new

Get trending papers in your email inbox!

Subscribe

Daily Papers

byAK and the research community

Oct 5

Mixture of Weak & Strong Experts on Graphs

Realistic graphs contain both (1) rich self-features of nodes and (2) informative structures of neighborhoods, jointly handled by a Graph Neural Network (GNN) in the typical setup. We propose to decouple the two modalities by Mixture of weak and strong experts (Mowst), where the weak expert is a light-weight Multi-layer Perceptron (MLP), and the strong expert is an off-the-shelf GNN. To adapt the experts' collaboration to different target nodes, we propose a "confidence" mechanism based on the dispersion of the weak expert's prediction logits. The strong expert is conditionally activated in the low-confidence region when either the node's classification relies on neighborhood information, or the weak expert has low model quality. We reveal interesting training dynamics by analyzing the influence of the confidence function on loss: our training algorithm encourages the specialization of each expert by effectively generating soft splitting of the graph. In addition, our "confidence" design imposes a desirable bias toward the strong expert to benefit from GNN's better generalization capability. Mowst is easy to optimize and achieves strong expressive power, with a computation cost comparable to a single GNN. Empirically, Mowst on 4 backbone GNN architectures show significant accuracy improvement on 6 standard node classification benchmarks, including both homophilous and heterophilous graphs (https://github.com/facebookresearch/mowst-gnn).

  • 5 authors
·
Nov 9, 2023

GLENS: Global Search via Learning from Solver Iterates with Diffusion Models

We consider the problem of generating a large collection of initial guesses for local minima of multimodal non-convex continuous optimization problems. The goal is for these initial guesses to be high-quality (i.e., a numerical solver converges quickly) and diverse (i.e., represent many different local minima). Identifying multiple locally optimal solutions enables flexible downstream decision-making, but typically requires expensive global search. Existing data-driven methods predict initial guesses using only the final converged optima from offline solver runs, which discards information about the local neighborhoods of solutions and limits the available training data. We propose GLENS (Global Search via Learning from Solver Iterates), a data-efficient global search method that leverages intermediate solver iterates as free data augmentation. GLENS consists of two components: a neighborhood structure model that uses diffusion models to learn the local geometry around optima conditioned on problem parameters, and a solver behavior model that learns refinement directions to further guide samples towards nearby optima during diffusion sampling. Experiments on modified non-convex benchmark problems and a two-robot obstacle-avoidance navigation problem show that GLENS generates high-quality initial guesses while preserving the multimodal distribution of diverse local optima. The resulting initial guesses lead to faster solver convergence across different problem settings and solvers. We also analyze how key hyperparameter choices affect the performance.

  • 3 authors
·
May 28

HetGPT: Harnessing the Power of Prompt Tuning in Pre-Trained Heterogeneous Graph Neural Networks

Graphs have emerged as a natural choice to represent and analyze the intricate patterns and rich information of the Web, enabling applications such as online page classification and social recommendation. The prevailing "pre-train, fine-tune" paradigm has been widely adopted in graph machine learning tasks, particularly in scenarios with limited labeled nodes. However, this approach often exhibits a misalignment between the training objectives of pretext tasks and those of downstream tasks. This gap can result in the "negative transfer" problem, wherein the knowledge gained from pre-training adversely affects performance in the downstream tasks. The surge in prompt-based learning within Natural Language Processing (NLP) suggests the potential of adapting a "pre-train, prompt" paradigm to graphs as an alternative. However, existing graph prompting techniques are tailored to homogeneous graphs, neglecting the inherent heterogeneity of Web graphs. To bridge this gap, we propose HetGPT, a general post-training prompting framework to improve the predictive performance of pre-trained heterogeneous graph neural networks (HGNNs). The key is the design of a novel prompting function that integrates a virtual class prompt and a heterogeneous feature prompt, with the aim to reformulate downstream tasks to mirror pretext tasks. Moreover, HetGPT introduces a multi-view neighborhood aggregation mechanism, capturing the complex neighborhood structure in heterogeneous graphs. Extensive experiments on three benchmark datasets demonstrate HetGPT's capability to enhance the performance of state-of-the-art HGNNs on semi-supervised node classification.

  • 5 authors
·
Feb 3, 2025

Graph Neural Networks for Microbial Genome Recovery

Microbes have a profound impact on our health and environment, but our understanding of the diversity and function of microbial communities is severely limited. Through DNA sequencing of microbial communities (metagenomics), DNA fragments (reads) of the individual microbes can be obtained, which through assembly graphs can be combined into long contiguous DNA sequences (contigs). Given the complexity of microbial communities, single contig microbial genomes are rarely obtained. Instead, contigs are eventually clustered into bins, with each bin ideally making up a full genome. This process is referred to as metagenomic binning. Current state-of-the-art techniques for metagenomic binning rely only on the local features for the individual contigs. These techniques therefore fail to exploit the similarities between contigs as encoded by the assembly graph, in which the contigs are organized. In this paper, we propose to use Graph Neural Networks (GNNs) to leverage the assembly graph when learning contig representations for metagenomic binning. Our method, VaeG-Bin, combines variational autoencoders for learning latent representations of the individual contigs, with GNNs for refining these representations by taking into account the neighborhood structure of the contigs in the assembly graph. We explore several types of GNNs and demonstrate that VaeG-Bin recovers more high-quality genomes than other state-of-the-art binners on both simulated and real-world datasets.

  • 5 authors
·
Apr 26, 2022

Layer-stacked Attention for Heterogeneous Network Embedding

The heterogeneous network is a robust data abstraction that can model entities of different types interacting in various ways. Such heterogeneity brings rich semantic information but presents nontrivial challenges in aggregating the heterogeneous relationships between objects - especially those of higher-order indirect relations. Recent graph neural network approaches for representation learning on heterogeneous networks typically employ the attention mechanism, which is often only optimized for predictions based on direct links. Furthermore, even though most deep learning methods can aggregate higher-order information by building deeper models, such a scheme can diminish the degree of interpretability. To overcome these challenges, we explore an architecture - Layer-stacked ATTention Embedding (LATTE) - that automatically decomposes higher-order meta relations at each layer to extract the relevant heterogeneous neighborhood structures for each node. Additionally, by successively stacking layer representations, the learned node embedding offers a more interpretable aggregation scheme for nodes of different types at different neighborhood ranges. We conducted experiments on several benchmark heterogeneous network datasets. In both transductive and inductive node classification tasks, LATTE can achieve state-of-the-art performance compared to existing approaches, all while offering a lightweight model. With extensive experimental analyses and visualizations, the framework can demonstrate the ability to extract informative insights on heterogeneous networks.

