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Graph Neural Networks (GNNs) have gained prominence as a leading paradigm for graph encoding, achieving notable success in graph classification tasks. This success, however, heavily relies on the assumption of the balanced class distribution in the training data, which often does not align with real-world scenarios. In the face of imbalanced class distributions, the classification results tend to be suboptimal. Previous research have shown that Graph of Graphs(GoG) can effectively capture inter-graph supervisory signals, thereby aiding in the representation of the minority graphs. We argue that existing GoG strategies rooted in the assumption of homophily provide reliable supervision primarily for majority class graphs, while remaining unreliable for minority classes. To address this issue, we introduce a novel framework called GraphBHR (Beyond Homophily Rewiring Graph of Graphs). GraphBHR supplements the GoG with additional heterophily perspectives, allowing for the provision of reasonable supervisory signals for minority classes. To further enhance the network reliability, we have introduced a graph rewiring strategy that optimizes the initial inter-graph relationships. This is followed by GoG propagation for representation learning. We also employ consistency contrastive loss and focal loss to optimize graph representation. Extensive experiments on multi-scale datasets have shown the effectiveness of GraphBHR in handling imbalanced graph classification tasks.
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http://dx.doi.org/10.1016/j.neunet.2025.107738 | DOI Listing |
Proc Mach Learn Res
November 2024
Pretraining plays a pivotal role in acquiring generalized knowledge from large-scale data, achieving remarkable successes as evidenced by large models in CV and NLP. However, progress in the graph domain remains limited due to fundamental challenges represented by feature heterogeneity and structural heterogeneity. Recent efforts have been made to address feature heterogeneity via Large Language Models (LLMs) on text-attributed graphs (TAGs) by generating fixed-length text representations as node features.
View Article and Find Full Text PDFChem Sci
August 2025
Engineering Research Center of Cell & Therapeutic Antibody (MOE), School of Pharmacy, Shanghai Jiao Tong University Shanghai 200240 China
Predicting Antibody-Antigen (Ab-Ag) docking and structure-based design represent significant long-term and therapeutically important challenges in computational biology. We present SAGERank, a general, configurable deep learning framework for antibody design using Graph Sample and Aggregate Networks. SAGERank successfully predicted the majority of epitopes in a cancer target dataset.
View Article and Find Full Text PDFMed Eng Phys
October 2025
College of Basic Medical Science, Shanxi University of Chinese Medicine, Jinzhong, 030619, Shanxi, China.
Pulse diagnosis holds a pivotal role in traditional Chinese medicine (TCM) diagnostics, with pulse characteristics serving as one of the critical bases for its assessment. Accurate classification of these pulse pattern is paramount for the objectification of TCM. This study proposes an enhanced SMOTE approach to achieve data augmentation, followed by multi-domain feature extraction.
View Article and Find Full Text PDFIEEE Trans Neural Syst Rehabil Eng
September 2025
Obstructive sleep apnea (OSA), one of the most common sleep disorders globally, is closely linked to brain function. Resting-state electroencephalography (EEG), due to its convenience, cost-effectiveness, and high temporal resolution, serves as a valuable tool for exploring the human brain function. This study utilized a large cohort with 968 participants who joined in 15-minute daytime resting-state EEG acquisition and overnight polysomnography (PSG) monitoring.
View Article and Find Full Text PDFJ Affect Disord
September 2025
College of Medicine and Biological Information Engineering, Northeastern University, Shenyang, Liaoning, China. Electronic address:
Major Depressive Disorder (MDD) poses a significant global health threat, impairing individual functioning and increasing socioeconomic burden. Accurate diagnosis is crucial for improving treatment outcomes. This study proposes Time-Frequency Text-Attributed DeepWalk (TF-TADW), a framework for MDD classification using resting-state functional MRI data.
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