Multimodal Graph Learning

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5 papers in the last four weeks, against 1 the four weeks before. 0.0% of all new papers.

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Latest papers 60

Jun 17, 2026cs.LG

ChronoSurv: A Clinical Pathway-Guided Graph Framework for Multimodal Survival Analysis

Accurate survival prediction is essential for personalized treatment planning in head and neck cancer, yet remains challenging due to the heterogeneous and high-dimensional nature of multimodal clinical data. While deep survival models have improved predictive performance over classical statistical approaches, existing methods typically rely on static fusion strategies or temporally agnostic modeling, limiting their ability to capture structured clinical workflows. In this work, we propose ChronoSurv, a heterogeneous hierarchical directed graph framework for multimodal survival analysis. ChronoSurv represents patient care as a progression-aware clinical trajectory using directed graphs aligned with key diagnostic steps. A hierarchical topology incorporates fine-grained, coarse, and global representations, further supporting flexible adaptation to missing modalities, while heterogeneous message passing models complex and asymmetric relationships across modalities and clinical steps. Experimental results on two public datasets demonstrate that ChronoSurv achieves state-of-the-art discriminative performance while maintaining statistically reliable calibration. Comprehensive ablation studies further confirm the contribution of each architectural component, highlighting the potential of trajectory-aware graph modeling for multimodal survival prediction.

Hugo Miccinilli, Theo Di Piazza

Université Paris-Saclay, CentraleSupélec, MICS, France · University of Lyon, INSA Lyon, CREATIS, France

Cancer Survival Prediction Heterogeneous GNNs Survival Analysis Oncology Multimodal Survival Analysis Multimodal Graph Learning

Jun 12, 2026cs.LG

Context-aware Modality-Topology Co-Alignment for Multimodal Attributed Graphs

Multimodal Attributed Graphs (MAGs) model real-world entities by coupling graph topology with heterogeneous attributes such as text and images. They support graph-centric tasks requiring structural and class-discriminative representations, and modality-centric tasks requiring fine-grained cross-modal correspondence. However, existing MAG methods often rely on fixed graph contexts or uniformly fused representations, causing task-agnostic propagation and over-compressed fusion that hinder diverse task requirements and modality-specific evidence preservation. To address this, we propose CoMAG, a unified MAG backbone that learns task-adaptive reliable contexts and modality-preserving alignment within them. CoMAG first conducts Reliable Context Learning by estimating edge reliability from multimodal semantic consistency, complementing raw topology with semantic neighbors, and selecting context components through a task-aware gate. It then performs Modality-preserving Hop-token Alignment by maintaining modality-specific multi-hop trajectories, matching modality-hop tokens across modalities, and decoupling shared and private representations. Thus, CoMAG produces graph and modality representations from one forward pass while retaining modality-specific cues. We further analyze stable propagation, over-smoothing mitigation, and modality-collapse control. Experiments on nine OpenMAG datasets compare CoMAG with feature-only, graph-only, multimodal, and unified MAG baselines across graph-level prediction, modality matching, and graph-conditioned generation. Results show that CoMAG achieves the best reported performance, demonstrating that task-adaptive reliable contexts and modality-preserving alignment improve structural prediction, cross-modal matching, and graph-conditioned generation while retaining sparse edge-linear complexity.

Sirui Zhang, Xu Wang, Zhengyu Wu +2

Cross-Modal Alignment Multimodal Graph Learning

Jun 11, 2026cs.LG

SMGFM: Spectral Multimodal Graph Pretraining for Multimodal-Attributed Graphs

Multimodal-attributed graphs (MAGs) couple graph topology with node semantics from text, images, and other modalities. Traditional graph learning contextualizes node semantics by coupling topology with node features. However, this coupling design becomes troublesome in MAGs, where structure-induced and modality-intrinsic semantics may contribute differently to downstream tasks. Structure-induced semantics promote relational consistency through smooth topological variation, whereas modality-intrinsic semantics often encode local, fine-grained distinctions that should not be uniformly smoothed or aligned. Therefore, the key challenge is to identify semantic roles before cross-modal fusion. To this end, we leverage graph-frequency variation as a prior, where low-frequency components capture topology-consistent semantics and high-frequency components preserve modality-specific semantics. Based on this intuition, we propose SMGFM, a spectral multimodal graph pretraining framework that decomposes each modality-specific node signal into graph-frequency bands and assigns band-level semantic roles before cross-modal interaction. Concretely, SMGFM constructs frequency-resolved modality tokens with scalable Chebyshev filters, estimates their coupling reliability through topology-conditioned routing, and performs band-modality interaction before fusion. Its frequency-routed objectives align smooth consensus routes while preserving modality-specific routes, mitigating spatial-domain entanglement and uniform cross-modal alignment. Extensive experiments conducted on the MAG datasets demonstrate that SMGFM achieves state-of-the-art performance across graph-level and modality-level tasks.

Zhengyu Wu, Xu Wang, Hongchao Qin +4

Graph Representation Learning Cross-Modal Alignment Multimodal Pretraining Multimodal Graph Learning Multimodal Fusion

Jun 11, 2026cs.LG

Multimodal Graph Negative Learning

Multimodal attributed graphs (MAGs) integrate graph topology with heterogeneous modality attributes, such as text and images, thereby enabling richer modeling of complex relational systems. However, such expressiveness also makes learning on MAGs depend on multiple semantic sources, including structural topology, textual and visual attributes, each of which can be regarded as a branch for node representation. Node-level branch semantic imbalance arises when these branches differ across nodes in semantic informativeness and reliability: a branch that provides discriminative semantics for one node may mislead another due to bias in modality quality or structural context. Existing methods often mitigate such heterogeneity through cross-branch agreement or alignment, implicitly treating the dominant prediction as reliable supervision. When the dominant branch is biased, forced imitation may propagate its bias to other branches and suppress original semantics that are useful for classification. We propose GraphMNL, a graph-aware multimodal negative learning framework that addresses this issue by using Negative Learning as cross-branch guidance. Instead of forcing inferior branches to imitate a teacher prediction, the model teaches them which classes a node is unlikely to belong to. GraphMNL builds a branch library, identifies dominant and inferior branches via graph-aware reliability arbitration, gates unstable transfer, and applies target-preserving negative learning over non-target classes. This design decouples target supervision from branch guidance so that supervised losses learn the correct class, while Negative Learning suppresses unlikely alternatives when branch agreement is unreliable. Through the comprehensive experimental evaluation, GraphMNL achieves the best performance on Grocery datasets with 72.47% accuracy and 76.60 F1 score on Reddit M datasets.