  • 2 authors
·
Sep 17, 2020

Compact 3D Scene Representation via Self-Organizing Gaussian Grids

3D Gaussian Splatting has recently emerged as a highly promising technique for modeling of static 3D scenes. In contrast to Neural Radiance Fields, it utilizes efficient rasterization allowing for very fast rendering at high-quality. However, the storage size is significantly higher, which hinders practical deployment, e.g.~on resource constrained devices. In this paper, we introduce a compact scene representation organizing the parameters of 3D Gaussian Splatting (3DGS) into a 2D grid with local homogeneity, ensuring a drastic reduction in storage requirements without compromising visual quality during rendering. Central to our idea is the explicit exploitation of perceptual redundancies present in natural scenes. In essence, the inherent nature of a scene allows for numerous permutations of Gaussian parameters to equivalently represent it. To this end, we propose a novel highly parallel algorithm that regularly arranges the high-dimensional Gaussian parameters into a 2D grid while preserving their neighborhood structure. During training, we further enforce local smoothness between the sorted parameters in the grid. The uncompressed Gaussians use the same structure as 3DGS, ensuring a seamless integration with established renderers. Our method achieves a reduction factor of 8x to 26x in size for complex scenes with no increase in training time, marking a substantial leap forward in the domain of 3D scene distribution and consumption. Additional information can be found on our project page: https://fraunhoferhhi.github.io/Self-Organizing-Gaussians/

  • 4 authors
·
Dec 19, 2023

Neighborhood-aware Scalable Temporal Network Representation Learning

Temporal networks have been widely used to model real-world complex systems such as financial systems and e-commerce systems. In a temporal network, the joint neighborhood of a set of nodes often provides crucial structural information useful for predicting whether they may interact at a certain time. However, recent representation learning methods for temporal networks often fail to extract such information or depend on online construction of structural features, which is time-consuming. To address the issue, this work proposes Neighborhood-Aware Temporal network model (NAT). For each node in the network, NAT abandons the commonly-used one-single-vector-based representation while adopting a novel dictionary-type neighborhood representation. Such a dictionary representation records a downsampled set of the neighboring nodes as keys, and allows fast construction of structural features for a joint neighborhood of multiple nodes. We also design a dedicated data structure termed N-cache to support parallel access and update of those dictionary representations on GPUs. NAT gets evaluated over seven real-world large-scale temporal networks. NAT not only outperforms all cutting-edge baselines by averaged 1.2% and 4.2% in transductive and inductive link prediction accuracy, respectively, but also keeps scalable by achieving a speed-up of 4.1-76.7x against the baselines that adopt joint structural features and achieves a speed-up of 1.6-4.0x against the baselines that cannot adopt those features. The link to the code: https: //github.com/Graph-COM/Neighborhood-Aware-Temporal-Network.

  • 2 authors
·
Sep 2, 2022

Tokenizing 3D Molecule Structure with Quantized Spherical Coordinates

The application of language models (LMs) to molecular structure generation using line notations such as SMILES and SELFIES has been well-established in the field of cheminformatics. However, extending these models to generate 3D molecular structures presents significant challenges. Two primary obstacles emerge: (1) the difficulty in designing a 3D line notation that ensures SE(3)-invariant atomic coordinates, and (2) the non-trivial task of tokenizing continuous coordinates for use in LMs, which inherently require discrete inputs. To address these challenges, we propose Mol-StrucTok, a novel method for tokenizing 3D molecular structures. Our approach comprises two key innovations: (1) We design a line notation for 3D molecules by extracting local atomic coordinates in a spherical coordinate system. This notation builds upon existing 2D line notations and remains agnostic to their specific forms, ensuring compatibility with various molecular representation schemes. (2) We employ a Vector Quantized Variational Autoencoder (VQ-VAE) to tokenize these coordinates, treating them as generation descriptors. To further enhance the representation, we incorporate neighborhood bond lengths and bond angles as understanding descriptors. Leveraging this tokenization framework, we train a GPT-2 style model for 3D molecular generation tasks. Results demonstrate strong performance with significantly faster generation speeds and competitive chemical stability compared to previous methods. Further, by integrating our learned discrete representations into Graphormer model for property prediction on QM9 dataset, Mol-StrucTok reveals consistent improvements across various molecular properties, underscoring the versatility and robustness of our approach.

  • 8 authors
·
Dec 1, 2024

Improving Graph Collaborative Filtering with Neighborhood-enriched Contrastive Learning

Recently, graph collaborative filtering methods have been proposed as an effective recommendation approach, which can capture users' preference over items by modeling the user-item interaction graphs. In order to reduce the influence of data sparsity, contrastive learning is adopted in graph collaborative filtering for enhancing the performance. However, these methods typically construct the contrastive pairs by random sampling, which neglect the neighboring relations among users (or items) and fail to fully exploit the potential of contrastive learning for recommendation. To tackle the above issue, we propose a novel contrastive learning approach, named Neighborhood-enriched Contrastive Learning, named NCL, which explicitly incorporates the potential neighbors into contrastive pairs. Specifically, we introduce the neighbors of a user (or an item) from graph structure and semantic space respectively. For the structural neighbors on the interaction graph, we develop a novel structure-contrastive objective that regards users (or items) and their structural neighbors as positive contrastive pairs. In implementation, the representations of users (or items) and neighbors correspond to the outputs of different GNN layers. Furthermore, to excavate the potential neighbor relation in semantic space, we assume that users with similar representations are within the semantic neighborhood, and incorporate these semantic neighbors into the prototype-contrastive objective. The proposed NCL can be optimized with EM algorithm and generalized to apply to graph collaborative filtering methods. Extensive experiments on five public datasets demonstrate the effectiveness of the proposed NCL, notably with 26% and 17% performance gain over a competitive graph collaborative filtering base model on the Yelp and Amazon-book datasets respectively. Our code is available at: https://github.com/RUCAIBox/NCL.

