Federated Graph Learning (FGL) enables multiple clients to jointly train powerful graph learning models, e.g., Graph Neural Networks (GNNs), without sharing their local graph data for graph-related downstream tasks, such as graph property prediction. In the real world, however, the graph data can suffer from significant distribution shifts across clients as the clients may collect their graph data for different purposes. In particular, graph properties are usually associated with invariant label-relevant substructures (i.e., subgraphs) across clients, while label-irrelevant substructures can appear in a client-specific manner. The issue of distribution shifts of graph data hinders the efficiency of GNN training and leads to serious performance degradation in FGL. To tackle the aforementioned issue, we propose a novel FGL framework entitled FedVN that eliminates distribution shifts through client-specific graph augmentation strategies with multiple learnable Virtual Nodes (VNs). Specifically, FedVN lets the clients jointly learn a set of shared VNs while training a global GNN model. To eliminate distribution shifts, each client trains a personalized edge generator that determines how the VNs connect local graphs in a client-specific manner. Furthermore, we provide theoretical analyses indicating that FedVN can eliminate distribution shifts of graph data across clients. Comprehensive experiments on four datasets under five settings demonstrate the superiority of our proposed FedVN over nine baselines.
Recent studies have shown that Federated learning (FL) is vulnerable to Gradient Inversion Attacks (GIA), which can recover private training data from shared gradients. However, existing methods are designed for dense, continuous data such as images or vectorized texts, and cannot be directly applied to sparse and discrete graph data. This paper first explores GIA's impact on Federated Graph Learning (FGL) and introduces Graph Inversion from Gradient in Federated Learning (FedGIG), a novel GIA method specifically designed for graph-structured data. FedGIG includes the adjacency matrix constraining module, which ensures the sparsity and discreteness of the reconstructed graph data, and the subgraph reconstruction module, which is designed to complete missing common subgraph structures. Extensive experiments on molecular datasets demonstrate FedGIG's superior accuracy over existing GIA techniques.
Real-world graph data environments intrinsically exist noise (e.g., link and structure errors) that inevitably disturb the effectiveness of graph representation and downstream learning tasks. For homogeneous graphs, the latest works use original node features to synthesize a similarity graph that can correct the structure of the noised graph. This idea is based on the homogeneity assumption, which states that similar nodes in the homogeneous graph tend to have direct links in the original graph. However, similar nodes in heterogeneous graphs usually do not have direct links, which can not be used to correct the original noise graph. This causes a significant challenge in noised heterogeneous graph learning. To this end, this paper proposes a novel synthesized similarity-based graph neural network compatible with noised heterogeneous graph learning. First, we calculate the original feature similarities of all nodes to synthesize a similarity-based high-order graph. Second, we propose a similarity-aware encoder to embed original and synthesized graphs with shared parameters. Then, instead of graph-to-graph supervising, we synchronously supervise the original and synthesized graph embeddings to predict the same labels. Meanwhile, a target-based graph extracted from the synthesized graph contrasts the structure of the metapath-based graph extracted from the original graph to learn the mutual information. Extensive experiments in numerous real-world datasets show the proposed method achieves state-of-the-art records in the noised heterogeneous graph learning tasks. In highlights, +5$\sim$6\% improvements are observed in several noised datasets compared with previous SOTA methods. The code and datasets are available at https://github.com/kg-cc/NoiseHGNN.
Graph Mamba, a powerful graph embedding technique, has emerged as a cornerstone in various domains, including bioinformatics, social networks, and recommendation systems. This survey represents the first comprehensive study devoted to Graph Mamba, to address the critical gaps in understanding its applications, challenges, and future potential. We start by offering a detailed explanation of the original Graph Mamba architecture, highlighting its key components and underlying mechanisms. Subsequently, we explore the most recent modifications and enhancements proposed to improve its performance and applicability. To demonstrate the versatility of Graph Mamba, we examine its applications across diverse domains. A comparative analysis of Graph Mamba and its variants is conducted to shed light on their unique characteristics and potential use cases. Furthermore, we identify potential areas where Graph Mamba can be applied in the future, highlighting its potential to revolutionize data analysis in these fields. Finally, we address the current limitations and open research questions associated with Graph Mamba. By acknowledging these challenges, we aim to stimulate further research and development in this promising area. This survey serves as a valuable resource for both newcomers and experienced researchers seeking to understand and leverage the power of Graph Mamba.