Zhengyu Wu, Xu Wang, Hongchao Qin +4

Multimodal Classification Multimodal Graph Learning

Jun 10, 2026cs.LG

Artemis: Anatomy-Resolved inTervention for Eliminating Multimodal NeuroImage confounderS

Multimodal neuroimaging, integrating functional connectivity from fMRI and structural connectivity from DTI, enables non-invasive analysis of brain networks using graph neural networks. However, demographic factors such as age and sex systematically confound the relationship between brain connectivity and clinical outcomes, causing GNNs to exploit spurious shortcuts rather than learning causally invariant representations. While recent causal GNN methods introduce causality at the graph-modeling level, their causal mechanisms remain domain-agnostic without accounting for the real-world confounders inherent in clinical neuroimaging data. Moreover, brain networks are constructed from atlas-based parcellations where each region exhibits distinct sensitivity to demographic factors, necessitating region-aware adjustment. We propose Artemis, a region-level causal framework that bridges this gap with causal intervention at each brain region independently by learning region-specific confounder representations with lightweight parameters. Our adjustment comprehensively utilized the multimodal functional and structural features for graph reasoning as a plug-in module compatible with arbitrary GNN backbones. Experiments on three benchmarks, ADNI for disease diagnosis, OASIS for dementia staging, and HCP for sex classification, demonstrate consistent improvements over representative GNN-based baselines. Multiple supporting experiments further demonstrate statistical significance and neuroscientific interpretability.

Siyuan Dai, Yang Du, Kun Zhao +6

Department of Electrical and Computer Engineering, University of Pittsburgh, Pittsburgh, PA. · Department of Computer Science, University of Maryland, College Park, MD · Imaging Genetics Center, Mark & Mary Stevens Institute for Neuroimaging & Informatics, Keck School of Medicine, University of Southern California, Los Angeles, CA +2

Graph Neural Networks Multimodal Graph Learning Causal Inference Neuroimaging Brain Network Analysis

Jun 8, 2026cs.LG

Spatiotemporal Graph Transformer for 3D Neighborhood Interaction and Quality Prediction in Metal Additive Manufacturing

Metal additive manufacturing enables the fabrication of complex parts, but achieving consistent build quality remains challenging due to interactions induced by repeated layer-wise melting, solidification, and reheating across the 3D build. Advanced sensing provide a great opportunity to collect rich observations of the actual manufacturing process for real-time quality monitoring and control. Yet, existing methods often have limited ability to represent multi-layer interactions and quantify their contributions to quality. In this paper, we develop a novel spatiotemporal graph transformer for modeling 3D neighborhood interactions and learn their effects on build quality in metal additive manufacturing. Specifically, we first introduce a weighted network representation of the manufacturing process, where fusing locations are modeled as nodes, and their spatial- and process-dependent relationships are encoded as edge weights. This representation also enables the integration of multimodal data (e.g., geometric design, process settings, and in-situ sensing data) into a unified structure for downstream learning tasks. Building on this network, we further design a dual-attention graph transformer that captures both within-node feature dependencies and cross-node neighborhood interactions for quality representation learning. Experimental results show that the proposed framework significantly outperforms image-based, sequence-based, and graph-based models in characterizing process-quality relationships. More importantly, the incorporation of cross-layer interactions is critical for improving quality prediction performance. This framework is broadly applicable to other tasks involving network modeling and graph-based representation learning.

Joyce Karen Pelaez, Siqi Zhang, Hoo Sang Ko

Department of Industrial Engineering, Southern Illinois University Edwardsville, Box 1805, Edwardsville, 62026, IL, USA.

Additive Manufacturing Multimodal Graph Learning Graph Transformer Spatiotemporal GNNs

Jun 8, 2026cs.CV

POTATR: A Lightweight Image-to-Graph Model for Page-Level Table Extraction

Large-scale document processing requires contextually aware table extraction (TE) that is both accurate and efficient. Yet current approaches require billions of parameters, hundreds of autoregressive steps, or costly API inference. Motivated by this, we introduce the Page-Object Table Transformer (POTATR), a lightweight 29M parameter image-to-graph model that extends the Table Transformer (TATR) for contextualized page-level TE. POTATR outperforms all models tested on the PubTables-v2 Single Pages benchmark -- including frontier MLLMs -- achieving

\textrm{GriTS}_\textrm{Con}

of 0.964 while running over 130

\times

faster at roughly 300

\times

lower cost. Further, POTATR's output is spatially grounded: every recognized element has a bounding box, enabling visual verification and geometric text assignment. As a result, POTATR performs unified page-level TE while composing with other models, enabling extension to scanned documents via external OCR and to full-document TE via techniques like cross-page merging. Code and models will be released.

Brandon Smock, Libin Liang, Max Sokolov +4

Kensho Technologies

Table Structure Recognition Multimodal Graph Learning Document Image Understanding

Jun 8, 2026cs.LG

PRISM: Topology-Aware Cross-Modal Imputation for Modality-Deficient Federated Graph Learning

Multimodal federated graph learning (MM-FGL) aims to collaboratively learn from decentralized graphs with text and images. However, real-world clients may not share a common modality basis: a visual-search client may contain image--interaction graphs but no seller descriptions, while a catalog client may provide text but no product images. We refer to this practical setting as client-level modality deficiency. Unlike random instance-wise missingness, a deficient client lacks the local semantic basis needed to reconstruct the absent modality. More importantly, in graph learning, incomplete representations initialize message passing, so imputation errors can be filtered, mixed, and amplified by the receiving topology. To address this gap, we propose \textbf{PRISM} (\textbf{P}roactive \textbf{R}etrieval and \textbf{I}mputation via \textbf{S}tructural \textbf{M}eta-prompting), a topology-aware federated cross-modal imputation framework. Rather than reconstructing the missing modality solely from local observations, PRISM recovers missing-modality semantics from the federation and introduces them into local graph propagation under topology-aware control. Experiments on six multimodal graph datasets across graph-centric and modality-centric tasks show that PRISM consistently improves modality-deficient clients, outperforming state-of-the-art baselines by \textbf{4.48}% on average.