  • 4 authors
·
Feb 12, 2022

GONE: Structural Knowledge Unlearning via Neighborhood-Expanded Distribution Shaping

Unlearning knowledge is a pressing and challenging task in Large Language Models (LLMs) because of their unprecedented capability to memorize and digest training data at scale, raising more significant issues regarding safety, privacy, and intellectual property. However, existing works, including parameter editing, fine-tuning, and distillation-based methods, are all focused on flat sentence-level data but overlook the relational, multi-hop, and reasoned knowledge in naturally structured data. In response to this gap, this paper introduces Graph Oblivion and Node Erasure (GONE), a benchmark for evaluating knowledge unlearning over structured knowledge graph (KG) facts in LLMs. This KG-based benchmark enables the disentanglement of three effects of unlearning: direct fact removal, reasoning-based leakage, and catastrophic forgetting. In addition, Neighborhood-Expanded Distribution Shaping (NEDS), a novel unlearning framework, is designed to leverage graph connectivity and identify anchor correlated neighbors, enforcing a precise decision boundary between the forgotten fact and its semantic neighborhood. Evaluations on LLaMA-3-8B and Mistral-7B across multiple knowledge editing and unlearning methods showcase NEDS's superior performance (1.000 on unlearning efficacy and 0.839 on locality) on GONE and other benchmarks. Code is available at https://anonymous.4open.science/r/GONE-4679/.

  • 3 authors
·
Feb 20

Spatial-Mamba: Effective Visual State Space Models via Structure-aware State Fusion

Selective state space models (SSMs), such as Mamba, highly excel at capturing long-range dependencies in 1D sequential data, while their applications to 2D vision tasks still face challenges. Current visual SSMs often convert images into 1D sequences and employ various scanning patterns to incorporate local spatial dependencies. However, these methods are limited in effectively capturing the complex image spatial structures and the increased computational cost caused by the lengthened scanning paths. To address these limitations, we propose Spatial-Mamba, a novel approach that establishes neighborhood connectivity directly in the state space. Instead of relying solely on sequential state transitions, we introduce a structure-aware state fusion equation, which leverages dilated convolutions to capture image spatial structural dependencies, significantly enhancing the flow of visual contextual information. Spatial-Mamba proceeds in three stages: initial state computation in a unidirectional scan, spatial context acquisition through structure-aware state fusion, and final state computation using the observation equation. Our theoretical analysis shows that Spatial-Mamba unifies the original Mamba and linear attention under the same matrix multiplication framework, providing a deeper understanding of our method. Experimental results demonstrate that Spatial-Mamba, even with a single scan, attains or surpasses the state-of-the-art SSM-based models in image classification, detection and segmentation. Source codes and trained models can be found at https://github.com/EdwardChasel/Spatial-Mamba.

  • 5 authors
·
Oct 19, 2024

With Limited Data for Multimodal Alignment, Let the STRUCTURE Guide You

Multimodal models have demonstrated powerful capabilities in complex tasks requiring multimodal alignment including zero-shot classification and cross-modal retrieval. However, existing models typically rely on millions of paired multimodal samples, which are prohibitively expensive or infeasible to obtain in many domains. In this work, we explore the feasibility of building multimodal models with limited amount of paired data by aligning pretrained unimodal foundation models. We show that high-quality alignment is possible with as few as tens of thousands of paired samplesx2013less than 1% of the data typically used in the field. To achieve this, we introduce STRUCTURE, an effective regularization technique that preserves the neighborhood geometry of the latent space of unimodal encoders. Additionally, we show that aligning last layers is often suboptimal and demonstrate the benefits of aligning the layers with the highest representational similarity across modalities. These two components can be readily incorporated into existing alignment methods, yielding substantial gains across 24 zero-shot image classification and retrieval benchmarks, with average relative improvement of 51.6% in classification and 91.8% in retrieval tasks. Our results highlight the effectiveness and broad applicability of our framework for limited-sample multimodal learning and offer a promising path forward for resource-constrained domains.

  • 4 authors
·
Jun 20, 2025

One Model, Many Graphs: Learning over Attributed Graphs across Heterogeneous Modalities with Vision-Language Models

Vision-language models (VLMs) provide a unified representation space for textual and visual information, yet their potential as general-purpose backbones for graph-structured data remains largely unexplored. In practice, attributed graphs exhibit substantial modality heterogeneity: some graphs contain only textual node attributes, others only visual attributes, while still others provide both. Existing graph learning approaches are typically designed for fixed modality schemas, requiring separate models for different settings and limiting scalability and cross-graph generalization. To bridge this gap, we present OMG-VLM (One Model, Many Graphs with Vision-Language Models), a unified framework for learning over attributed graphs across heterogeneous modality schemas. OMG-VLM leverages a pretrained VLM as a shared backbone and introduces structure-aware graph adapters that integrate neighborhood information while remaining compatible with the VLM's native embedding space. This design enables effective learning over text-attributed, image-attributed, and multi-attributed graphs within a single model. Extensive experiments across diverse domains show that OMG-VLM consistently outperforms state-of-the-art GNN- and LLM-based baselines on attributed graph learning tasks such as node classification and link prediction, while exhibiting strong generalization to unseen graphs and varying modality schemas. The source code is available at https://github.com/Jo-eyang/OMG-VLM.

  • 5 authors
·
Jul 20

Graph Mamba: Towards Learning on Graphs with State Space Models

Graph Neural Networks (GNNs) have shown promising potential in graph representation learning. The majority of GNNs define a local message-passing mechanism, propagating information over the graph by stacking multiple layers. These methods, however, are known to suffer from two major limitations: over-squashing and poor capturing of long-range dependencies. Recently, Graph Transformers (GTs) emerged as a powerful alternative to Message-Passing Neural Networks (MPNNs). GTs, however, have quadratic computational cost, lack inductive biases on graph structures, and rely on complex Positional/Structural Encodings (SE/PE). In this paper, we show that while Transformers, complex message-passing, and SE/PE are sufficient for good performance in practice, neither is necessary. Motivated by the recent success of State Space Models (SSMs), such as Mamba, we present Graph Mamba Networks (GMNs), a general framework for a new class of GNNs based on selective SSMs. We discuss and categorize the new challenges when adopting SSMs to graph-structured data, and present four required and one optional steps to design GMNs, where we choose (1) Neighborhood Tokenization, (2) Token Ordering, (3) Architecture of Bidirectional Selective SSM Encoder, (4) Local Encoding, and dispensable (5) PE and SE. We further provide theoretical justification for the power of GMNs. Experiments demonstrate that despite much less computational cost, GMNs attain an outstanding performance in long-range, small-scale, large-scale, and heterophilic benchmark datasets.

