arXiv subjects

Xiaowen Dong

Publications and source records attributed to Xiaowen Dong.

At least 37 records · Page 2Linked to original sources

arXiv2025

LGDC: Latent Graph Diffusion via Spectrum-Preserving Coarsening

Graph generation is a critical task across scientific domains. Existing methods fall broadly into two categories: autoregressive models, which iteratively expand graphs, and one-shot models, such as diffusion, which generate the full graph at once. In this work, we provide an analysis of these two paradigms and reveal a key trade-off: autoregressive models stand out in capturing fine-grained local structures, such as degree and clustering properties, whereas one-shot models excel at modeling global patterns, such as spectral distributions. Building on this, we propose LGDC (latent graph diffusion via spectrum-preserving coarsening), a hybrid framework that combines strengths of both approaches. LGDC employs a spectrum-preserving coarsening-decoarsening to bidirectionally map between graphs and a latent space, where diffusion efficiently generates latent graphs before expansion restores detail. This design captures both local and global properties with improved efficiency. Empirically, LGDC matches autoregressive models on locally structured datasets (Tree) and diffusion models on globally structured ones (Planar, Community-20), validating the benefits of hybrid generation.

cs.LG↗

arXiv2025

On the Stability of Graph Convolutional Neural Networks: A Probabilistic Perspective

Graph convolutional neural networks (GCNNs) have emerged as powerful tools for analyzing graph-structured data, achieving remarkable success across diverse applications. However, the theoretical understanding of the stability of these models, i.e., their sensitivity to small changes in the graph structure, remains in rather limited settings, hampering the development and deployment of robust and trustworthy models in practice. To fill this gap, we study how perturbations in the graph topology affect GCNN outputs and propose a novel formulation for analyzing model stability. Unlike prior studies that focus only on worst-case perturbations, our distribution-aware formulation characterizes output perturbations across a broad range of input data. This way, our framework enables, for the first time, a probabilistic perspective on the interplay between the statistical properties of the node data and perturbations in the graph topology. We conduct extensive experiments to validate our theoretical findings and demonstrate their benefits over existing baselines, in terms of both representation stability and adversarial attacks on downstream tasks. Our results demonstrate the practical significance of the proposed formulation and highlight the importance of incorporating data distribution into stability analysis.

cs.LG↗

arXiv2025

On Vanishing Gradients, Over-Smoothing, and Over-Squashing in GNNs: Bridging Recurrent and Graph Learning

Graph Neural Networks (GNNs) are models that leverage the graph structure to transmit information between nodes, typically through the message-passing operation. While widely successful, this approach is well known to suffer from the over-smoothing and over-squashing phenomena, which result in representational collapse as the number of layers increases and insensitivity to the information contained at distant and poorly connected nodes, respectively. In this paper, we present a unified view of these problems through the lens of vanishing gradients, using ideas from linear control theory for our analysis. We propose an interpretation of GNNs as recurrent models and empirically demonstrate that a simple state-space formulation of a GNN effectively alleviates over-smoothing and over-squashing at no extra trainable parameter cost. Further, we show theoretically and empirically that (i) GNNs are by design prone to extreme gradient vanishing even after a few layers; (ii) Over-smoothing is directly related to the mechanism causing vanishing gradients; (iii) Over-squashing is most easily alleviated by a combination of graph rewiring and vanishing gradient mitigation. We believe our work will help bridge the gap between the recurrent and graph neural network literature and will unlock the design of new deep and performant GNNs.

cs.LG↗

arXiv2025

Return of ChebNet: Understanding and Improving an Overlooked GNN on Long Range Tasks

ChebNet, one of the earliest spectral GNNs, has largely been overshadowed by Message Passing Neural Networks (MPNNs), which gained popularity for their simplicity and effectiveness in capturing local graph structure. Despite their success, MPNNs are limited in their ability to capture long-range dependencies between nodes. This has led researchers to adapt MPNNs through rewiring or make use of Graph Transformers, which compromises the computational efficiency that characterized early spatial message-passing architectures, and typically disregards the graph structure. Almost a decade after its original introduction, we revisit ChebNet to shed light on its ability to model distant node interactions. We find that out-of-box, ChebNet already shows competitive advantages relative to classical MPNNs and GTs on long-range benchmarks, while maintaining good scalability properties for high-order polynomials. However, we uncover that this polynomial expansion leads ChebNet to an unstable regime during training. To address this limitation, we cast ChebNet as a stable and non-dissipative dynamical system, which we coin Stable-ChebNet. Our Stable-ChebNet model allows for stable information propagation, and has controllable dynamics which do not require the use of eigendecompositions, positional encodings, or graph rewiring. Across several benchmarks, Stable-ChebNet achieves near state-of-the-art performance.