As deep neural networks (DNNs) are increasingly deployed on edge devices, optimizing models for constrained computational resources is critical. Existing auto-pruning methods face challenges due to the diversity of DNN models, various operators (e.g., filters), and the difficulty in balancing pruning granularity with model accuracy. To address these limitations, we introduce AutoSculpt, a pattern-based automated pruning framework designed to enhance efficiency and accuracy by leveraging graph learning and deep reinforcement learning (DRL). AutoSculpt automatically identifies and prunes regular patterns within DNN architectures that can be recognized by existing inference engines, enabling runtime acceleration. Three key steps in AutoSculpt include: (1) Constructing DNNs as graphs to encode their topology and parameter dependencies, (2) embedding computationally efficient pruning patterns, and (3) utilizing DRL to iteratively refine auto-pruning strategies until the optimal balance between compression and accuracy is achieved. Experimental results demonstrate the effectiveness of AutoSculpt across various architectures, including ResNet, MobileNet, VGG, and Vision Transformer, achieving pruning rates of up to 90% and nearly 18% improvement in FLOPs reduction, outperforming all baselines. The codes can be available at https://anonymous.4open.science/r/AutoSculpt-DDA0
Fuzzy Graph Attention Network (FGAT), which combines Fuzzy Rough Sets and Graph Attention Networks, has shown promise in tasks requiring robust graph-based learning. However, existing models struggle to effectively capture dependencies from multiple perspectives, limiting their ability to model complex data. To address this gap, we propose the Multi-view Fuzzy Graph Attention Network (MFGAT), a novel framework that constructs and aggregates multi-view information using a specially designed Transformation Block. This block dynamically transforms data from multiple aspects and aggregates the resulting representations via a weighted sum mechanism, enabling comprehensive multi-view modeling. The aggregated information is fed into FGAT to enhance fuzzy graph convolutions. Additionally, we introduce a simple yet effective learnable global pooling mechanism for improved graph-level understanding. Extensive experiments on graph classification tasks demonstrate that MFGAT outperforms state-of-the-art baselines, underscoring its effectiveness and versatility.
Graph Neural Networks (GNNs) have exhibited remarkable efficacy in diverse graph learning tasks, particularly on static homophilic graphs. Recent attention has pivoted towards more intricate structures, encompassing (1) static heterophilic graphs encountering the edge heterophily issue in the spatial domain and (2) event-based continuous graphs in the temporal domain. State-of-the-art (SOTA) has been concurrently addressing these two lines of work but tends to overlook the presence of heterophily in the temporal domain, constituting the temporal heterophily issue. Furthermore, we highlight that the edge heterophily issue and the temporal heterophily issue often co-exist in event-based continuous graphs, giving rise to the temporal edge heterophily challenge. To tackle this challenge, this paper first introduces the temporal edge heterophily measurement. Subsequently, we propose the Temporal Heterophilic Graph Convolutional Network (THeGCN), an innovative model that incorporates the low/high-pass graph signal filtering technique to accurately capture both edge (spatial) heterophily and temporal heterophily. Specifically, the THeGCN model consists of two key components: a sampler and an aggregator. The sampler selects events relevant to a node at a given moment. Then, the aggregator executes message-passing, encoding temporal information, node attributes, and edge attributes into node embeddings. Extensive experiments conducted on 5 real-world datasets validate the efficacy of THeGCN.
Accurate and timely prediction of heavy rainfall events is crucial for effective flood risk management and disaster preparedness. By monitoring, analysing, and evaluating rainfall data at a local level, it is not only possible to take effective actions to prevent any severe climate variation but also to improve the planning of surface and underground hydrological resources. However, developing countries often lack the weather stations to collect data continuously due to the high cost of installation and maintenance. In light of this, the contribution of the present paper is twofold: first, we propose a low-cost IoT system for automatic recording, monitoring, and prediction of rainfall in rural regions. Second, we propose a novel approach to regional heavy rainfall prediction by implementing graph neural networks (GNNs), which are particularly well-suited for capturing the complex spatial dependencies inherent in rainfall patterns. The proposed approach was tested using a historical dataset spanning 72 months, with daily measurements, and experimental results demonstrated the effectiveness of the proposed method in predicting heavy rainfall events, making this approach particularly attractive for regions with limited resources or where traditional weather radar or station coverage is sparse.