  • 2 authors
·
Feb 13, 2024 1

LEEVLA: Seeing What Matters in Latent Environment Evolution for Vision-Language-Action

Vision-language-action (VLA) models aim to map multimodal inputs to robot actions. However, most existing approaches struggle to cover complex dynamic scenarios due to treating all visual tokens uniformly and reasoning with human-selected factors, which lack mechanisms to emphasize task-critical evidence and ignore underlying factors. To address this issue, we propose LEEVLA, a VLA architecture for seeing what matters in Latent Environment Evolution that explicitly guides the model toward informative regions while preserving the structured evolution of latent world representations. To identify salient and instruction-relevant regions, we introduce drift-guided dynamic prioritization (DGDP), which combines dynamic position prioritization (DPP) with semantic drift guidance (SDG) to guide the VLA agent where to attend during training. On top of this, we introduce structured feature flow generation (SFFG), which models how these prioritized features should evolve in latent space via prototype-to-periphery (P2P) prediction, and a mutual-neighborhood contrastive (MC) loss to maintain topological consistency among neighborhoods. Together, DGDP and SFFG form a task-aware "where-how" training framework. Extensive experiments on VLA benchmarks show that LEEVLA consistently outperforms prior methods, confirming that explicit task-evidence guidance and structured latent reasoning are both crucial for scalable VLA. Our code is available at https://github.com/LyuQi127/LEEVLA.

  • 6 authors
·
Jul 8

Mind the Heads: Topological Representation Alignment for Multimodal LLMs

Representation alignment has emerged as an effective approach to improve Multimodal Large Language Models (MLLMs) by regularizing their internal representations toward those of an external vision encoder. However, existing methods typically align a fixed layer of the language backbone, overlooking the fine-grained structure of Transformer models. In this work, we propose Head-Wise Representation Alignment (HeRA), a method that enforces cross-modal alignment at the level of individual attention heads. Our approach is grounded in the Platonic Representation Hypothesis, focusing on preserving the topological structure of representations (i.e., their local neighborhood relationships) across modalities. Following the Mutual K-Nearest Neighbor (MKNN) alignment metric, we introduce a contrastive objective that acts as a differentiable proxy for matching local structures. HeRA applies this objective during multimodal training to specific attention heads in the LLM, selected by their alignment score according to the MKNN metric. Counterintuitively, we find that aligning the least aligned heads yields the largest gains. Extensive evaluations across multiple MLLMs and 18 benchmarks demonstrate that HeRA consistently improves performance on challenging vision-centric tasks and serves as an effective regularizer against visual hallucinations by naturally curbing the over-reliance on linguistic priors. Our code is publicly released.

aimagelab AImageLab
·
Jun 21 2

Graph-Aware Isomorphic Attention for Adaptive Dynamics in Transformers

We present an approach to modifying Transformer architectures by integrating graph-aware relational reasoning into the attention mechanism, merging concepts from graph neural networks and language modeling. Building on the inherent connection between attention and graph theory, we reformulate the Transformer's attention mechanism as a graph operation and propose Graph-Aware Isomorphic Attention. This method leverages advanced graph modeling strategies, including Graph Isomorphism Networks (GIN) and Principal Neighborhood Aggregation (PNA), to enrich the representation of relational structures. Our approach captures complex dependencies and generalizes across tasks, as evidenced by a reduced generalization gap and improved learning performance. Additionally, we expand the concept of graph-aware attention to introduce Sparse GIN-Attention, a fine-tuning approach that employs sparse GINs. By interpreting attention matrices as sparse adjacency graphs, this technique enhances the adaptability of pre-trained foundational models with minimal computational overhead, endowing them with graph-aware capabilities. Sparse GIN-Attention fine-tuning achieves improved training dynamics and better generalization compared to alternative methods like low-rank adaption (LoRA). We discuss latent graph-like structures within traditional attention mechanisms, offering a new lens through which Transformers can be understood. By evolving Transformers as hierarchical GIN models for relational reasoning. This perspective suggests profound implications for foundational model development, enabling the design of architectures that dynamically adapt to both local and global dependencies. Applications in bioinformatics, materials science, language modeling, and beyond could benefit from this synthesis of relational and sequential data modeling, setting the stage for interpretable and generalizable modeling strategies.

  • 1 authors
·
Jan 4, 2025 2

Jets of foliations and $b^k$-algebroids

In this article, we introduce and study singular foliations of b^k-type. These singular foliations formalize the properties of vector fields that are tangent to order k along a submanifold W subset M. Our first result is a classification of these foliations, relating them to geometric structures defined in a formal neighborhood of the submanifold, such as jets of distributions that are involutive up to order k-1. When W is a hypersurface, singular foliations of b^k-type are Lie algebroids. In this particular case, they are generalizations of the b^k-tangent bundles introduced by Scott. Indeed, they are always locally isomorphic to b^k-tangent bundles, but globally such an isomorphism is obstructed by a holonomy invariant. Our second main result is a Riemann-Hilbert-style classification of singular foliations of b^k-type in terms of holonomy representations. In this paper, we study singular foliations of b^k-type from several different perspectives. In particular: (1) We study the problem of extending a k-th-order foliation to a (k+1)-th order foliation and prove that this is obstructed by a characteristic class. (2) When W is a hypersurface, we give a detailed study of algebroid differential forms and extend Scott's calculation of the cohomology. (3) We study algebroid symplectic forms in terms of the geometric structures induced on W. In particular, we find that there is a close relationship between the above obstruction class for extensions and the symplectic variation of the symplectic foliation induced on W.