Zekai Chen, Miao Zhang, Jiayang Xing +4

Beijing Institute of Technology, Beijing, 100081, China

Multimodal Federated Learning Missing-Modality Learning Federated Graph Learning Multimodal Graph Learning

Jun 2, 2026cs.LG

Multi-Modal Graph Neural Network with Transformer-Guided Adaptive Diffusion for Preclinical Alzheimer Classification

The graphical representation of the brain offers critical insights into diagnosing and prognosing neurodegenerative disease via relationships between regions of interest (ROIs). Despite recent emergence of various Graph Neural Networks (GNNs) to effectively capture the relational information, there remain inherent limitations in interpreting the brain networks. Specifically, convolutional approaches ineffectively aggregate information from distant neighborhoods, while attention-based methods exhibit deficiencies in capturing node-centric information, particularly in retaining critical characteristics from pivotal nodes. These shortcomings reveal challenges for identifying disease-specific variation from diverse features from different modalities. In this regard, we propose an integrated framework guiding diffusion process at each node by a downstream transformer where both short- and long-range properties of graphs are aggregated via diffusion-kernel and multi-head attention respectively. We demonstrate the superiority of our model by improving performance of pre-clinical Alzheimer's disease (AD) classification with various modalities. Also, our model adeptly identifies key ROIs that are closely associated with the preclinical stages of AD, marking a significant potential for early diagnosis and prevision of the disease.

Jaeyoon Sim, Minjae Lee, Guorong Wu +1

Pohang University of Science and Technology, Pohang, South Korea · University of North Carolina at Chapel Hill, Chapel Hill, USA

Graph Neural Networks Alzheimer's Disease Classification Multimodal Graph Learning Graph Transformer Graph Diffusion

May 31, 2026cs.AI

Advanced Mathematics Learning Behavior Prediction and Academic Early Warning Model Based on Multimodal Data Analysis

Early detection of at-risk students and timely academic intervention pose major challenges in advanced mathematics education, where complex conceptual hierarchies and nonlinear learning trajectories often hold back students' academic performance. This study adopts multimodal data analytics to build a dynamic framework for learning behavior prediction and academic early warning. It constructs a hierarchical knowledge graph ontology, realizes adaptive edge weighting according to problem difficulty and student performance, and combines heterogeneous graph attention with temporal sequence modeling to capture students' evolving knowledge states. Empirical tests on semester-long multimodal datasets prove that this method can accurately identify high-risk students and effectively track error propagation. Targeted interventions greatly improve students' knowledge mastery and reduce academic risks. The results verify that integrating knowledge graph analytics with multimodal temporal modeling can deliver more efficient and personalized learning support for advanced mathematics education.

Liu Qiong, Li Zhengbo

Moutai Institute,, Renhuai, 564507, Guizhou, China

Educational Assessment AI in Education Educational Data Mining Knowledge Tracing Multimodal Graph Learning

May 29, 2026cs.LG

UniRTL: Unifying Code and Graph for Robust RTL Representation Learning

Developing effective representations for register transfer level (RTL) designs is crucial for accelerating the hardware design workflow. Existing approaches, however, typically rely on a single data modality, either the RTL code or its associated graph-based representation, limiting the expressiveness and generalization ability of the learned representations. For RTL, the control data flow graph (CDFG) offers a comprehensive structural representation that preserves complete information, while the code modality explicitly encodes semantic and functional information. We argue that integrating these complementary modalities is essential for a thorough understanding of RTL designs. To this end, we propose UniRTL, a multimodal pretraining framework that learns unified RTL representations by jointly leveraging code and CDFG. UniRTL achieves fine-grained alignment between code and graph through mutual masked modeling and employs a hierarchical training strategy that incorporates a pretrained graph-aware tokenizer and staged alignment of text (i.e., functional summary) and code prior to graph integration. We evaluate UniRTL on two downstream tasks, performance prediction and code retrieval, under multiple settings. Experimental results show that UniRTL consistently outperforms prior methods, establishing it as a more robust and powerful foundation for advancing hardware design automation.

Yi Liu, Hongji Zhang, Lei Chen +2

Department of Computer Science and Engineering, The Chinese University of Hong Kong, Hong Kong SAR · Noah’s Ark Lab, Huawei, Hong Kong SAR

Representation Learning Cross-Modal Representation Learning Electronic Design Automation Multimodal Pretraining Multimodal Graph Learning

May 28, 2026cs.LG

OOD-GraphLLM: Graph Large Language Model for Out-of-Distribution Generalized Drug Synergy Prediction

Drug synergy prediction (DSP) aims to identify efficacious drug combinations under various cellular contexts with different targets. However, the continual emergence of novel compounds results in variations in molecular scaffolds and sizes, causing drug synergy data to exhibit out-of-distribution (O.O.D.) shifts with respect to topological structure. Existing works rely on in-distribution (I.D.) assumption, failing to handle the O.O.D. shifts. To solve this problem, we study out-of-distribution generalized drug synergy prediction through a graph large language model for the first time. Nevertheless, O.O.D. generalized DSP is highly non-trivial, posing several challenges: i) how to discover structurally relevant and irrelevant molecular representations with respect to cell targets; ii) how to find the optimal graph neural architectures that accurately calculate molecular representations; and iii) how to jointly leverage molecular structural and semantic information in LLMs. To address these challenges, we propose OOD-GraphLLM, a novel graphLLM framework which is able to accurately predict drug synergy under O.O.D. settings via jointly optimizing molecular graph representation and biomedical semantic language representations in a unified manner. Furthermore, we finetune DrugSyn-LLM, a biomedical LLM, and employ a retrieval-augmented biomedical instruction tuning strategy to align molecular topological information and molecular semantic information with language-based reasoning for O.O.D. generalized DSP. Both the source code (https://github.com/EkkoXiao/Bio-GraphLLM) and released model (https://mn.cs.tsinghua.edu.cn/bio-graphllm/) are publicly available, where users are allowed to download model resources and interactively use the system through a web interface.