Federated training methods have gained popularity for graph learning with applications including friendship graphs of social media sites and customer-merchant interaction graphs of huge online marketplaces. However, privacy regulations often require locally generated data to be stored on local clients. The graph is then naturally partitioned across clients, with no client permitted access to information stored on another. Cross-client edges arise naturally in such cases and present an interesting challenge to federated training methods, as training a graph model at one client requires feature information of nodes on the other end of cross-client edges. Attempting to retain such edges often incurs significant communication overhead, and dropping them altogether reduces model performance. In simpler models such as Graph Convolutional Networks, this can be fixed by communicating a limited amount of feature information across clients before training, but GATs (Graph Attention Networks) require additional information that cannot be pre-communicated, as it changes from training round to round. We introduce the Federated Graph Attention Network (FedGAT) algorithm for semi-supervised node classification, which approximates the behavior of GATs with provable bounds on the approximation error. FedGAT requires only one pre-training communication round, significantly reducing the communication overhead for federated GAT training. We then analyze the error in the approximation and examine the communication overhead and computational complexity of the algorithm. Experiments show that FedGAT achieves nearly the same accuracy as a GAT model in a centralised setting, and its performance is robust to the number of clients as well as data distribution.
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 signaling pathways and protein-protein interaction networks, yet they face limitations in expressivity when capturing intricate biological relationships. To address this, we propose Graph Sequence Language Model (GraphSeqLM), a framework that enhances GNNs with biological sequence embeddings generated by Large Language Models (LLMs). These embeddings encode structural and biological properties of DNA, RNA, and proteins, augmenting GNNs with enriched features for analyzing sample-specific multi-omic data. By integrating topological, sequence-derived, and biological information, GraphSeqLM demonstrates superior predictive accuracy and outperforms existing methods, paving the way for more effective multi-omic data integration in precision medicine.
Incorporating multi-modal features as side information has recently become a trend in recommender systems. To elucidate user-item preferences, recent studies focus on fusing modalities via concatenation, element-wise sum, or attention mechanisms. Despite having notable success, existing approaches do not account for the modality-specific noise encapsulated within each modality. As a result, direct fusion of modalities will lead to the amplification of cross-modality noise. Moreover, the variation of noise that is unique within each modality results in noise alleviation and fusion being more challenging. In this work, we propose a new Spectrum-based Modality Representation (SMORE) fusion graph recommender that aims to capture both uni-modal and fusion preferences while simultaneously suppressing modality noise. Specifically, SMORE projects the multi-modal features into the frequency domain and leverages the spectral space for fusion. To reduce dynamic contamination that is unique to each modality, we introduce a filter to attenuate and suppress the modality noise adaptively while capturing the universal modality patterns effectively. Furthermore, we explore the item latent structures by designing a new multi-modal graph learning module to capture associative semantic correlations and universal fusion patterns among similar items. Finally, we formulate a new modality-aware preference module, which infuses behavioral features and balances the uni- and multi-modal features for precise preference modeling. This empowers SMORE with the ability to infer both user modality-specific and fusion preferences more accurately. Experiments on three real-world datasets show the efficacy of our proposed model. The source code for this work has been made publicly available at https://github.com/kennethorq/SMORE.
Multimodal recommendation systems can learn users' preferences from existing user-item interactions as well as the semantics of multimodal data associated with items. Many existing methods model this through a multimodal user-item graph, approaching multimodal recommendation as a graph learning task. Graph Neural Networks (GNNs) have shown promising performance in this domain. Prior research has capitalized on GNNs' capability to capture neighborhood information within certain receptive fields (typically denoted by the number of hops, $K$) to enrich user and item semantics. We observe that the optimal receptive fields for GNNs can vary across different modalities. In this paper, we propose GNNs with Modality-Independent Receptive Fields, which employ separate GNNs with independent receptive fields for different modalities to enhance performance. Our results indicate that the optimal $K$ for certain modalities on specific datasets can be as low as 1 or 2, which may restrict the GNNs' capacity to capture global information. To address this, we introduce a Sampling-based Global Transformer, which utilizes uniform global sampling to effectively integrate global information for GNNs. We conduct comprehensive experiments that demonstrate the superiority of our approach over existing methods. Our code is publicly available at https://github.com/CrawlScript/MIG-GT.