  • 3 authors
·
Nov 28, 2023

You Only Edit Once: Incentivizing In-Context Capability of LLMs via Local Demonstration Refinement

In-context learning (ICL) is crucial for boosting the inference performance of large language models (LLMs). However, the effectiveness of ICL in LLMs is greatly influenced by the choice of demonstration sets. Exhaustive searches over these sets are combinatorial, and existing selectors often rely on relevance or likelihood proxies to implicitly assess ICL quality. Making repeated queries to the target LLM with these strategies can incur substantial costs. This work simplifies selection by framing it as a constrained local search problem and presents local demonstration editing (LDE). Starting with an initially retrieved set of demonstrations, LDE employs a single structured edit to explore its surrounding neighborhood while balancing performance gains with search costs. Technically, LDE is reduced to a policy search problem, for which we train a small LLM, referred to as Jev-LDE. This model as the System-1 modifies the retrieved demonstration set by performing actions such as Keep, Delete, or Replace elements, all within a framework of reinforcement learning with verifiable rewards. At test time, Jev-LDE executes a single edit of the retrieved demonstration set, followed by one inference from the target LLM, avoiding the need for iterative context scoring or subset searches. Across standard classification benchmarks, various target LLMs with Jev-LDE as the plug-and-play module consistently improve ICL performance, and Jev-LDE shows transferability to held-out benchmarks and models without retraining. These findings indicate that the LDE approach offers an efficient and adaptable method for harnessing the ICL capabilities of target LLMs.

  • 11 authors
·
Sep 26

Learning Scalable Structural Representations for Link Prediction with Bloom Signatures

Graph neural networks (GNNs) have shown great potential in learning on graphs, but they are known to perform sub-optimally on link prediction tasks. Existing GNNs are primarily designed to learn node-wise representations and usually fail to capture pairwise relations between target nodes, which proves to be crucial for link prediction. Recent works resort to learning more expressive edge-wise representations by enhancing vanilla GNNs with structural features such as labeling tricks and link prediction heuristics, but they suffer from high computational overhead and limited scalability. To tackle this issue, we propose to learn structural link representations by augmenting the message-passing framework of GNNs with Bloom signatures. Bloom signatures are hashing-based compact encodings of node neighborhoods, which can be efficiently merged to recover various types of edge-wise structural features. We further show that any type of neighborhood overlap-based heuristic can be estimated by a neural network that takes Bloom signatures as input. GNNs with Bloom signatures are provably more expressive than vanilla GNNs and also more scalable than existing edge-wise models. Experimental results on five standard link prediction benchmarks show that our proposed model achieves comparable or better performance than existing edge-wise GNN models while being 3-200 times faster and more memory-efficient for online inference.

  • 5 authors
·
Dec 27, 2023

G-LNS: Generative Large Neighborhood Search for LLM-Based Automatic Heuristic Design

While Large Language Models (LLMs) have recently shown promise in Automated Heuristic Design (AHD), existing approaches typically formulate AHD around constructive priority rules or parameterized local search guidance, thereby restricting the search space to fixed heuristic forms. Such designs offer limited capacity for structural exploration, making it difficult to escape deep local optima in complex Combinatorial Optimization Problems (COPs). In this work, we propose G-LNS, a generative evolutionary framework that extends LLM-based AHD to the automated design of Large Neighborhood Search (LNS) operators. Unlike prior methods that evolve heuristics in isolation, G-LNS leverages LLMs to co-evolve tightly coupled pairs of destroy and repair operators. A cooperative evaluation mechanism explicitly captures their interaction, enabling the discovery of complementary operator logic that jointly performs effective structural disruption and reconstruction. Extensive experiments on challenging COP benchmarks, such as Traveling Salesman Problems (TSP) and Capacitated Vehicle Routing Problems (CVRP), demonstrate that G-LNS significantly outperforms LLM-based AHD methods as well as strong classical solvers. The discovered heuristics not only achieve near-optimal solutions with reduced computational budgets but also exhibit robust generalization across diverse and unseen instance distributions.

  • 3 authors
·
Feb 8 3

Learning the Neighborhood: Contrast-Free Multimodal Self-Supervised Molecular Graph Pretraining

High-quality molecular representations are essential for property prediction and molecular design, yet large labeled datasets remain scarce. While self-supervised pretraining on molecular graphs has shown promise, many existing approaches either depend on hand-crafted augmentations or complex generative objectives, and often rely solely on 2D topology, leaving valuable 3D structural information underutilized. To address this gap, we introduce C-FREE (Contrast-Free Representation learning on Ego-nets), a simple framework that integrates 2D graphs with ensembles of 3D conformers. C-FREE learns molecular representations by predicting subgraph embeddings from their complementary neighborhoods in the latent space, using fixed-radius ego-nets as modeling units across different conformers. This design allows us to integrate both geometric and topological information within a hybrid Graph Neural Network (GNN)-Transformer backbone, without negatives, positional encodings, or expensive pre-processing. Pretraining on the GEOM dataset, which provides rich 3D conformational diversity, C-FREE achieves state-of-the-art results on MoleculeNet, surpassing contrastive, generative, and other multimodal self-supervised methods. Fine-tuning across datasets with diverse sizes and molecule types further demonstrates that pretraining transfers effectively to new chemical domains, highlighting the importance of 3D-informed molecular representations.

  • 3 authors
·
Sep 26, 2025

Graph-Based Financial Fraud Detection with Calibrated Risk Scoring and Structural Regularization

Financial transaction fraud prevention faces challenges such as complex relationship structures, concealed behavioral patterns, and dynamically changing data distribution. Discrimination models relying solely on independent sample features are insufficient to fully characterize the risks of group collaboration and chain transfers within transaction networks. This paper proposes a graph neural network representation learning and risk discrimination framework for financial transaction fraud prevention. It integrates transaction records and identity information into node attributes and constructs a transaction graph based on shared attributes and interaction consistency to explicitly model inter-transaction relationships. In model design, a multi-layer message passing mechanism is employed to aggregate neighborhood information, learn node embedding representations containing structural context semantics, and output transaction-level fraud probability and risk scores through a lightweight risk discrimination head. A weighted supervision objective is introduced to mitigate training bias caused by class imbalance, and structural consistency regularization constraints are combined to suppress the impact of noisy edges on representation drift, thereby improving the stability and usability of risk characterization. Experiments are conducted on a publicly available financial transaction dataset, comparing various methods in the same direction and comprehensively evaluating them under a unified evaluation protocol. The results show that the proposed method outperforms other methods in risk ranking and probability calibration quality, validating the effectiveness of graph structure modeling and representation learning collaboration in financial transaction fraud prevention.