Xin Wang, Linxin Xiao, Yang Yao +1

DCST, BNRist, Tsinghua University · Beijing, China · DCST, Tsinghua University

OOD Generalization Multimodal Graph Learning Medical LLMs Molecular Representation Learning

May 23, 2026cs.LG

Beyond the Aggregation Dilemma: Prior-Retaining Decoupled Learning for Multimodal Graphs

Multimodal Attributed Graph Learning (MAGL) integrates intrinsic node attributes with structural topology via graph aggregation. However, as pretrained encoders evolve into Large Foundation Models (LFMs), the landscape of MAGL fundamentally shifts: under high-confidence LFM priors, mandatory aggregation introduces topological noise that overwhelms discriminative signals, triggering a counter-intuitive performance inversion where sophisticated MAGL architectures underperform simple topology-agnostic MLPs. Through systematic empirical and theoretical analysis, we identify that this inversion stems from a fundamental aggregation dilemma characterized by two concurrent pathologies: (1) Representational Pathology (SNR Degradation) - mandatory aggregation dilutes robust intrinsic features with topological noise, causing the noise penalty to outweigh its collaborative benefit; and (2) Optimization Pathology (Gradient Starvation) - topological aggregation attenuates gradient flow, while a shared task loss causes dominant modalities to prematurely suppress weaker ones. To resolve this dilemma, we propose SUPRA (Shared-Unique Prior-Retaining Architecture), a decoupled dual-pathway paradigm. SUPRA processes modality-specific features through topology-agnostic MLPs while capturing structural synergy via a lightweight shared GNN, with auxiliary deep supervision counteracting gradient starvation. Extensive evaluations demonstrate that SUPRA achieves state-of-the-art performance while requiring 3.5x lower peak GPU memory and up to 4.4x faster training time than Multimodal Graph Transformers.

Hao Yan, Xuanru Wang, Jun Yin +3

School of Computer Science and Engineering, Central South University, Changsha, China · Department of Data Science and Artificial Intelligence, The Hong Kong Polytechnic University, Hong Kong SAR, China · School of Information and Communication Technology, Griffith University, Brisbane, Australia

Graph Neural Networks Multimodal Graph Learning Multimodal Fusion Multimodal Learning

May 21, 2026cs.CV

Case-Aware Medical Image Classification with Multimodal Knowledge Graphs and Reliability-Guided Refinement

Deep learning has brought significant progress to medical image classification, yet most existing methods still rely on isolated visual evidence and cannot effectively leverage similar cases or external knowledge. In clinical practice, diagnosis is typically supported by similar historical cases and their associated symptoms. To explicitly model this evidence-based diagnostic process, we propose a case-aware reasoning framework driven by multimodal knowledge graphs for medical image classification. Specifically, we construct a case-aware multimodal knowledge graph as a structured diagnostic memory, where diseases, images, and symptoms are hierarchically organized. Given an input image, our method adaptively retrieves similar cases from this memory and extracts their corresponding case-centered subgraphs. We further introduce a knowledge propagation and injection mechanism, in which an image-centric Graph Attention Network aggregates heterogeneous semantics into case-based features, followed by a bidirectional cross-modal attention mechanism that injects these features into visual representations for cross-modal alignment. To mitigate noisy retrieval, we design a confidence-calibrated decision refinement scheme that estimates the reliability of each retrieved case by jointly considering prediction confidence and sample similarity, and reweights its contribution to the final prediction, providing interpretable case-level evidence. Extensive experiments on multiple medical imaging datasets demonstrate that our approach consistently outperforms strong baselines, while ablation and qualitative analyses validate its effectiveness and interpretability. The code is available at https://anonymous.4open.science/r/MKG-CARE-8B7B.

Yiming Xu, Yixuan Liu, Yuhang Zhang +3

University of Science and Technology of China · Hefei, China

Medical Image Classification Multimodal Graph Learning

May 17, 2026cs.AI

CatalyticMLLM: A Graph-Text Multimodal Large Language Model for Catalytic Materials

Property prediction and inverse structural design of catalytic materials are typically modeled as two independent tasks: the former predicts target properties from given structures, whereas the latter generates candidate structures according to desired properties. Although the decoupled paradigm facilitates the implementation of a

generation--evaluation--screening'' workflow, the inconsistency between the generative model and the property prediction model in terms of representation spaces and training objectives can readily introduce data distribution shifts and evaluator bias, thereby limiting the stability of closed-loop optimization. In this work, we propose CatalyticMLLM, a unified graph--text multimodal large language model for catalytic materials, which integrates property prediction and \textbf{inverse design} within the same model and shared representation space. Under this unified framework, CatalyticMLLM can not only perform reliable property prediction by leveraging three-dimensional structures and textual information, but also generate and screen physically feasible CIF candidates conditioned on target properties, thereby forming a closed-loop optimization workflow of

inverse design--prediction--screening--redesign.'' Experimental results demonstrate that this unified paradigm outperforms decoupled baselines on both catalytic relaxed-energy prediction and inverse design tasks, validating the effectiveness of jointly modeling property prediction and structure generation within a single multimodal model.

Yanjie Li, Jian Xu, Xu-Yao Zhang +4

AnnLab, Institute of Semiconductors, Chinese Academy of Sciences, Beijing, China. · Zhongguancun Academy, Zhongguancun Academy, Beijing, China. · School of Electronic, Electrical and Communication Engineering, University of Chinese Academy of Sciences, Beijing, China. +3

Multimodal Large Language Models Materials Property Prediction Materials Science Crystal Structure Generation Multimodal Graph Learning Inverse Design

May 15, 2026cs.AI

TopoEvo: A Topology-Aware Self-Evolving Multi-Agent Framework for Root Cause Analysis in Microservices