Large Vision-Language Models (LVLMs) have demonstrated remarkable performance across diverse tasks. Despite great success, recent studies show that LVLMs encounter substantial limitations when engaging with visual graphs. To study the reason behind these limitations, we propose VGCure, a comprehensive benchmark covering 22 tasks for examining the fundamental graph understanding and reasoning capacities of LVLMs. Extensive evaluations conducted on 14 LVLMs reveal that LVLMs are weak in basic graph understanding and reasoning tasks, particularly those concerning relational or structurally complex information. Based on this observation, we propose a structure-aware fine-tuning framework to enhance LVLMs with structure learning abilities through 3 self-supervised learning tasks. Experiments validate the effectiveness of our method in improving LVLMs' zero-shot performance on fundamental graph learning tasks, as well as enhancing the robustness of LVLMs against complex visual graphs.
Federated graph learning (FGL) has gained significant attention for enabling heterogeneous clients to process their private graph data locally while interacting with a centralized server, thus maintaining privacy. However, graph data on clients are typically non-IID, posing a challenge for a single model to perform well across all clients. Another major bottleneck of FGL is the high cost of communication. To address these challenges, we propose a communication-efficient personalized federated graph learning algorithm, CEFGL. Our method decomposes the model parameters into low-rank generic and sparse private models. We employ a dual-channel encoder to learn sparse local knowledge in a personalized manner and low-rank global knowledge in a shared manner. Additionally, we perform multiple local stochastic gradient descent iterations between communication phases and integrate efficient compression techniques into the algorithm. The advantage of CEFGL lies in its ability to capture common and individual knowledge more precisely. By utilizing low-rank and sparse parameters along with compression techniques, CEFGL significantly reduces communication complexity. Extensive experiments demonstrate that our method achieves optimal classification accuracy in a variety of heterogeneous environments across sixteen datasets. Specifically, compared to the state-of-the-art method FedStar, the proposed method (with GIN as the base model) improves accuracy by 5.64\% on cross-datasets setting CHEM, reduces communication bits by a factor of 18.58, and reduces the communication time by a factor of 1.65.
With the rapid rise of the Internet of Things (IoT), ensuring the security of IoT devices has become essential. One of the primary challenges in this field is that new types of attacks often have significantly fewer samples than more common attacks, leading to unbalanced datasets. Existing research on detecting intrusions in these unbalanced labeled datasets primarily employs Convolutional Neural Networks (CNNs) or conventional Machine Learning (ML) models, which result in incomplete detection, especially for new attacks. To handle these challenges, we suggest a new approach to IoT intrusion detection using Self-Supervised Learning (SSL) with a Markov Graph Convolutional Network (MarkovGCN). Graph learning excels at modeling complex relationships within data, while SSL mitigates the issue of limited labeled data for emerging attacks. Our approach leverages the inherent structure of IoT networks to pre-train a GCN, which is then fine-tuned for the intrusion detection task. The integration of Markov chains in GCN uncovers network structures and enriches node and edge features with contextual information. Experimental results demonstrate that our approach significantly improves detection accuracy and robustness compared to conventional supervised learning methods. Using the EdgeIIoT-set dataset, we attained an accuracy of 98.68\%, a precision of 98.18%, a recall of 98.35%, and an F1-Score of 98.40%.