cs.LG↗

arXiv2025

gLSTM: Mitigating Over-Squashing by Increasing Storage Capacity

Graph Neural Networks (GNNs) leverage the graph structure to transmit information between nodes, typically through the message-passing mechanism. While these models have found a wide variety of applications, they are known to suffer from over-squashing, where information from a large receptive field of node representations is collapsed into a single fixed sized vector, resulting in an information bottleneck. In this paper, we re-examine the over-squashing phenomenon through the lens of model storage and retrieval capacity, which we define as the amount of information that can be stored in a node's representation for later use. We study some of the limitations of existing tasks used to measure over-squashing and introduce a new synthetic task to demonstrate that an information bottleneck can saturate this capacity. Furthermore, we adapt ideas from the sequence modeling literature on associative memories, fast weight programmers, and the xLSTM model to develop a novel GNN architecture with improved capacity. We demonstrate strong performance of this architecture both on our capacity synthetic task, as well as a range of real-world graph benchmarks.

cs.LG↗

arXiv2025

On the Importance of Task Complexity in Evaluating LLM-Based Multi-Agent Systems

Large language model multi-agent systems (LLM-MAS) offer a promising paradigm for harnessing collective intelligence to achieve more advanced forms of AI behaviour. While recent studies suggest that LLM-MAS can outperform LLM single-agent systems (LLM-SAS) on certain tasks, the lack of systematic experimental designs limits the strength and generality of these conclusions. We argue that a principled understanding of task complexity, such as the degree of sequential reasoning required and the breadth of capabilities involved, is essential for assessing the effectiveness of LLM-MAS in task solving. To this end, we propose a theoretical framework characterising tasks along two dimensions: depth, representing reasoning length, and width, representing capability diversity. We theoretically examine a representative class of LLM-MAS, namely the multi-agent debate system, and empirically evaluate its performance in both discriminative and generative tasks with varying depth and width. Theoretical and empirical results show that the benefit of LLM-MAS over LLM-SAS increases with both task depth and width, and the effect is more pronounced with respect to depth. This clarifies when LLM-MAS are beneficial and provides a principled foundation for designing future LLM-MAS methods and benchmarks.

cs.AI↗

arXiv2025

On the Impact of Downstream Tasks on Sampling and Reconstructing Noisy Graph Signals

We investigate graph signal reconstruction and sample selection for classification tasks. We present general theoretical characterisations of classification error applicable to multiple commonly used reconstruction methods, and compare that to the classical reconstruction error. We demonstrate the applicability of our results by using them to derive new optimal sampling methods for linearized graph convolutional networks, and show improvement over other graph signal processing based methods.

eess.SP↗

arXiv2025

A Markov Random Field model for Hypergraph-based Machine Learning

Understanding the data-generating process is essential for building machine learning models that generalise well while ensuring robustness and interpretability. This paper addresses the fundamental challenge of modelling the data generation processes on hypergraphs and explores how such models can inform the design of machine learning algorithms for hypergraph data. The key to our approach is the development of a hypergraph Markov random field that models the joint distribution of the node features and hyperedge features in a hypergraph through a multivariate Gaussian distribution whose covariance matrix is uniquely determined by the hypergraph structure. The proposed data-generating process provides a valuable inductive bias for various hypergraph machine learning tasks, thus enhancing the algorithm design. In this paper, we focus on two representative downstream tasks: structure inference and node classification. Accordingly, we introduce two novel frameworks: 1) an original hypergraph structure inference framework named HGSI, and 2) a novel learning framework entitled Hypergraph-MLP for node classification on hypergraphs. Empirical evaluation of the proposed frameworks demonstrates that: 1) HGSI outperforms existing hypergraph structure inference methods on both synthetic and real-world data; and 2) Hypergraph-MLP outperforms baselines in six hypergraph node classification benchmarks, at the same time promoting runtime efficiency and robustness against structural perturbations during inference.