Root cause analysis (RCA) in microservices is challenging due to (i) noisy and heterogeneous multimodal observability (metrics, logs, traces), (ii) cascading failure propagation that amplifies downstream symptoms, and (iii) non-stationary topology drift induced by autoscaling and rolling updates. Recent LLM-based RCA agents can generate tool-grounded explanations, yet they often remain topology-agnostic and suffer from \emph{symptom-amplification bias}, misattributing the root cause to salient downstream victims. We propose \textbf{TopoEvo}, a topology-aware self-evolving multi-agent framework that couples graph representation learning with structured, topology-constrained reasoning. TopoEvo first introduces \emph{Metric-orthogonal Multimodal Alignment} (MOMA), which decomposes metric embeddings into complementary subspaces and contrastively aligns logs and traces to reduce modality redundancy and sparsity, yielding stable node representations for graph encoding. It then applies \emph{Vector Quantization} (VQ) to discretize topology-enhanced states into auditable \emph{symptom tokens} with a symptom lexicon, enabling reliable retrieval and token-level evidence grounding. On top of these discrete topology cues, TopoEvo performs a multi-agent \emph{Hypothesis--Evidence--Test} (HET) workflow to explicitly verify propagation-consistent explanations and separate initiating anomalies from amplified downstream symptoms. Finally, a \emph{Self-Evolving Mechanism} refreshes hierarchical incident memory and performs conservative test-time adaptation with high-confidence pseudo-labels to maintain robustness under drift.

Junle Wang, Xingchuang Liao, Wenjun Wu

School of Artificial Intelligence, Beihang University Beijing, China

Software Engineering Multi-Agent Orchestration Microservice Architecture Multimodal Graph Learning Root Cause Analysis Self-Evolving Agents

May 13, 2026cs.LG

Multimodal Graph-based Classification of Esophageal Motility Disorders

Diagnosing esophageal motility disorders pose significant challenges due to the complexity of high-resolution impedance manometry (HRIM) data and variability in clinical interpretation. This work explores the feasibility of a multimodal Machine Learning (ML)-based classification approach that combines HRIM recordings with patient-specific information and incorporates a graph-based modeling of esophageal physiology. We analyze HRIM recordings with corresponding patient information from 104 patients with esophageal motility disorders. Patient data includes demographic, clinical, and symptom information extracted from structured questionnaires and free-text notes using keyword detection and large language model-based processing. HRIM data is represented as spatio-temporal graphs, where nodes correspond to pressure values along the esophagus and edges encode spatial adjacency and impedance dynamics. A graph neural network (GNN) is applied to learn physiologically meaningful representations, which are fused with patient embeddings for multi-category, multi-class classification of swallow events. The impact of patient features and graph-based modeling is evaluated by ablation studies and comparison to vision-based classifier baselines. The proposed multimodal approach indicates improvements over models that rely solely on HRIM-derived features across all classification categories. Additionally, the graph-based modeling provides gains compared to vision-based baselines. Our experiments systematically assess the complementary contribution of multiple modalities, as well as demonstrate the feasibility of our proposed graph-based approach. Our initial findings demonstrate that integrating patient-level data with graph-based representations of HRIM signals appears to be a promising direction for more accurate classification of esophageal motility disorders.

Alexander Geiger, Lars Wagner, Daniel Rueckert +3

Technical University of Munich, School of Medicine and Health, TUM University Hospital Rechts der Isar, Research Group MITI, Munich, Germany. · Technical University of Munich, School of Computation, Information and Technology, Chair for AI in Healthcare and Medicine, Munich, Germany. · Imperial College London, Department of Computing, London, UK. +2

Multimodal Graph Learning Multimodal Fusion

May 13, 2026cs.LG

Supervised Deep Multimodal Matrix Factorization for Interpretable Brain Network Analysis

We present Supervised Deep Multimodal Matrix Factorization (SD3MF), an interpretable framework for integrative brain network analysis that generalizes Symmetric Nonnegative Matrix Tri-Factorization (SNMTF) from unsupervised single-graph clustering to supervised prediction over populations of multimodal graphs. SD3MF learns deep hierarchical factorizations for each modality together with a shared latent representation that aligns subjects across views. An encoder-decoder formulation jointly optimizes graph reconstruction and supervised prediction, while adaptive weights enable data-driven multimodal fusion. By representing each subject through community-level interaction matrices, the model yields interpretable and discriminative features. Experiments on multimodal connectome datasets show that SD3MF consistently outperforms strong deep learning baselines such as CNNs and GNNs, while enabling biologically interpretable insights. Code for reproducibility is available at: https://github.com/amjadseyedi/SD3MF.

Amjad Seyedi, Lifang He, Songlin Zhao +2

Dept. of Mathematics & Operational Research University of Mons, Mons, Belgium · Dept. of Computer Science & Engineering Lehigh University, Bethlehem, PA, USA · Dept. of Industrial & Systems Engineering Lehigh University, Bethlehem, PA, USA

Neural Network Interpretability Multimodal Graph Learning Multimodal Model Interpretability Neuroimaging Multimodal Fusion Matrix Factorization+1

May 12, 2026cs.LG

Towards Robust Federated Multimodal Graph Learning under Modality Heterogeneity

Recently, multimodal graph learning (MGL) has garnered significant attention for integrating diverse modality information and structured context to support various network applications. However, real-world graphs are often isolated due to data-sharing limitations across multiple parties, and their modalities are frequently incomplete. This highlights an urgent need to develop a robust federated approach. However, we find that existing methods remain insufficient. On the one hand, centralized MGL methods that handle missing modalities overlook the knowledge sharing and generalization in federated scenarios. On the other hand, while federated MGL methods have become increasingly mature, they primarily target non-graph data. Based on these technologies, we identify a two-stage pipeline wherein client-side completion reconstructs missing modalities, and server-side aggregation integrates the client-updated parameters of both the modality generator and the backbone models. Although this serves as a general solution, we identify two primary challenges in achieving greater robustness: (1) Topology-Isolated Local Completion: Client-side modality generation struggles to effectively leverage global semantics. (2) Reliability-Imbalanced Global Aggregation: Server-side multi-party collaboration is hindered by client updates with varying modality availability and recovery reliability. To address these challenges, we propose \textsc{FedMPO}, which utilizes topology-aware cross-modal generation to recover missing features using comprehensive graph context, missing-aware expert routing to locally filter out noisy recovered signals, and reliability-aware aggregation to appropriately down-weight unreliable updates. Extensive experiments on 3 tasks across 6 datasets demonstrate that FedMPO outperforms baselines, achieving performance gains of up to 4.10% and 5.65% in high-missing and non-IID settings.

