) widely used.…

机器学习 · 计算机科学 2025-01-31 Yan Sun , Yutong Lu , Yan Yi Li , Zihao Jing , Carson K. Leung , Pingzhao Hu

Learning on Graphs has attracted immense attention due to its wide real-world applications. The most popular pipeline for learning on graphs with textual node attributes primarily relies on Graph Neural Networks (GNNs), and utilizes shallow…

机器学习 · 计算机科学 2024-01-17 Zhikai Chen , Haitao Mao , Hang Li , Wei Jin , Hongzhi Wen , Xiaochi Wei , Shuaiqiang Wang , Dawei Yin , Wenqi Fan , Hui Liu , Jiliang Tang

Predicting the solubility of given molecules remains crucial in the pharmaceutical industry. In this study, we revisited this extensively studied topic, leveraging the capabilities of contemporary computing resources. We employed two…

定量方法 · 定量生物学 2024-01-08 John Ho , Zhao-Heng Yin , Colin Zhang , Nicole Guo , Yang Ha

Large Language Models (LLMs) have advanced Graph Neural Networks (GNNs) by enriching node representations with semantic features, giving rise to LLM-enhanced GNNs that achieve notable performance gains. However, the robustness of these…

机器学习 · 计算机科学 2026-03-30 Yuhang Ma , Jie Wang , Zheng Yan

Prediction of molecular properties, including physico-chemical properties, is a challenging task in chemistry. Herein we present a new state-of-the-art multitask prediction method based on existing graph neural network models. We have used…

机器学习 · 计算机科学 2019-10-31 Fabio Capela , Vincent Nouchi , Ruud Van Deursen , Igor V. Tetko , Guillaume Godin

Graph neural networks (GNNs) have demonstrated great success in representation learning for graph-structured data. The layer-wise graph convolution in GNNs is shown to be powerful at capturing graph topology. During this process, GNNs are…

机器学习 · 计算机科学 2021-12-10 Mingxuan Ju , Shifu Hou , Yujie Fan , Jianan Zhao , Liang Zhao , Yanfang Ye

Graph Neural Networks (GNNs) have attracted tremendous attention by demonstrating their capability to handle graph data. However, they are difficult to be deployed in resource-limited devices due to model sizes and scalability constraints…

机器学习 · 计算机科学 2023-02-02 Yijun Tian , Shichao Pei , Xiangliang Zhang , Chuxu Zhang , Nitesh V. Chawla

Machine learning (ML) based materials discovery has emerged as one of the most promising approaches for breakthroughs in materials science. While heuristic knowledge based descriptors have been combined with ML algorithms to achieve good…

Large Language Models (LLMs) excel at intuitive, implicit reasoning. Guiding LLMs to construct thought chains can enhance their deliberate reasoning abilities, but also faces challenges such as hallucination. Knowledge Graphs (KGs) can…

计算与语言 · 计算机科学 2025-03-07 Guangyi Liu , Yongqi Zhang , Yong Li , Quanming Yao

Heterogeneous molecular entities and their interactions, commonly depicted as a network, are crucial for advancing our systems-level understanding of biology. With recent advancements in high-throughput data generation and a significant…

定量方法 · 定量生物学 2026-03-18 Kishan KC , Rui Li , Paribesh Regmi , Anne R. Haake

Effective decision-making on networks often relies on learning from graph-structured data, where Graph Neural Networks (GNNs) play a central role, but they take efforts to configure and tune. In this demo, we propose LLMNet, showing how to…

机器学习 · 计算机科学 2025-06-18 Xiaohan Zheng , Lanning Wei , Yong Li , Quanming Yao

Machine learning (ML) has been increasingly applied in concrete research to optimize performance and mixture design. However, one major challenge in applying ML to cementitious materials is the limited size and diversity of available…

计算工程、金融与科学 · 计算机科学 2025-12-18 Mahmuda Sharmin , Taihao Han , Jie Huang , Narayanan Neithalath , Gaurav Sant , Aditya Kumar

Machine Learning (ML) has the potential to accelerate discovery of new materials and shed light on useful properties of existing materials. A key difficulty when applying ML in Materials Science is that experimental datasets of material…

Graph representation learning has now become the de facto standard when handling graph-structured data, with the framework of message-passing graph neural networks (MPNN) being the most prevailing algorithmic tool. Despite its popularity,…

This paper presents a graph neural network (GNN) technique for low-level reconstruction of neutrino interactions in a Liquid Argon Time Projection Chamber (LArTPC). GNNs are still a relatively novel technique, and have shown great promise…

The recent development of Kolmogorov-Arnold Networks (KANs) has found its application in the field of Graph Neural Networks (GNNs) particularly in molecular data modeling and potential drug discovery. Kolmogorov-Arnold Graph Neural Networks…

机器学习 · 计算机科学 2026-01-27 Nikita Volzhin , Soowhan Yoon

Knowledge distillation, a technique recently gaining popularity for enhancing model generalization in Convolutional Neural Networks (CNNs), operates under the assumption that both teacher and student models are trained on identical data…

机器学习 · 计算机科学 2024-12-06 Can Wang , Zhe Wang , Defang Chen , Sheng Zhou , Yan Feng , Chun Chen

Graph Neural Networks (GNNs) have achieved strong results in molecular property prediction, but polymers present distinct challenges: labeled datasets are scarce and small (typically in the order of hundreds of polymers) due to the need for…