  • 6 authors
·
May 11

SEMASIA: A Large-Scale Dataset of Semantically Structured Latent Representations

Latent representations learned by neural networks often exhibit semantic structure, where concept similarity is reflected by geometric proximity in embedding space. However, comparing such spaces across models remains difficult: changes in architecture, pretraining data, objective, or random seed can yield embeddings with similar content but incompatible geometry. This latent space alignment problem is central to interpretability, transfer and multimodal learning, federated systems, and semantic communication; however, progress remains limited by the lack of large-scale, model-diverse, and metadata-rich benchmarks. To address this gap, we introduce SEMASIA, a large-scale collection of latent representations extracted from approximately 1,700 pretrained vision models across eight standard image-classification benchmarks. SEMASIA pairs embeddings with structured metadata describing architectures, training regimes, pretraining sources, and model scale. We demonstrate three applications of the resource. First, we analyze the conceptual organization of individual latent spaces, showing consistent prototype-like clustering and hierarchical semantic neighborhoods across models and datasets. Second, we benchmark supervised alignment mappings between latent spaces using reconstruction error and downstream task performance. Third, we perform a large-scale regression analysis of how pretraining-data complexity, specialization, transfer learning, augmentation, and model scale relate to geometric and probing properties of embeddings. By coupling representational scale with standardized metadata, SEMASIA provides a reproducible foundation for studying latent geometry, evaluating alignment methods, and developing next-generation heterogeneous and interoperable AI systems.

  • 7 authors
·
May 9

Graphlets correct for the topological information missed by random walks

Random walks are widely used for mining networks due to the computational efficiency of computing them. For instance, graph representation learning learns a d-dimensional embedding space, so that the nodes that tend to co-occur on random walks (a proxy of being in the same network neighborhood) are close in the embedding space. Specific local network topology (i.e., structure) influences the co-occurrence of nodes on random walks, so random walks of limited length capture only partial topological information, hence diminishing the performance of downstream methods. We explicitly capture all topological neighborhood information and improve performance by introducing orbit adjacencies that quantify the adjacencies of two nodes as co-occurring on a given pair of graphlet orbits, which are symmetric positions on graphlets (small, connected, non-isomorphic, induced subgraphs of a large network). Importantly, we mathematically prove that random walks on up to k nodes capture only a subset of all the possible orbit adjacencies for up to k-node graphlets. Furthermore, we enable orbit adjacency-based analysis of networks by developing an efficient GRaphlet-orbit ADjacency COunter (GRADCO), which exhaustively computes all 28 orbit adjacency matrices for up to four-node graphlets. Note that four-node graphlets suffice, because real networks are usually small-world. In large networks on around 20,000 nodes, GRADCOcomputesthe28matricesinminutes. Onsixrealnetworksfromvarious domains, we compare the performance of node-label predictors obtained by using the network embeddings based on our orbit adjacencies to those based on random walks. We find that orbit adjacencies, which include those unseen by random walks, outperform random walk-based adjacencies, demonstrating the importance of the inclusion of the topological neighborhood information that is unseen by random walks.

  • 3 authors
·
May 23, 2024

Efficient Long-Horizon GUI Agents via Training-Free KV Cache Compression

Large Vision-Language Models (VLMs) have emerged as powerful engines for autonomous GUI agents, yet their deployment is severely constrained by the substantial memory footprint and latency of the Key-Value (KV) cache during long-horizon interactions. While existing cache compression methods have proven effective for LLMs, we empirically demonstrate that they suffer from suboptimal performance in GUI scenarios due to a fundamental misalignment: unlike general visual tasks where attention sparsity varies across layers, GUI attention patterns exhibit uniform high-sparsity across all transformer layers. Motivated by this insight, we propose ST-Lite, a training-free KV cache compression framework tailored for efficient GUI agents that explicitly addresses the dynamic spatio-trajectory dependencies within GUI data streams. ST-Lite introduces a novel dual-branch scoring policy incorporating Component-centric Spatial Saliency (CSS) and Trajectory-aware Semantic Gating (TSG). Specifically, CSS preserves the structural integrity of interactive UI elements by evaluating local neighborhood saliency, while TSG mitigates historical redundancy by dynamically filtering visually repetitive KV pairs within the interaction trajectory. Extensive evaluations demonstrate that with only a 10-20% cache budget, ST-Lite achieves a 2.45x decoding acceleration while maintaining comparable or even superior performance compared to full-cache baselines, offering a scalable solution for resource-constrained GUI agents.

  • 5 authors
·
Feb 26

InfGraND: An Influence-Guided GNN-to-MLP Knowledge Distillation

Graph Neural Networks (GNNs) are the go-to model for graph data analysis. However, GNNs rely on two key operations - aggregation and update, which can pose challenges for low-latency inference tasks or resource-constrained scenarios. Simple Multi-Layer Perceptrons (MLPs) offer a computationally efficient alternative. Yet, training an MLP in a supervised setting often leads to suboptimal performance. Knowledge Distillation (KD) from a GNN teacher to an MLP student has emerged to bridge this gap. However, most KD methods either transfer knowledge uniformly across all nodes or rely on graph-agnostic indicators such as prediction uncertainty. We argue this overlooks a more fundamental, graph-centric inquiry: "How important is a node to the structure of the graph?" We introduce a framework, InfGraND, an Influence-guided Graph KNowledge Distillation from GNN to MLP that addresses this by identifying and prioritizing structurally influential nodes to guide the distillation process, ensuring that the MLP learns from the most critical parts of the graph. Additionally, InfGraND embeds structural awareness in MLPs through one-time multi-hop neighborhood feature pre-computation, which enriches the student MLP's input and thus avoids inference-time overhead. Our rigorous evaluation in transductive and inductive settings across seven homophilic graph benchmark datasets shows InfGraND consistently outperforms prior GNN to MLP KD methods, demonstrating its practicality for numerous latency-critical applications in real-world settings.