Sirui Zhang, Haonan Wang, Xunkai Li +5

Beijing Institute of Technology

Multimodal Federated Learning Missing-Modality Learning Multimodal Robustness Federated Graph Learning Multimodal Graph Learning Heterogeneous Federated Learning

May 12, 2026cs.LG

STAGE: Tackling Semantic Drift in Multimodal Federated Graph Learning

Federated graph learning (FGL) enables collaborative training on graph data across multiple clients. As graph data increasingly contain multimodal node attributes such as text and images, multimodal federated graph learning (MM-FGL) has become an important yet substantially harder setting. The key challenge is that clients from different modality domains may not share a common semantic space: even for the same concept, their local encoders can produce inconsistent representations before collaboration begins. This makes direct parameter coordination unreliable and further causes two downstream problems: forcing heterogeneous client representations into a naively shared semantic space may create false semantic agreement, and graph message passing may amplify residual inconsistency across neighborhoods. To address this issue, we propose \textbf{STAGE}, a protocol-first framework for MM-FGL. Instead of relying on direct parameter averaging, STAGE builds a shared semantic space that first translates heterogeneous multimodal features into comparable representations and then regulates how these representations propagate over local graph structures. In this way, STAGE not only improves cross-client semantic calibration, but also reduces the risk of inconsistency amplification during graph learning. Extensive experiments on 8 multimodal-attributed graphs across 5 graph-centric and modality-centric tasks show that STAGE consistently achieves state-of-the-art performance while reducing per-round communication payload.

Zekai Chen, Xun Wu, Xunkai Li +3

Beijing Institute of Technology, Beijing, 100081, China · Minzu University of China, Beijing, 100081, China

Multimodal Federated Learning Cross-Modal Representation Learning Federated Graph Learning Multimodal Graph Learning Federated Learning

May 12, 2026cs.AI

CAMPA: Efficient and Aligned Multimodal Graph Learning via Decoupled Propagation and Aggregation

Multimodal Graph Neural Networks (MGNNs) have shown strong potential for learning from multimodal attributed graphs, yet most existing approaches rely on tightly coupled architectures that suffer from prohibitive computational overhead. In this paper, we present a systematic empirical analysis showing that decoupled MGNNs are substantially more efficient and scalable for large-scale graph learning. However, we identify a critical bottleneck in existing decoupled pipelines, namely modal conflict, which arises in both the propagation and aggregation stages. Specifically, independent multi-hop diffusion causes cross-modal semantic divergence during propagation, while naive fusion fails to align multi-hop feature trajectories during aggregation, jointly limiting effective representation learning. To address this challenge, we propose CAMPA, a Cross-modal Aligned Multimodal Propagation & Aggregation framework for decoupled multimodal graph learning. Concretely, CAMPA introduces a two-stage alignment mechanism: (1) cross-modal aligned propagation, which injects cross-modal similarity priors into message passing to preserve semantic consistency without additional parameter overhead; (2) trajectory aligned aggregation, which leverages trajectory-level self-attention and cross-attention to capture and align long-range dependencies across modalities and hops. Extensive experiments on diverse benchmark datasets and tasks demonstrate that CAMPA consistently outperforms strong coupled and decoupled baselines while preserving the efficiency advantages of the decoupled paradigm.

Daohan Su, Hao Liu, Xunkai Li +6

Efficient Multimodal Inference Cross-Modal Alignment Multimodal Graph Learning

May 11, 2026cs.AI

Bridging Sequence and Graph Structure for Epigenetic Age Prediction

Epigenetic clocks based on DNA methylation have emerged as powerful tools for estimating biological age, with broad applications in aging research, age-related disease studies, and longevity science. Despite advances across machine learning approaches to epigenetic age prediction, spanning penalised linear regression, deep feedforward networks, residual architectures, and graph neural networks, no existing method jointly models co-methylation graph structure and site-specific DNA sequence context within a unified framework. We propose a unified sequence--graph integration framework for epigenetic age prediction that addresses this gap, integrating eight-dimensional DNA sequence statistical features through a lightweight gated modulation mechanism that adaptively scales each site's methylation signal according to its sequence-determined biological relevance prior to graph convolution. Evaluated on 3,707 blood methylation samples against a comprehensive set of baselines, our method achieves a test MAE of 3.149 years, a 12.8% improvement over the strongest graph-based baseline. Biologically informed statistical features outperform CNN-based sequence encoding, demonstrating that handcrafted sequence features are more effective than end-to-end learned representations in this data regime. Post-hoc interpretability analysis identifies CpG density and local adenine frequency as features with age-dependent importance shifts, consistent with known mechanisms of age-related hypermethylation at CpG-dense promoter regions. Our code is at https://github.com/yaoli2022/graphage-seq.

Yao Li, Xikun Zhang, Xiaotao Shen +4

School of Computing and Information Systems The University of Melbourne · School of Computing Technologies RMIT University · Lee Kong Chian School of Medicine Nanyang Technological University Singapore +1

Multimodal Graph Learning

May 11, 2026cs.LG

CMKL: Modality-Aware Continual Learning for Evolving Biomedical Knowledge Graphs

Biomedical knowledge graphs are increasingly large, dynamic, and multimodal, driven by rapid advances in biotechnology such as high-throughput sequencing. Machine learning models can infer previously unobserved biomedical relationships and characterize biomedical entities in these graphs, but existing knowledge graph embedding methods and their continual learning extensions either assume static graph structure or fail to exploit multimodal information under evolving data distributions. They also apply uniform regularization across all model parameters, ignoring that different modalities may exhibit distinct forgetting dynamics as the graph evolves. We propose the Continual Multimodal Knowledge Graph Learner (CMKL), a CL framework for biomedical KGs that natively encodes structure, text, and molecules, fuses them through a Mixture-of-Experts (MoE) router, and protects previously learned knowledge with standard EWC regularization and a K-means-diverse multimodal replay buffer. We evaluate CMKL on a 129K-entity biomedical continual benchmark with 10 tasks. On continual biomedical entity classification, CMKL reaches AP 0.591 versus 0.370 for the strongest structural baseline, a 60% gain that is driven by access to multimodal features and preserved across the sequence with near-zero forgetting (AF 0.008). On continual relationship prediction, CMKL reaches AP

