Towards Fast Graph Generation via Autoregressive Noisy Filtration Modeling

Graph generative models often face a critical trade-off between learning complex distributions and achieving fast generation speed. We introduce Autoregressive Noisy Filtration Modeling (ANFM), a novel approach that addresses both challenges. ANFM leverages filtration, a concept from topological data analysis, to transform graphs into short sequences of monotonically increasing subgraphs. This formulation extends the sequence families used in previous autoregressive models. To learn from these sequences, we propose a novel autoregressive graph mixer model. Our experiments suggest that exposure bias might represent a substantial hurdle in autoregressive graph generation and we introduce two mitigation strategies to address it: noise augmentation and a reinforcement learning approach. Incorporating these techniques leads to substantial performance gains, making ANFM competitive with state-of-the-art diffusion models across diverse synthetic and real-world datasets. Notably, ANFM produces remarkably short sequences, achieving a 100-fold speedup in generation time compared to diffusion models. This work marks a significant step toward high-throughput graph generation.

Do Graph Diffusion Models Accurately Capture and Generate Substructure Distributions?

Diffusion models have gained popularity in graph generation tasks; however, the extent of their expressivity concerning the graph distributions they can learn is not fully understood. Unlike models in other domains, popular backbones for graph diffusion models, such as Graph Transformers, do not possess universal expressivity to accurately model the distribution scores of complex graph data. Our work addresses this limitation by focusing on the frequency of specific substructures as a key characteristic of target graph distributions. When evaluating existing models using this metric, we find that they fail to maintain the distribution of substructure counts observed in the training set when generating new graphs. To address this issue, we establish a theoretical connection between the expressivity of Graph Neural Networks (GNNs) and the overall performance of graph diffusion models, demonstrating that more expressive GNN backbones can better capture complex distribution patterns. By integrating advanced GNNs into the backbone architecture, we achieve significant improvements in substructure generation.

Graph-based Document Structure Analysis

When reading a document, glancing at the spatial layout of a document is an initial step to understand it roughly. Traditional document layout analysis (DLA) methods, however, offer only a superficial parsing of documents, focusing on basic instance detection and often failing to capture the nuanced spatial and logical relations between instances. These limitations hinder DLA-based models from achieving a gradually deeper comprehension akin to human reading. In this work, we propose a novel graph-based Document Structure Analysis (gDSA) task. This task requires that model not only detects document elements but also generates spatial and logical relations in form of a graph structure, allowing to understand documents in a holistic and intuitive manner. For this new task, we construct a relation graph-based document structure analysis dataset (GraphDoc) with 80K document images and 4.13M relation annotations, enabling training models to complete multiple tasks like reading order, hierarchical structures analysis, and complex inter-element relation inference. Furthermore, a document relation graph generator (DRGG) is proposed to address the gDSA task, which achieves performance with 57.6% at mAP$_g$@0.5 for a strong benchmark baseline on this novel task and dataset. We hope this graphical representation of document structure can mark an innovative advancement in document structure analysis and understanding. The new dataset and code will be made publicly available at https://yufanchen96.github.io/projects/GraphDoc.

LAYOUTDREAMER: Physics-guided Layout for Text-to-3D Compositional Scene Generation

Recently, the field of text-guided 3D scene generation has garnered significant attention. High-quality generation that aligns with physical realism and high controllability is crucial for practical 3D scene applications. However, existing methods face fundamental limitations: (i) difficulty capturing complex relationships between multiple objects described in the text, (ii) inability to generate physically plausible scene layouts, and (iii) lack of controllability and extensibility in compositional scenes. In this paper, we introduce LayoutDreamer, a framework that leverages 3D Gaussian Splatting (3DGS) to facilitate high-quality, physically consistent compositional scene generation guided by text. Specifically, given a text prompt, we convert it into a directed scene graph and adaptively adjust the density and layout of the initial compositional 3D Gaussians. Subsequently, dynamic camera adjustments are made based on the training focal point to ensure entity-level generation quality. Finally, by extracting directed dependencies from the scene graph, we tailor physical and layout energy to ensure both realism and flexibility. Comprehensive experiments demonstrate that LayoutDreamer outperforms other compositional scene generation quality and semantic alignment methods. Specifically, it achieves state-of-the-art (SOTA) performance in the multiple objects generation metric of T3Bench.

Query-Based and Unnoticeable Graph Injection Attack from Neighborhood Perspective

The robustness of Graph Neural Networks (GNNs) has become an increasingly important topic due to their expanding range of applications. Various attack methods have been proposed to explore the vulnerabilities of GNNs, ranging from Graph Modification Attacks (GMA) to the more practical and flexible Graph Injection Attacks (GIA). However, existing methods face two key challenges: (i) their reliance on surrogate models, which often leads to reduced attack effectiveness due to structural differences and prior biases, and (ii) existing GIA methods often sacrifice attack success rates in undefended settings to bypass certain defense models, thereby limiting their overall effectiveness. To overcome these limitations, we propose QUGIA, a Query-based and Unnoticeable Graph Injection Attack. QUGIA injects nodes by first selecting edges based on victim node connections and then generating node features using a Bayesian framework. This ensures that the injected nodes are similar to the original graph nodes, implicitly preserving homophily and making the attack more unnoticeable. Unlike previous methods, QUGIA does not rely on surrogate models, thereby avoiding performance degradation and achieving better generalization. Extensive experiments on six real-world datasets with diverse characteristics demonstrate that QUGIA achieves unnoticeable attacks and outperforms state-of-the-art attackers. The code will be released upon acceptance.

