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Graph Neural Networks (GNNs) are the go-to model for graph data analysis. However, GNNs rely on two key operations - aggregation and update, which can pose challenges for low-latency inference tasks or resource-constrained scenarios. Simple…

Machine Learning · Computer Science 2026-01-14 Amir Eskandari , Aman Anand , Elyas Rashno , Farhana Zulkernine

Recent years have witnessed great success in handling graph-related tasks with Graph Neural Networks (GNNs). Despite their great academic success, Multi-Layer Perceptrons (MLPs) remain the primary workhorse for practical industrial…

Machine Learning · Computer Science 2023-06-06 Lirong Wu , Jun Xia , Haitao Lin , Zhangyang Gao , Zicheng Liu , Guojiang Zhao , Stan Z. Li

Graph Neural Networks (GNNs) have been widely employed for feature representation learning in molecular graphs. Therefore, it is crucial to enhance the expressiveness of feature representation to ensure the effectiveness of GNNs. However, a…

Machine Learning · Computer Science 2024-09-16 Chengyu Yao , Hong Huang , Hang Gao , Fengge Wu , Haiming Chen , Junsuo Zhao

Recent research on integrating Large Language Models (LLMs) with Graph Neural Networks (GNNs) typically follows two approaches: LLM-centered models, which convert graph data into tokens for LLM processing, and GNN-centered models, which use…

Machine Learning · Computer Science 2024-12-11 Haotong Yang , Xiyuan Wang , Qian Tao , Shuxian Hu , Zhouchen Lin , Muhan Zhang

For large-scale applications, there is growing interest in replacing Graph Neural Networks (GNNs) with lightweight Multi-Layer Perceptrons (MLPs) via knowledge distillation. However, distilling GNNs for self-supervised graph representation…

Machine Learning · Computer Science 2025-10-07 Seong Jin Ahn , Myoung-Ho Kim

Molecular graph neural networks (GNNs) often focus exclusively on XYZ-based geometric representations and thus overlook valuable chemical context available in public databases like PubChem. This work introduces a multimodal framework that…

Machine Learning · Computer Science 2025-05-20 Can Polat , Hasan Kurban , Erchin Serpedin , Mustafa Kurban

Graph Neural Networks (GNNs) have revolutionized graph-based machine learning, but their heavy computational demands pose challenges for latency-sensitive edge devices in practical industrial applications. In response, a new wave of…

Machine Learning · Computer Science 2024-05-24 Weigang Lu , Ziyu Guan , Wei Zhao , Yaming Yang

The integration of Large Language Models (LLMs) with Graph Representation Learning (GRL) marks a significant evolution in analyzing complex data structures. This collaboration harnesses the sophisticated linguistic capabilities of LLMs to…

Machine Learning · Computer Science 2024-02-12 Qiheng Mao , Zemin Liu , Chenghao Liu , Zhuo Li , Jianling Sun

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…

Machine Learning · Computer Science 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

The emergence of large-scale pre-trained language models has revolutionized various AI research domains. Transformers-based Large Language Models (LLMs) have gradually replaced CNNs and RNNs to unify fields of computer vision and natural…

Computation and Language · Computer Science 2024-02-07 Ruosong Ye , Caiqi Zhang , Runhui Wang , Shuyuan Xu , Yongfeng Zhang

Multiplex graphs, with multiple edge types (graph views) among common nodes, provide richer structural semantics and better modeling capabilities. Multiplex Graph Neural Networks (MGNNs), typically comprising view-specific GNNs and a…

Machine Learning · Computer Science 2025-02-11 Yunhui Liu , Zhen Tao , Xiang Zhao , Jianhua Zhao , Tao Zheng , Tieke He

GNN-to-MLP distillation aims to utilize knowledge distillation (KD) to learn computationally-efficient multi-layer perceptron (student MLP) on graph data by mimicking the output representations of teacher GNN. Existing methods mainly make…

Machine Learning · Computer Science 2024-03-07 Ling Yang , Ye Tian , Minkai Xu , Zhongyi Liu , Shenda Hong , Wei Qu , Wentao Zhang , Bin Cui , Muhan Zhang , Jure Leskovec

Graph Neural Networks (GNNs) have emerged as powerful models for learning from graph-structured data. However, GNNs lack the inherent semantic understanding capability of rich textual node attributes, limiting their effectiveness in…

Artificial Intelligence · Computer Science 2025-09-04 Hanqi Duan , Yao Cheng , Jianxiang Yu , Yao Liu , Xiang Li

The integration of multi-omic data is pivotal for understanding complex diseases, but its high dimensionality and noise present significant challenges. Graph Neural Networks (GNNs) offer a robust framework for analyzing large-scale…

Quantitative Methods · Quantitative Biology 2024-12-23 Heming Zhang , Di Huang , Yixin Chen , Fuhai Li

Large language models (LLMs) have presented significant opportunities to enhance various machine learning applications, including graph neural networks (GNNs). By leveraging the vast open-world knowledge within LLMs, we can more effectively…

Machine Learning · Computer Science 2025-02-18 Yuxia Wu , Shujie Li , Yuan Fang , Chuan Shi

While graph neural networks (GNNs) have shown remarkable performance across diverse graph-related tasks, their high-dimensional hidden representations render them black boxes. In this work, we propose Graph Lingual Network (GLN), a GNN…

Machine Learning · Computer Science 2025-09-16 Sunwoo Kim , Soo Yong Lee , Jaemin Yoo , Kijung Shin

Using Large Language Models (LLMs) to process graph-structured data is an active research area, yet current state-of-the-art approaches typically rely on multi-step pipelines with Graph Neural Network (GNN) encoders that compress rich…

Machine Learning · Computer Science 2026-05-12 Dario Vajda

Recent prevailing works on graph machine learning typically follow a similar methodology that involves designing advanced variants of graph neural networks (GNNs) to maintain the superior performance of GNNs on different graphs. In this…

Machine Learning · Computer Science 2024-06-07 Yiran Qiao , Xiang Ao , Yang Liu , Jiarong Xu , Xiaoqian Sun , Qing He

Distilling high-accuracy Graph Neural Networks (GNNs) to low-latency multilayer perceptions (MLPs) on graph tasks has become a hot research topic. However, conventional MLP learning relies almost exclusively on graph nodes and fails to…

Machine Learning · Computer Science 2024-12-10 Taiqiang Wu , Zhe Zhao , Jiahao Wang , Xingyu Bai , Lei Wang , Ngai Wong , Yujiu Yang

Large language models (LLMs) have shown remarkable generalization capability with exceptional performance in various language modeling tasks. However, they still exhibit inherent limitations in precisely capturing and returning grounded…

Computation and Language · Computer Science 2024-01-01 Yijun Tian , Huan Song , Zichen Wang , Haozhu Wang , Ziqing Hu , Fang Wang , Nitesh V. Chawla , Panpan Xu