cs.LG↗

arXiv2025

Natural Evolutionary Search meets Probabilistic Numerics

Zeroth-order local optimisation algorithms are essential for solving real-valued black-box optimisation problems. Among these, Natural Evolution Strategies (NES) represent a prominent class, particularly well-suited for scenarios where prior distributions are available. By optimising the objective function in the space of search distributions, NES algorithms naturally integrate prior knowledge during initialisation, making them effective in settings such as semi-supervised learning and user-prior belief frameworks. However, due to their reliance on random sampling and Monte Carlo estimates, NES algorithms can suffer from limited sample efficiency. In this paper, we introduce a novel class of algorithms, termed Probabilistic Natural Evolutionary Strategy Algorithms (ProbNES), which enhance the NES framework with Bayesian quadrature. We show that ProbNES algorithms consistently outperforms their non-probabilistic counterparts as well as global sample efficient methods such as Bayesian Optimisation (BO) or $π$BO across a wide range of tasks, including benchmark test functions, data-driven optimisation tasks, user-informed hyperparameter tuning tasks and locomotion tasks.

cs.LG↗

arXiv2025

On Measuring Long-Range Interactions in Graph Neural Networks

Long-range graph tasks -- those dependent on interactions between distant nodes -- are an open problem in graph neural network research. Real-world benchmark tasks, especially the Long Range Graph Benchmark, have become popular for validating the long-range capability of proposed architectures. However, this is an empirical approach that lacks both robustness and theoretical underpinning; a more principled characterization of the long-range problem is required. To bridge this gap, we formalize long-range interactions in graph tasks, introduce a range measure for operators on graphs, and validate it with synthetic experiments. We then leverage our measure to examine commonly used tasks and architectures, and discuss to what extent they are, in fact, long-range. We believe our work advances efforts to define and address the long-range problem on graphs, and that our range measure will aid evaluation of new datasets and architectures.

cs.LG↗

arXiv2025

Spectral Clustering for Directed Graphs via Likelihood Estimation on Stochastic Block Models

Graph clustering is a fundamental task in unsupervised learning with broad real-world applications. While spectral clustering methods for undirected graphs are well-established and guided by a minimum cut optimization consensus, their extension to directed graphs remains relatively underexplored due to the additional complexity introduced by edge directions. In this paper, we leverage statistical inference on stochastic block models to guide the development of a spectral clustering algorithm for directed graphs. Specifically, we study the maximum likelihood estimation under a widely used directed stochastic block model, and derive a global objective function that aligns with the underlying community structure. We further establish a theoretical upper bound on the misclustering error of its spectral relaxation, and based on this relaxation, introduce a novel, self-adaptive spectral clustering method for directed graphs. Extensive experiments on synthetic and real-world datasets demonstrate significant performance gains over existing baselines.

stat.ML↗

arXiv2025

Graph and Simplicial Complex Prediction Gaussian Process via the Hodgelet Representations

Predicting the labels of graph-structured data is crucial in scientific applications and is often achieved using graph neural networks (GNNs). However, when data is scarce, GNNs suffer from overfitting, leading to poor performance. Recently, Gaussian processes (GPs) with graph-level inputs have been proposed as an alternative. In this work, we extend the Gaussian process framework to simplicial complexes (SCs), enabling the handling of edge-level attributes and attributes supported on higher-order simplices. We further augment the resulting SC representations by considering their Hodge decompositions, allowing us to account for homological information, such as the number of holes, in the SC. We demonstrate that our framework enhances the predictions across various applications, paving the way for GPs to be more widely used for graph and SC-level predictions.

cs.LG↗

arXiv2025

Bundle Neural Networks for message diffusion on graphs

The dominant paradigm for learning on graph-structured data is message passing. Despite being a strong inductive bias, the local message passing mechanism suffers from pathological issues such as over-smoothing, over-squashing, and limited node-level expressivity. To address these limitations we propose Bundle Neural Networks (BuNN), a new type of GNN that operates via message diffusion over flat vector bundles - structures analogous to connections on Riemannian manifolds that augment the graph by assigning to each node a vector space and an orthogonal map. A BuNN layer evolves the features according to a diffusion-type partial differential equation. When discretized, BuNNs are a special case of Sheaf Neural Networks (SNNs), a recently proposed MPNN capable of mitigating over-smoothing. The continuous nature of message diffusion enables BuNNs to operate on larger scales of the graph and, therefore, to mitigate over-squashing. Finally, we prove that BuNN can approximate any feature transformation over nodes on any (potentially infinite) family of graphs given injective positional encodings, resulting in universal node-level expressivity. We support our theory via synthetic experiments and showcase the strong empirical performance of BuNNs over a range of real-world tasks, achieving state-of-the-art results on several standard benchmarks in transductive and inductive settings.