Causal bandits with backdoor adjustment on unknown Gaussian DAGs

The causal bandit problem aims to sequentially learn the intervention that maximizes the expectation of a reward variable within a system governed by a causal graph. Most existing approaches assume prior knowledge of the graph structure, or impose unrealistically restrictive conditions on the graph. In this paper, we assume a Gaussian linear directed acyclic graph (DAG) over arms and the reward variable, and study the causal bandit problem when the graph structure is unknown. We identify backdoor adjustment sets for each arm using sequentially generated experimental and observational data during the decision process, which allows us to estimate causal effects and construct upper confidence bounds. By integrating estimates from both data sources, we develop a novel bandit algorithm, based on modified upper confidence bounds, to sequentially determine the optimal intervention. We establish both case-dependent and case-independent upper bounds on the cumulative regret for our algorithm, which improve upon the bounds of the standard multi-armed bandit algorithms. Our empirical study demonstrates its advantage over existing methods with respect to cumulative regret and computation time.

GFM-RAG: Graph Foundation Model for Retrieval Augmented Generation

Retrieval-augmented generation (RAG) has proven effective in integrating knowledge into large language models (LLMs). However, conventional RAGs struggle to capture complex relationships between pieces of knowledge, limiting their performance in intricate reasoning that requires integrating knowledge from multiple sources. Recently, graph-enhanced retrieval augmented generation (GraphRAG) builds graph structure to explicitly model these relationships, enabling more effective and efficient retrievers. Nevertheless, its performance is still hindered by the noise and incompleteness within the graph structure. To address this, we introduce GFM-RAG, a novel graph foundation model (GFM) for retrieval augmented generation. GFM-RAG is powered by an innovative graph neural network that reasons over graph structure to capture complex query-knowledge relationships. The GFM with 8M parameters undergoes a two-stage training process on large-scale datasets, comprising 60 knowledge graphs with over 14M triples and 700k documents. This results in impressive performance and generalizability for GFM-RAG, making it the first graph foundation model applicable to unseen datasets for retrieval without any fine-tuning required. Extensive experiments on three multi-hop QA datasets and seven domain-specific RAG datasets demonstrate that GFM-RAG achieves state-of-the-art performance while maintaining efficiency and alignment with neural scaling laws, highlighting its potential for further improvement.

Open Materials Generation with Stochastic Interpolants

The discovery of new materials is essential for enabling technological advancements. Computational approaches for predicting novel materials must effectively learn the manifold of stable crystal structures within an infinite design space. We introduce Open Materials Generation (OMG), a unifying framework for the generative design and discovery of inorganic crystalline materials. OMG employs stochastic interpolants (SI) to bridge an arbitrary base distribution to the target distribution of inorganic crystals via a broad class of tunable stochastic processes, encompassing both diffusion models and flow matching as special cases. In this work, we adapt the SI framework by integrating an equivariant graph representation of crystal structures and extending it to account for periodic boundary conditions in unit cell representations. Additionally, we couple the SI flow over spatial coordinates and lattice vectors with discrete flow matching for atomic species. We benchmark OMG's performance on two tasks: Crystal Structure Prediction (CSP) for specified compositions, and 'de novo' generation (DNG) aimed at discovering stable, novel, and unique structures. In our ground-up implementation of OMG, we refine and extend both CSP and DNG metrics compared to previous works. OMG establishes a new state-of-the-art in generative modeling for materials discovery, outperforming purely flow-based and diffusion-based implementations. These results underscore the importance of designing flexible deep learning frameworks to accelerate progress in materials science.

Boosting Graph Robustness Against Backdoor Attacks: An Over-Similarity Perspective

Graph Neural Networks (GNNs) have achieved notable success in tasks such as social and transportation networks. However, recent studies have highlighted the vulnerability of GNNs to backdoor attacks, raising significant concerns about their reliability in real-world applications. Despite initial efforts to defend against specific graph backdoor attacks, existing defense methods face two main challenges: either the inability to establish a clear distinction between triggers and clean nodes, resulting in the removal of many clean nodes, or the failure to eliminate the impact of triggers, making it challenging to restore the target nodes to their pre-attack state. Through empirical analysis of various existing graph backdoor attacks, we observe that the triggers generated by these methods exhibit over-similarity in both features and structure. Based on this observation, we propose a novel graph backdoor defense method SimGuard. We first utilizes a similarity-based metric to detect triggers and then employs contrastive learning to train a backdoor detector that generates embeddings capable of separating triggers from clean nodes, thereby improving detection efficiency. Extensive experiments conducted on real-world datasets demonstrate that our proposed method effectively defends against various graph backdoor attacks while preserving performance on clean nodes. The code will be released upon acceptance.

Learning Traffic Anomalies from Generative Models on Real-Time Observations

Accurate detection of traffic anomalies is crucial for effective urban traffic management and congestion mitigation. We use the Spatiotemporal Generative Adversarial Network (STGAN) framework combining Graph Neural Networks and Long Short-Term Memory networks to capture complex spatial and temporal dependencies in traffic data. We apply STGAN to real-time, minute-by-minute observations from 42 traffic cameras across Gothenburg, Sweden, collected over several months in 2020. The images are processed to compute a flow metric representing vehicle density, which serves as input for the model. Training is conducted on data from April to November 2020, and validation is performed on a separate dataset from November 14 to 23, 2020. Our results demonstrate that the model effectively detects traffic anomalies with high precision and low false positive rates. The detected anomalies include camera signal interruptions, visual artifacts, and extreme weather conditions affecting traffic flow.