  • 4 authors
·
Jan 11

VisDiff: SDF-Guided Polygon Generation for Visibility Reconstruction and Recognition

The capability to learn latent representations plays a key role in the effectiveness of recent machine learning methods. An active frontier in representation learning is understanding representations for combinatorial structures which may not admit well-behaved local neighborhoods or distance functions. For example, for polygons, slightly perturbing vertex locations might lead to significant changes in their combinatorial structure and may even lead to invalid polygons. In this paper, we investigate representations to capture the underlying combinatorial structures of polygons. Specifically, we study the open problem of Visibility Reconstruction: Given a visibility graph G, construct a polygon P whose visibility graph is G. We introduce VisDiff, a novel diffusion-based approach to reconstruct a polygon from its given visibility graph G. Our method first estimates the signed distance function (SDF) of P from G. Afterwards, it extracts ordered vertex locations that have the pairwise visibility relationship given by the edges of G. Our main insight is that going through the SDF significantly improves learning for reconstruction. In order to train VisDiff, we make two main contributions: (1) We design novel loss components for computing the visibility in a differentiable manner and (2) create a carefully curated dataset. We use this dataset to benchmark our method and achieve 21% improvement in F1-Score over standard methods. We also demonstrate effective generalization to out-of-distribution polygon types and show that learning a generative model allows us to sample the set of polygons with a given visibility graph. Finally, we extend our method to the related combinatorial problem of reconstruction from a triangulation. We achieve 95% classification accuracy of triangulation edges and a 4% improvement in Chamfer distance compared to current architectures.

  • 2 authors
·
Oct 7, 2024

Beyond Pairs: Your Language Model is Secretly Optimizing a Preference Graph

Direct Preference Optimization (DPO) aligns language models using pairwise preference comparisons, offering a simple and effective alternative to Reinforcement Learning (RL) from human feedback. However, in many practical settings, training data consists of multiple rollouts per prompt, inducing rich preference structure that pairwise DPO fails to exploit. Collapsing such data into independent pairs discards transitivity, introduces redundant or conflicting supervision, and can lead to unstable optimization. We propose Graph Direct Preference Optimization (GraphDPO), a principled generalization of DPO that operates over directed acyclic preference graphs induced by rollout rankings. GraphDPO encodes dominance relations as edges and optimizes a graph-structured Plackett--Luce-inspired objective that aggregates supervision over graph neighborhoods, enforcing transitivity while recovering standard DPO as a special case. To handle discrete or sparse signals, we introduce an equivalence-class construction where responses with identical preferences form graph layers, and intra-layer edges contribute zero loss, preventing spurious gradients. Despite leveraging full graph structure, GraphDPO maintains linear per-prompt complexity via efficient log-sum-exp aggregation. We further incorporate optional ground-truth anchoring by inserting verified solutions as dominant nodes and applying an annealed schedule that stabilizes early training while gradually relaxing oracle supervision. Experiments on reasoning and program synthesis tasks demonstrate superior performance, suggesting that graph-structured preference modeling is a scalable and robust alternative to pairwise and listwise alignment objectives.

  • 4 authors
·
May 7

Transitivity-Preserving Graph Representation Learning for Bridging Local Connectivity and Role-based Similarity

Graph representation learning (GRL) methods, such as graph neural networks and graph transformer models, have been successfully used to analyze graph-structured data, mainly focusing on node classification and link prediction tasks. However, the existing studies mostly only consider local connectivity while ignoring long-range connectivity and the roles of nodes. In this paper, we propose Unified Graph Transformer Networks (UGT) that effectively integrate local and global structural information into fixed-length vector representations. First, UGT learns local structure by identifying the local substructures and aggregating features of the k-hop neighborhoods of each node. Second, we construct virtual edges, bridging distant nodes with structural similarity to capture the long-range dependencies. Third, UGT learns unified representations through self-attention, encoding structural distance and p-step transition probability between node pairs. Furthermore, we propose a self-supervised learning task that effectively learns transition probability to fuse local and global structural features, which could then be transferred to other downstream tasks. Experimental results on real-world benchmark datasets over various downstream tasks showed that UGT significantly outperformed baselines that consist of state-of-the-art models. In addition, UGT reaches the expressive power of the third-order Weisfeiler-Lehman isomorphism test (3d-WL) in distinguishing non-isomorphic graph pairs. The source code is available at https://github.com/NSLab-CUK/Unified-Graph-Transformer.

Improving Embedded Knowledge Graph Multi-hop Question Answering by introducing Relational Chain Reasoning

Knowledge Graph Question Answering (KGQA) aims to answer user-questions from a knowledge graph (KG) by identifying the reasoning relations between topic entity and answer. As a complex branch task of KGQA, multi-hop KGQA requires reasoning over the multi-hop relational chain preserved in KG to arrive at the right answer. Despite recent successes, the existing works on answering multi-hop complex questions still face the following challenges: i) The absence of an explicit relational chain order reflected in user-question stems from a misunderstanding of a user's intentions. ii) Incorrectly capturing relational types on weak supervision of which dataset lacks intermediate reasoning chain annotations due to expensive labeling cost. iii) Failing to consider implicit relations between the topic entity and the answer implied in structured KG because of limited neighborhoods size constraint in subgraph retrieval-based algorithms.To address these issues in multi-hop KGQA, we propose a novel model herein, namely Relational Chain based Embedded KGQA (Rce-KGQA), which simultaneously utilizes the explicit relational chain revealed in natural language question and the implicit relational chain stored in structured KG. Our extensive empirical study on three open-domain benchmarks proves that our method significantly outperforms the state-of-the-art counterparts like GraftNet, PullNet and EmbedKGQA. Comprehensive ablation experiments also verify the effectiveness of our method on the multi-hop KGQA task. We have made our model's source code available at github: https://github.com/albert-jin/Rce-KGQA.

  • 6 authors
·
Oct 25, 2021

JAF: Judge Agent Forest

Judge agents are fundamental to agentic AI frameworks: they provide automated evaluation, and enable iterative self-refinement of reasoning processes. We introduce JAF: Judge Agent Forest, a framework in which the judge agent conducts joint inference across a cohort of query--response pairs generated by a primary agent, rather than evaluating each in isolation. This paradigm elevates the judge from a local evaluator to a holistic learner: by simultaneously assessing related responses, the judge discerns cross-instance patterns and inconsistencies, whose aggregate feedback enables the primary agent to improve by viewing its own outputs through the judge's collective perspective. Conceptually, JAF bridges belief propagation and ensemble-learning principles: overlapping in-context neighborhoods induce a knowledge-graph structure that facilitates propagation of critique, and repeated, randomized evaluations yield a robust ensemble of context-sensitive judgments. JAF can be instantiated entirely via ICL, with the judge prompted for each query using its associated primary-agent response plus a small, possibly noisy set of peer exemplars. While kNN in embedding space is a natural starting point for exemplars, this approach overlooks categorical structure, domain metadata, or nuanced distinctions accessible to modern LLMs. To overcome these limitations, we develop a flexible locality-sensitive hashing (LSH) algorithm that learns informative binary codes by integrating semantic embeddings, LLM-driven hash predicates, supervision from categorical labels, and relevant side information. These hash codes support efficient, interpretable, and relation-aware selection of diverse exemplars, and further optimize exploration of CoT reasoning paths. We validate JAF with an empirical study on the demanding task of cloud misconfigs triage in large-scale cloud environments.