0.062

, matching Naive Sequential and EWC (0.058) within seed noise and outperforming Joint Training (0.047, p=0.045) and LKGE (0.039). A frozen-text ablation reaches AP 0.136, more than double any jointly trained model, yet that signal is unreachable by margin-ranking gradients: the greedy-modality asymmetry lives at the representation level, not the fusion level, and MoE routing manages it by suppressing the unreachable modality without forcing it through a learned bottleneck. Code: github.com/yradwan147/cmkl-neurips2026

Yousef A. Radwan, Yao Li, Qing Qing +5

Technology, Innovation, Entrepreneurship Department King Abdullah University of Science and Technology · School of Computing and Information Systems The University of Melbourne · College of Computer Science and Technology Jilin University +2

Continual Learning KG Embedding Multimodal Graph Learning Multimodal KGs Knowledge Graphs KG Completion+1

May 5, 2026cs.LG

Stable Multimodal Graph Unlearning via Feature-Dimension Aware Quantile Selection

Graph unlearning remains a critical technique for supporting privacy-preserving and sustainable multimodal graph learning. However, we observe that existing unlearning strategies tend to apply uniform parameter selection and editing across all graph neural network (GNN) layers, which is especially harmful for multimodal graphs where high-dimensional input projections encode dominant cross-modal knowledge. As a result, over-editing these sensitive layers often leads to catastrophic utility degradation after forgetting, undermining both stable learning and effective privacy protection. To address this gap, we propose FDQ, a Feature-Dimension Aware Quantile framework for multimodal graph unlearning. FDQ adaptively identifies high-dimensional input projection layers and applies more conservative, FDQ-guided quantile thresholds when constructing suppression sets, while keeping the underlying importance estimation mechanism unchanged. FDQ is seamlessly integrated with diagonal sensitivity-based parameter importance analysis to enable efficient node and edge unlearning under general forget requests. Through extensive experiments on Ele-Fashion and Goodreads-NC, we demonstrate that FDQ consistently achieves strong utility preservation while maintaining effective forgetting against membership inference attacks. Overall, FDQ offers a principled and robust solution for privacy-aware unlearning in high-dimensional multimodal graph systems.

Jingjing Zhou, Yongshuai Yang, Qing Qing +5

School of Information and Electronic Engineering, Zhejiang Gongshang University, Hangzhou, China · College of Computer Science and Technology, Jilin University, Changchun 130012, China · School of Computing Technologies, RMIT University, Melbourne, VIC 3000, Australia +1

Privacy-Preserving ML Multimodal Graph Learning Machine Unlearning

May 4, 2026cs.AI

Triple Spectral Fusion for Sensor-based Human Activity Recognition

The field of sensor-based human activity recognition (HAR) mainly uses posture, motion and context data of Inertial Measurement Units (IMUs) to identify daily activities. Despite the advancements in learning-based methods, it is challenging to perform information fusion from the temporal perspective due to the complexities in fusing heterogeneous sensor data and establishing long-term context correlations. This paper proposes a novel triple spectral fusion framework tailored for HAR. First, we develop an adaptive complementary filtering technique for noise suppression and organize each IMU's sensors into posture and motion modality nodes. Given that IMU nodes form a dynamic heterogeneous graph, we then apply adaptive filtering within the graph Fourier domain to merge both homogeneous and heterogeneous node information. Furthermore, an adaptive wavelet frequency selection approach is implemented to suppress context redundancy and shorten the length of features. This approach enhances both timestamp-based graph aggregation and the correlation of long-term contexts. Our framework uses adaptive filtering in the Fourier, graph Fourier, and wavelet domains, enabling effective multi-sensor fusion and context correlation. Extensive experiments on ten benchmark datasets demonstrate the superior performance of our framework. Project page: https://github.com/crocodilegogogo/TSF-TPAMI2026.

Ye Zhang, Longguang Wang, Qing Gao +3

School of Electronics and Communication Engineering, the Shenzhen Campus of Sun Yat-sen University, Sun Yat-sen University, Shenzhen 518107, China · Aviation University of Air Force, Changchun 130012, China · College of Computer Science, Chongqing University, Chongqing 400044, China +1

Graph Signal Processing Human Activity Recognition Frequency-Domain Feature Learning Multimodal Graph Learning Feature Fusion Multimodal Sensor Fusion

Apr 27, 2026cs.LG

CMGL: Confidence-guided Multi-omics Graph Learning for Cancer Subtype Classification

Motivation: Multi-omics integration can improve cancer subtyping, but modality informativeness and noise vary across cancer types and patients. Most graph methods for multi-omics data learn modality contributions within the downstream classification objective, leaving predictive reliability for each patient implicit. As a result, uninformative modalities can weaken the fused representation, while unreliable omics can introduce noisy patient relationships into graph propagation. To address these two problems, we propose CMGL, which produces a separate reliability estimate before fusion and uses consensus patient neighborhoods for graph classification. Results: CMGL estimates modality confidence for each patient through evidential deep learning, fixes these values during fusion across omics, and performs classification on an independently specified consistency graph. On four MLOmics cancer-subtype tasks and the 32-class pan-cancer task, CMGL consistently improves over the strongest baseline, surpassing it by 4.03% in average accuracy on the four single-cancer tasks. Its representations recover the PAM50 intrinsic subtypes of breast invasive carcinoma (BRCA), and the model trained on BRCA transfers without fine tuning to kidney renal clear cell carcinoma (KIRC), stratifying patients into prognostically distinct groups.

