Graph Neural Networks (GNNs) are known to match the distinguishing power of the 1-Weisfeiler-Lehman (1-WL) test, and the resulting partitions coincide with the unfolding tree equivalence classes of graphs. Preserving this equivalence, GNNs can universally approximate any target function on graphs in probability up to any precision. However, these results are limited to attributed discrete-dynamic graphs represented as sequences of connected graph snapshots. Real-world systems, such as communication networks, financial transaction networks, and molecular interactions, evolve asynchronously and may split into disconnected components. In this paper, we extend the theory of attributed discrete-dynamic graphs to attributed continuous-time dynamic graphs with arbitrary connectivity. To this end, we introduce a continuous-time dynamic 1-WL test, prove its equivalence to continuous-time dynamic unfolding trees, and identify a class of continuous-time dynamic GNNs (CGNNs) based on discrete-dynamic GNN architectures that retain both distinguishing power and universal approximation guarantees. Our constructive proofs further yield practical design guidelines, emphasizing a compact and expressive CGNN architecture with piece-wise continuously differentiable temporal functions to process asynchronous, disconnected graphs.

Soft tissue simulation in virtual environments is becoming increasingly important for medical applications. However, the high deformability of soft tissue poses significant challenges. Existing methods rely on segmentation, meshing and estimation of stiffness properties of tissues. In addition, the integration of haptic feedback requires precise force estimation to enable a more immersive experience. We introduce a novel data-driven model, a conditional graph neural network (cGNN) to tackle this complexity. Our model takes surface points and the location of applied forces, and is specifically designed to predict the deformation of the points and the forces exerted on them. We trained our model on experimentally collected surface tracking data of a soft tissue phantom and used transfer learning to overcome the data scarcity by initially training it with mass-spring simulations and fine-tuning it with the experimental data. This approach improves the generalisation capability of the model and enables accurate predictions of tissue deformations and corresponding interaction forces. The results demonstrate that the model can predict deformations with a distance error of 0.35$\pm$0.03 mm for deformations up to 30 mm and the force with an absolute error of 0.37$\pm$0.05 N for forces up to 7.5 N. Our data-driven approach presents a promising solution to the intricate challenge of simulating soft tissues within virtual environments. Beyond its applicability in medical simulations, this approach holds the potential to benefit various fields where realistic soft tissue simulations are required.

Graph neural networks (GNNs) are becoming increasingly popular for EEG-based depression detection. However, previous GNN-based methods fail to sufficiently consider the characteristics of depression, thus limiting their performance. Firstly, studies in neuroscience indicate that depression patients exhibit both common and individualized brain abnormal patterns. Previous GNN-based approaches typically focus either on fixed graph connections to capture common abnormal brain patterns or on adaptive connections to capture individualized patterns, which is inadequate for depression detection. Secondly, brain network exhibits a hierarchical structure, which includes the arrangement from channel-level graph to region-level graph. This hierarchical structure varies among individuals and contains significant information relevant to detecting depression. Nonetheless, previous GNN-based methods overlook these individualized hierarchical information. To address these issues, we propose a Hybrid GNN (HGNN) that merges a Common Graph Neural Network (CGNN) branch utilizing fixed connection and an Individualized Graph Neural Network (IGNN) branch employing adaptive connections. The two branches capture common and individualized depression patterns respectively, complementing each other. Furthermore, we enhance the IGNN branch with a Graph Pooling and Unpooling Module (GPUM) to extract individualized hierarchical information. Extensive experiments on two public datasets show that our model achieves state-of-the-art performance.

Graph Neural Networks (GNNs) have shown remarkable success in learning from graph-structured data. However, their application to directed graphs (digraphs) presents unique challenges, primarily due to the inherent asymmetry in node relationships. Traditional GNNs are adept at capturing unidirectional relations but fall short in encoding the mutual path dependencies between nodes, such as asymmetrical shortest paths typically found in digraphs. Recognizing this gap, we introduce Commute Graph Neural Networks (CGNN), an approach that seamlessly integrates node-wise commute time into the message passing scheme. The cornerstone of CGNN is an efficient method for computing commute time using a newly formulated digraph Laplacian. Commute time information is then integrated into the neighborhood aggregation process, with neighbor contributions weighted according to their respective commute time to the central node in each layer. It enables CGNN to directly capture the mutual, asymmetric relationships in digraphs.

Continuous graph neural networks (CGNNs) have garnered significant attention due to their ability to generalize existing discrete graph neural networks (GNNs) by introducing continuous dynamics. They typically draw inspiration from diffusion-based methods to introduce a novel propagation scheme, which is analyzed using ordinary differential equations (ODE). However, the implementation of CGNNs requires significant computational power, making them challenging to deploy on battery-powered devices. Inspired by recent spiking neural networks (SNNs), which emulate a biological inference process and provide an energy-efficient neural architecture, we incorporate the SNNs with CGNNs in a unified framework, named Continuous Spiking Graph Neural Networks (COS-GNN). We employ SNNs for graph node representation at each time step, which are further integrated into the ODE process along with time. To enhance information preservation and mitigate information loss in SNNs, we introduce the high-order structure of COS-GNN, which utilizes the second-order ODE for spiking representation and continuous propagation. Moreover, we provide the theoretical proof that COS-GNN effectively mitigates the issues of exploding and vanishing gradients, enabling us to capture long-range dependencies between nodes. Experimental results on graph-based learning tasks demonstrate the effectiveness of the proposed COS-GNN over competitive baselines.