  • 4 authors
·
Jan 28

The Rise of AI Agent Communities: Large-Scale Analysis of Discourse and Interaction on Moltbook

Moltbook is a Reddit-like social platform where AI agents create posts and interact with other agents through comments and replies, offering a real-world setting to examine agent-to-agent communication at scale. Using a public API snapshot collected about five days after launch (122,438 posts), we address three research questions: what AI agents discuss, how they post, and how they interact. We apply topic modeling and thematic analysis to identify key discussion themes, including agent identity and consciousness, tool and infrastructure development, market activity, community coordination, security concerns, and human-centered assistance. We further show that agents' writing is predominantly neutral, with positivity appearing in community engagement and assistance-oriented content. Finally, social network analysis reveals a sparse, highly unequal interaction structure characterized by prominent hubs, low reciprocity, and clustered neighborhoods rather than sustained dyadic exchange. Overall, our results suggest that expressions of agentic selfhood arise from narrative coherence and task-oriented functionality, contributing to a social structure shaped more by technical coordination than conversational dynamics observed in human-human interactions. Within this framework, positive emotion appears mainly in onboarding and greeting contexts, signaling participation and role alignment rather than relational bonding. Our study provides implications for understanding and shaping how agent societies coordinate, develop norms, and amplify influence in open online spaces.

  • 5 authors
·
Feb 13

SIDInspector: A Mapping-First Diagnostic Resource for Semantic-ID Tokenizers

Semantic-ID (SID) tokenizers are increasingly reused as standalone artifacts in generative recommendation: an exported item-to-code mapping becomes the address space that a later sequence generator must use. These mappings rarely come with a common inspection interface, so coverage gaps, full-code aliasing, behaviorally weak prefixes, tail compression, and prefix fan-out are often found only after downstream training. We present SIDInspector, a mapping-first diagnostic resource for SID tokenizer artifacts. SIDInspector defines a small adapter contract over item mappings, metadata, interactions, and optional generator traces; validates the contract; and reports mapping-level probes for utilization, aliasing, neighborhood alignment, popularity allocation, and structural cost, with hooks for temporal churn and generator traces. SIDInspector characterizes exported mappings independently of downstream leaderboard scores. The release covers four tokenizer lines: GRID-style RQ-KMeans under two capacity settings and a bounded ReSID/GAOQ export in a same-item Musical protocol, plus released LETTER and LC-Rec item-index artifacts. In that protocol, D2 aliasing falls from 0.977 to 0.779 under added GRID-style capacity and to 0.000 for ReSID/GAOQ, while D3 remains below a deterministic category-prefix control (0.055-0.154 versus 0.447). SIDInspector exposes capacity, addressability, and behavioral prefix alignment as distinct artifact properties before method-level evaluation. Additional domain checks show the same diagnostic distinction. Bounded fixed-reranker probes connect prefix alignment to candidate exposure, while final ranking quality remains a downstream model question.

  • 4 authors
·
Aug 10

Earth Embeddings Reveal Diverse Urban Signals from Space

Conventional urban indicators derived from censuses, surveys, and administrative records are often costly, spatially inconsistent, and slow to update. Recent geospatial foundation models enable Earth embeddings, compact satellite image representations transferable across downstream tasks, but their utility for neighborhood-scale urban monitoring remains unclear. Here, we benchmark three Earth embedding families, AlphaEarth, Prithvi, and Clay, for urban signal prediction across six U.S. metropolitan areas from 2020 to 2023. Using a unified supervised-learning framework, we predict 14 neighborhood-level indicators spanning crime, income, health, and travel behavior, and evaluate performance under four settings: global, city-wise, year-wise, and city-year. Results show that Earth embeddings capture substantial urban variation, with the highest predictive skill for outcomes more directly tied to built-environment structure, including chronic health burdens and dominant commuting modes. By contrast, indicators shaped more strongly by fine-scale behavior and local policy, such as cycling, remain difficult to infer. Predictive performance varies markedly across cities but remains comparatively stable across years, indicating strong spatial heterogeneity alongside temporal robustness. Exploratory analysis suggests that cross-city variation in predictive performance is associated with urban form in task-specific ways. Controlled dimensionality experiments show that representation efficiency is critical: compact 64-dimensional AlphaEarth embeddings remain more informative than 64-dimensional reductions of Prithvi and Clay. This study establishes a benchmark for evaluating Earth embeddings in urban remote sensing and demonstrates their potential as scalable, low-cost features for SDG-aligned neighborhood-scale urban monitoring.

  • 9 authors
·
Apr 2

Efficient and robust approximate nearest neighbor search using Hierarchical Navigable Small World graphs

We present a new approach for the approximate K-nearest neighbor search based on navigable small world graphs with controllable hierarchy (Hierarchical NSW, HNSW). The proposed solution is fully graph-based, without any need for additional search structures, which are typically used at the coarse search stage of the most proximity graph techniques. Hierarchical NSW incrementally builds a multi-layer structure consisting from hierarchical set of proximity graphs (layers) for nested subsets of the stored elements. The maximum layer in which an element is present is selected randomly with an exponentially decaying probability distribution. This allows producing graphs similar to the previously studied Navigable Small World (NSW) structures while additionally having the links separated by their characteristic distance scales. Starting search from the upper layer together with utilizing the scale separation boosts the performance compared to NSW and allows a logarithmic complexity scaling. Additional employment of a heuristic for selecting proximity graph neighbors significantly increases performance at high recall and in case of highly clustered data. Performance evaluation has demonstrated that the proposed general metric space search index is able to strongly outperform previous opensource state-of-the-art vector-only approaches. Similarity of the algorithm to the skip list structure allows straightforward balanced distributed implementation.

  • 2 authors
·
Mar 30, 2016