Boyang Fan, Hengchuang Yin, Siyu Yi +5

College of Computer Science, Sichuan University, Chengdu, China · Xinjiang Technical Institute of Physics and Chemistry, Chinese Academy of Sciences, Urumqi, China · College of Mathematics, Sichuan University, Chengdu, China +1

Oncology Multimodal Graph Learning Multimodal Fusion

Apr 22, 2026q-bio.QM

AROMA: Augmented Reasoning Over a Multimodal Architecture for Virtual Cell Genetic Perturbation Modeling

Virtual cell modeling predicts molecular state changes under genetic perturbations in silico, which is essential for biological mechanism studies. However, existing approaches suffer from unconstrained reasoning, uninterpretable predictions, and retrieval signals that are weakly aligned with regulatory topology. To address these limitations, we propose AROMA, an Augmented Reasoning Over a Multimodal Architecture for virtual cell genetic perturbation modeling. AROMA integrates textual evidence, graph-topology information, and protein sequence features to model perturbation-target dependencies, and is trained with a two-stage optimization strategy to yield predictions that are both accurate and interpretable. We also construct two knowledge graphs and a perturbation reasoning dataset, PerturbReason, containing more than 498k samples, as reusable resources for the virtual cell domain. Experiments show that AROMA outperforms existing methods across multiple cell lines, and remains robust under zero-shot evaluation on an unseen cell line, as well as in knowledge-sparse, long-tail scenarios. Overall, AROMA demonstrates that combining knowledge-driven multimodal modeling with evidence retrieval provides a promising pathway toward more reliable and interpretable virtual cell perturbation prediction. Model weights are available at https://huggingface.co/blazerye/AROMA. Code is available at https://github.com/blazerye/AROMA.

Zhenyu Wang, Geyan Ye, Wei Liu +1

AI for Life Sciences Lab, Tencent, Shenzhen, China

Multimodal Graph Learning

Apr 19, 2026cs.AI

SkillGraph: Self-Evolving Multi-Agent Collaboration with Multimodal Graph Topology

Scaling vision-language models into Visual Multiagent Systems (VMAS) is hindered by two coupled issues. First, communication topologies are fixed before inference, leaving them blind to visual content and query context; second, agent reasoning abilities remain static during deployment. These issues reinforce each other: a rigid topology fails to leverage richer agent expertise, while static agents lack incentives to specialize for a given query. We address this with SkillGraph, a joint framework that evolves both agent expertise and communication topology. Within this framework, a Multimodal Graph Transformer (MMGT) encodes visual tokens, instruction semantics and active skill embeddings to predict a query-conditioned collaboration graph, replacing hand-crafted routing with dynamic, content-aware information flow. Complementing this, a Skill Designer distills and refines reasoning heuristics from failure cases, constructing a self-evolving multimodal Skill Bank. Crucially, updated skill embeddings are fed back into the MMGT, enabling the topology to adapt alongside capability growth. Experiments show that SkillGraph achieves consistent improvements across four benchmarks, five common MAS structures and four base models. Code is available at https://github.com/niez233/skillgraph.

Zheng Nie, Ruolin Shen, Xinlei Yu +3

National University of Singapore, Singapore · Technical University of Munich, Munich, Germany · Zhejiang University, China

Multi-Agent Collaboration Dynamic Graph Learning Agent Skill Learning Multimodal Graph Learning Multimodal Agents

Feb 24, 2026cs.AI

Modality-Guided Mixture of Structured Experts with Entropy-Triggered Routing for Multimodal Recommendation

Multimodal recommenders combine collaborative behavior with visual and textual item evidence, whose usefulness varies across user-item interactions. Independently trained source-specific diagnostic probes partition held-out interactions into behavior-, appearance-, semantics-, and mixed-evidence regimes across five benchmarks, within which capacity-matched fixed fusion rules exhibit systematic regime-dependent performance crossovers. This diagnostic observation motivates MAGNET, a multimodal graph recommender with two core mechanisms. First, a calibrated expert bank organizes trainable experts by anchor source (behavior, appearance, or semantics) and fusion family (dominant, balanced, or complementary), while an interaction-conditioned router selects a sparse composition using all three evidence sources. Second, an entropy-triggered, coverage-aware progressive schedule decouples population-level routing-mass coverage from per-instance decisiveness, transitioning from broad routing exploration to confident specialization once sufficient coverage is sustained, while preserving coverage thereafter. MAGNET separately encodes the observed interaction graph and a filtered content-induced structural view, applying cross-view alignment after independent propagation. We evaluate MAGNET on four Amazon domains and the non-Amazon MicroLens-100K benchmark, including tail-item and low-history warm-start user evaluation alongside matched expert-design controls. Under the shared-feature, fixed-split protocol, MAGNET-DV exceeds the strongest protocol-compatible non-MAGNET baseline in every reported main-table cell, supported by seed-wise difference tests. Both the fixed and KL-anchored structured variants achieve higher five-seed mean NDCG@20 than matched homogeneous and free-mixture alternatives across all five datasets. MAGNET supports route-level diagnostics through explicit expert semantics.

Ji Dai, Quan Fang, DeSheng Cai

Beijing University of Posts and Telecommunications, China · Beijing University of Posts and Telecommunications, Beijing, China · Tianjin University of Technology, China

Sparse Mixture-of-Experts Recommender Systems Multimodal Recommendation Multimodal Graph Learning Mixture-of-Experts Models

Aug 22, 2025cs.IR

EGRA:Toward Enhanced Behavior Graphs and Representation Alignment for Multimodal Recommendation

MultiModal Recommendation (MMR) systems have emerged as a promising solution for improving recommendation quality by leveraging rich item-side modality information, prompting a surge of diverse methods. Despite these advances, existing methods still face two critical limitations. First, they use raw modality features to construct item-item links for enriching the behavior graph, while giving limited attention to balancing collaborative and modality-aware semantics or mitigating modality noise in the process. Second, they use a uniform alignment weight across all entities and also maintain a fixed alignment strength throughout training, limiting the effectiveness of modality-behavior alignment. To address these challenges, we propose EGRA. First, instead of relying on raw modality features, it alleviates sparsity by incorporating into the behavior graph an item-item graph built from representations generated by a pretrained MMR model. This enables the graph to capture both collaborative patterns and modality aware similarities with enhanced robustness against modality noise. Moreover, it introduces a novel bi-level dynamic alignment weighting mechanism to improve modality-behavior representation alignment, which dynamically assigns alignment strength across entities according to their alignment degree, while gradually increasing the overall alignment intensity throughout training. Extensive experiments on five datasets show that EGRA significantly outperforms recent methods, confirming its effectiveness.

Xiaoxiong Zhang, Xin Zhou, Zhiwei Zeng +2

College of Computing and Data Science, Nanyang Technological University, Singapore

Cross-Modal Alignment Multimodal Embedding Recommender Systems Multimodal Recommendation Multimodal Graph Learning