With the increasing prevalence of cross-domain Text-Attributed Graph (TAG) Data (e.g., citation networks, recommendation systems, social networks, and ai4science), the integration of Graph Neural Networks (GNNs) and Large Language Models (LLMs) into a unified Model architecture (e.g., LLM as enhancer, LLM as collaborators, LLM as predictor) has emerged as a promising technological paradigm. The core of this new graph learning paradigm lies in the synergistic combination of GNNs' ability to capture complex structural relationships and LLMs' proficiency in understanding informative contexts from the rich textual descriptions of graphs. Therefore, we can leverage graph description texts with rich semantic context to fundamentally enhance Data quality, thereby improving the representational capacity of model-centric approaches in line with data-centric machine learning principles. By leveraging the strengths of these distinct neural network architectures, this integrated approach addresses a wide range of TAG-based Task (e.g., graph learning, graph reasoning, and graph question answering), particularly in complex industrial scenarios (e.g., supervised, few-shot, and zero-shot settings). In other words, we can treat text as a medium to enable cross-domain generalization of graph learning Model, allowing a single graph model to effectively handle the diversity of downstream graph-based Task across different data domains. This work serves as a foundational reference for researchers and practitioners looking to advance graph learning methodologies in the rapidly evolving landscape of LLM. We consistently maintain the related open-source materials at \url{https://github.com/xkLi-Allen/Awesome-GNN-in-LLMs-Papers}.
Classical neural ODEs trained with explicit methods are intrinsically limited by stability, crippling their efficiency and robustness for stiff learning problems that are common in graph learning and scientific machine learning. We present a semi-implicit neural ODE approach that exploits the partitionable structure of the underlying dynamics. Our technique leads to an implicit neural network with significant computational advantages over existing approaches because of enhanced stability and efficient linear solves during time integration. We show that our approach outperforms existing approaches on a variety of applications including graph classification and learning complex dynamical systems. We also demonstrate that our approach can train challenging neural ODEs where both explicit methods and fully implicit methods are intractable.
Session-based recommendation seeks to forecast the next item a user will be interested in, based on their interaction sequences. Due to limited interaction data, session-based recommendation faces the challenge of limited data availability. Traditional methods enhance feature learning by constructing complex models to generate positive and negative samples. This paper proposes a session-based recommendation model using Single Positive optimization loss and Graph Learning (SPGL) to deal with the problem of data sparsity, high model complexity and weak transferability. SPGL utilizes graph convolutional networks to generate global item representations and batch session representations, effectively capturing intrinsic relationships between items. The use of single positive optimization loss improves uniformity of item representations, thereby enhancing recommendation accuracy. In the intent extractor, SPGL considers the hop count of the adjacency matrix when constructing the directed global graph to fully integrate spatial information. It also takes into account the reverse positional information of items when constructing session representations to incorporate temporal information. Comparative experiments across three benchmark datasets, Tmall, RetailRocket and Diginetica, demonstrate the model's effectiveness. The source code can be accessed on https://github.com/liang-tian-tian/SPGL .
We explore the problem of sampling graph signals in scenarios where the graph structure is not predefined and must be inferred from data. In this scenario, existing approaches rely on a two-step process, where a graph is learned first, followed by sampling. More generally, graph learning and graph signal sampling have been studied as two independent problems in the literature. This work provides a foundational step towards jointly optimizing the graph structure and sampling set. Our main contribution, Vertex Importance Sampling (VIS), is to show that the sampling set can be effectively determined from the vertex importance (node weights) obtained from graph learning. We further propose Vertex Importance Sampling with Repulsion (VISR), a greedy algorithm where spatially -separated "important" nodes are selected to ensure better reconstruction. Empirical results on simulated data show that sampling using VIS and VISR leads to competitive reconstruction performance and lower complexity than the conventional two-step approach of graph learning followed by graph sampling.
Heterogeneous Text-Attributed Graphs (HTAGs), where different types of entities are not only associated with texts but also connected by diverse relationships, have gained widespread popularity and application across various domains. However, current research on text-attributed graph learning predominantly focuses on homogeneous graphs, which feature a single node and edge type, thus leaving a gap in understanding how methods perform on HTAGs. One crucial reason is the lack of comprehensive HTAG datasets that offer original textual content and span multiple domains of varying sizes. To this end, we introduce a collection of challenging and diverse benchmark datasets for realistic and reproducible evaluation of machine learning models on HTAGs. Our HTAG datasets are multi-scale, span years in duration, and cover a wide range of domains, including movie, community question answering, academic, literature, and patent networks. We further conduct benchmark experiments on these datasets with various graph neural networks. All source data, dataset construction codes, processed HTAGs, data loaders, benchmark codes, and evaluation setup are publicly available at GitHub and Hugging Face.