Unsupervised graph representation learning aims to derive meaningful node embeddings by capturing both structural and attribute information without relying on labeled data. Existing methods, such as GAEs, have demonstrated effectiveness but typically rely on message-passing mechanisms that assume homophily, leading to performance degradation on heterophilous graphs, where connected nodes exhibit dissimilar features. This homophily bias results in the loss of critical high-frequency components that are essential for identifying heterophilous patterns. To address these challenges, we propose \textsc{AlignGAE}, a novel extension of \textit{MaskGAE} that preserves the full frequency spectrum through complementary view alignment. Our framework introduces a dual-encoder architecture that separately processes structural and attribute information, incorporates node positional encoding to approximate Neighborhood Identity Distribution (NID), and employs dual reconstruction tasks for both edges and node attributes. We further propose theoretically grounded NID alignment strategies that ensure semantic consistency across views while preserving their distinct characteristics. Through comprehensive spectral analysis, we demonstrate that \textsc{AlignGAE} achieves optimal representation properties when the alignment loss converges. Extensive experiments across 12 benchmark datasets validate our approach, showing that \textsc{AlignGAE} outperforms state-of-the-art methods by up to 18.7% on heterophilous graphs in node classification, while maintaining competitive performance on homophilous graphs. Our results establish a new paradigm for frequency-aware graph representation learning.
Attributed graph clustering partitions nodes by jointly exploiting node attributes and graph topology. It remains challenging due to attribute heterogeneity and representation degradation during graph learning. Real-world datasets often contain heterogeneous attributes, i.e., numerical and categorical attributes, complicating unified representation learning. This challenge becomes more complex in attributed graphs, where constructing a clustering-friendly graph structure from attributes and topology remains difficult. Under deep graph architectures, repeated graph propagation causes node embeddings to become overly similar, leading to the over-smoothing (OS) effect. Meanwhile, graph representation learning amplifies topological influence, making discriminative attribute information harder to exploit for clustering, an effect we refer to as over-dominating (OD). To bridge these gaps, an end-to-end framework, Any-type attributed Graph REpresentation lEarning (AGREE), is proposed. It unifies attributed graphs and any-type attributed data through multi-level alignment and similarity-based graph construction. Quaternion-based graph convolution strengthens attribute interaction to alleviate OD, while shallow graph architectures help relieve OS. The learned embeddings are jointly optimized for graph reconstruction and clustering, without requiring a predefined number of clusters during training. Experiments on diverse benchmarks show that AGREE achieves strong overall performance in accuracy, robustness, and adaptability.
Heterogeneous graphs with heterophily have emerged as a powerful abstraction for modeling complex real-world systems, where nodes of different types and labels interact in diverse and often non-homophilous ways. Despite recent advances, robust representation learning for such graphs remains largely unexplored, particularly in the presence of noisy or misleading connectivity. In this work, we investigate this problem and identify structural noise as a critical challenge that significantly degrades model performance. To address this issue, we propose a unified framework, Heterogeneous Graph Unified Learning (HGUL), which jointly handles heterophily and noisy graph structures. The framework consists of three complementary modules: a kNN-based graph construction module that recovers reliable local neighborhoods, a graph structure learning module that adaptively refines the adjacency by filtering noisy edges, and a heterogeneous affinity learning module that captures class-level relationships via an extended affinity matrix derived from a polynomial graph kernel. Extensive experiments on multiple datasets demonstrate that HGUL consistently outperforms existing methods on clean graphs and maintains strong robustness under varying levels of structural noise. The results further underscore the importance of jointly modeling heterophily and noise in heterogeneous graph learning.
Graph anomaly detection aims to identify irregular patterns in graph-structured data. Most unsupervised GNN-based methods rely on the homophily assumption that connected nodes share similar attributes. However, real-world graphs often exhibit attribute-level heterophily, where connected nodes have dissimilar attributes. Our analysis of attribute-level heterophily graphs reveals two phenomena indicating that current approaches are not practical for unsupervised graph anomaly detection: 1) attribute similarities between connected nodes show nearly identical distributions across different connected node pair types, and 2) anomalies cause consistent variation trends between the graph with and without anomalous edges in the low- and high-frequency components of the spectral energy distributions, while the mid-part exhibits more erratic variations. Based on these observations, we propose NK-GAD, a neighbor knowledge-enhanced unsupervised graph anomaly detection framework. NK-GAD integrates a joint encoder capturing both similar and dissimilar neighbor features, a neighbor reconstruction module modeling normal distributions, a center aggregation module refining node features, and dual decoders for reconstructing attributes and structures. Experiments on seven datasets show NK-GAD achieves an average 3.29% AUC improvement.