Scaling laws have allowed Pre-trained Language Models (PLMs) into the field of causal reasoning. Causal reasoning of PLM relies solely on text-based descriptions, in contrast to causal discovery which aims to determine the causal relationships between variables utilizing data. Recently, there has been current research regarding a method that mimics causal discovery by aggregating the outcomes of repetitive causal reasoning, achieved through specifically designed prompts. It highlights the usefulness of PLMs in discovering cause and effect, which is often limited by a lack of data, especially when dealing with multiple variables. Conversely, the characteristics of PLMs which are that PLMs do not analyze data and they are highly dependent on prompt design leads to a crucial limitation for directly using PLMs in causal discovery. Accordingly, PLM-based causal reasoning deeply depends on the prompt design and carries out the risk of overconfidence and false predictions in determining causal relationships. In this paper, we empirically demonstrate the aforementioned limitations of PLM-based causal reasoning through experiments on physics-inspired synthetic data. Then, we propose a new framework that integrates prior knowledge obtained from PLM with a causal discovery algorithm. This is accomplished by initializing an adjacency matrix for causal discovery and incorporating regularization using prior knowledge. Our proposed framework not only demonstrates improved performance through the integration of PLM and causal discovery but also suggests how to leverage PLM-extracted prior knowledge with existing causal discovery algorithms.

Node classification on graphs is a significant task with a wide range of applications, including social analysis and anomaly detection. Even though graph neural networks (GNNs) have produced promising results on this task, current techniques often presume that label information of nodes is accurate, which may not be the case in real-world applications. To tackle this issue, we investigate the problem of learning on graphs with label noise and develop a novel approach dubbed Consistent Graph Neural Network (CGNN) to solve it. Specifically, we employ graph contrastive learning as a regularization term, which promotes two views of augmented nodes to have consistent representations. Since this regularization term cannot utilize label information, it can enhance the robustness of node representations to label noise. Moreover, to detect noisy labels on the graph, we present a sample selection technique based on the homophily assumption, which identifies noisy nodes by measuring the consistency between the labels with their neighbors. Finally, we purify these confident noisy labels to permit efficient semantic graph learning. Extensive experiments on three well-known benchmark datasets demonstrate the superiority of our CGNN over competing approaches.

In this work, we present and study Continuous Generative Neural Networks (CGNNs), namely, generative models in the continuous setting: the output of a CGNN belongs to an infinite-dimensional function space. The architecture is inspired by DCGAN, with one fully connected layer, several convolutional layers and nonlinear activation functions. In the continuous $L^2$ setting, the dimensions of the spaces of each layer are replaced by the scales of a multiresolution analysis of a compactly supported wavelet. We present conditions on the convolutional filters and on the nonlinearity that guarantee that a CGNN is injective. This theory finds applications to inverse problems, and allows for deriving Lipschitz stability estimates for (possibly nonlinear) infinite-dimensional inverse problems with unknowns belonging to the manifold generated by a CGNN. Several numerical simulations, including signal deblurring, illustrate and validate this approach.

Traffic classification associates packet streams with known application labels, which is vital for network security and network management. With the rise of NAT, port dynamics, and encrypted traffic, it is increasingly challenging to obtain unified traffic features for accurate classification. Many state-of-the-art traffic classifiers automatically extract features from the packet stream based on deep learning models such as convolution networks. Unfortunately, the compositional and causal relationships between packets are not well extracted in these deep learning models, which affects both prediction accuracy and generalization on different traffic types. In this paper, we present a chained graph model on the packet stream to keep the chained compositional sequence. Next, we propose CGNN, a graph neural network based traffic classification method, which builds a graph classifier over automatically extracted features over the chained graph. Extensive evaluation over real-world traffic data sets, including normal, encrypted and malicious labels, show that, CGNN improves the prediction accuracy by 23\% to 29\% for application classification, by 2\% to 37\% for malicious traffic classification, and reaches the same accuracy level for encrypted traffic classification. CGNN is quite robust in terms of the recall and precision metrics. We have extensively evaluated the parameter sensitivity of CGNN, which yields optimized parameters that are quite effective for traffic classification.

Graph neural networks (GNN), as a popular methodology for node representation learning on graphs, currently mainly focus on preserving the smoothness and identifiability of node representations. A robust node representation on graphs should further hold the stability property which means a node representation is resistant to slight perturbations on the input. In this paper, we introduce the stability of node representations in addition to the smoothness and identifiability, and develop a novel method called contrastive graph neural networks (CGNN) that learns robust node representations in an unsupervised manner. Specifically, CGNN maintains the stability and identifiability by a contrastive learning objective, while preserving the smoothness with existing GNN models. Furthermore, the proposed method is a generic framework that can be equipped with many other backbone models (e.g. GCN, GraphSage and GAT). Extensive experiments on four benchmarks under both transductive and inductive learning setups demonstrate the effectiveness of our method in comparison with recent supervised and unsupervised models.