cs.LG↗

arXiv2025

Motivic Toda brackets II

We construct more non-trivial examples for Toda brackets in unstable motivic homotopy theory via the first and second motivic Hopf maps.

math.AG↗

arXiv2025

Tactical Asset Allocation with Macroeconomic Regime Detection

This paper extends the tactical asset allocation literature by incorporating regime modeling using techniques from machine learning. We propose a novel model that classifies current regimes, forecasts the distribution of future regimes, and integrates these forecasts with the historical performance of individual assets to optimize portfolio allocations. Utilizing a macroeconomic data set from the FRED-MD database, our approach employs a modified k-means algorithm to ensure consistent regime classification over time. We then leverage these regime predictions to estimate expected returns and volatilities, which are subsequently mapped into portfolio allocations using various sizing schemes. Our method outperforms traditional benchmarks such as equal-weight, buy-and-hold, and random regime models. Additionally, we are the first to apply a regime detection model from a large macroeconomic dataset to tactical asset allocation, demonstrating significant improvements in portfolio performance. Our work presents several key contributions, including a novel data-driven regime detection algorithm tailored for uncertainty in forecasted regimes and applying the FRED-MD data set for tactical asset allocation.

q-fin.PM↗

arXiv2025

GNNs as Predictors of Agentic Workflow Performances

Agentic workflows invoked by Large Language Models (LLMs) have achieved remarkable success in handling complex tasks. However, optimizing such workflows is costly and inefficient in real-world applications due to extensive invocations of LLMs. To fill this gap, this position paper formulates agentic workflows as computational graphs and advocates Graph Neural Networks (GNNs) as efficient predictors of agentic workflow performances, avoiding repeated LLM invocations for evaluation. To empirically ground this position, we construct FLORA-Bench, a unified platform for benchmarking GNNs for predicting agentic workflow performances. With extensive experiments, we arrive at the following conclusion: GNNs are simple yet effective predictors. This conclusion supports new applications of GNNs and a novel direction towards automating agentic workflow optimization. All codes, models, and data are available at https://github.com/youngsoul0731/Flora-Bench.

cs.CL↗

arXiv2025

Learning Hypergraphs From Signals With Dual Smoothness Prior

Hypergraph structure learning, which aims to learn the hypergraph structures from the observed signals to capture the intrinsic high-order relationships among the entities, becomes crucial when a hypergraph topology is not readily available in the datasets. There are two challenges that lie at the heart of this problem: 1) how to handle the huge search space of potential hyperedges, and 2) how to define meaningful criteria to measure the relationship between the signals observed on nodes and the hypergraph structure. In this paper, for the first challenge, we adopt the assumption that the ideal hypergraph structure can be derived from a learnable graph structure that captures the pairwise relations within signals. Further, we propose a hypergraph structure learning framework HGSL with a novel dual smoothness prior that reveals a mapping between the observed node signals and the hypergraph structure, whereby each hyperedge corresponds to a subgraph with both node signal smoothness and edge signal smoothness in the learnable graph structure. Finally, we conduct extensive experiments to evaluate HGSL on both synthetic and real world datasets. Experiments show that HGSL can efficiently infer meaningful hypergraph topologies from observed signals.

cs.LG↗

arXiv2025

Hypergraph-MLP: Learning on Hypergraphs without Message Passing

Hypergraphs are vital in modelling data with higher-order relations containing more than two entities, gaining prominence in machine learning and signal processing. Many hypergraph neural networks leverage message passing over hypergraph structures to enhance node representation learning, yielding impressive performances in tasks like hypergraph node classification. However, these message-passing-based models face several challenges, including oversmoothing as well as high latency and sensitivity to structural perturbations at inference time. To tackle those challenges, we propose an alternative approach where we integrate the information about hypergraph structures into training supervision without explicit message passing, thus also removing the reliance on it at inference. Specifically, we introduce Hypergraph-MLP, a novel learning framework for hypergraph-structured data, where the learning model is a straightforward multilayer perceptron (MLP) supervised by a loss function based on a notion of signal smoothness on hypergraphs. Experiments on hypergraph node classification tasks demonstrate that Hypergraph-MLP achieves competitive performance compared to existing baselines, and is considerably faster and more robust against structural perturbations at inference.

cs.LG↗