Knowledge Graph Embeddings

SNAP-KG is a framework for assigning newly arriving entities to semantic communities in a growing knowledge graph (KG) using only their raw features, with no graph access and no retraining at inference time. It was evaluated on five multi-view benchmarks and a 2.4M-node OGB-WikiKG2 KG. In each of these datasets, at least one graph view is homophilous, meaning that connected nodes usually belong to the same class, and SNAP-KG performs well on all of them. This paper asks what happens outside that setting. We extend the evaluation to three heterophilous graphs (Texas, Wisconsin, Chameleon) and measure the edge homophily of every view. When no homophilous view is available, clustering quality drops sharply for both SNAP-KG and the transductive baselines used in its original evaluation. What decides this is the homophily of the relation, not the number of relations. Multi-view fusion still helps, but only when at least one homophilous relation provides a reliable foundation. The homophily assumption is therefore shared by the whole method family, not specific to SNAP-KG. We argue that heterophilous multi-view clustering is a separate research problem, outside the scope of this work. As future work, we outline how a heterophily-aware teacher could be distilled into SNAP-KG's projector to serve both homophilous and heterophilous KGs.

Editing a knowledge graph embedding (KGE) model to promote a desired answer can displace correct answers from the returned list. Locality tests based only on facts that reuse the edited parameter can miss this ranking effect. We introduce a common rank-displacement audit at three scopes: facts supported by the edited parameter, other correct answers to the target query, and correct answers across queries with the same relation. We also derive dimensional and geometric conditions for an update to improve the target while exactly preserving selected scores. On FB15k-237 with DistMult and ComplEx, direct promotion always moves the target into the top ten, but does so without damage in only 23.0--23.2% of edits. Strict preservation causes no measured damage, yet succeeds in only 1.3--1.4%. Support-regularized entity editing gives the highest joint success, 36.3--37.7%, while rank-truncated preservation reaches 32.8--34.7% and reduces the mean number of displaced answers from about 14 to 1.2. Experiments across dimensions, scorers, ranking conventions, and a learned editor show that locality depends on both the protected scope and the editing mechanism. KGE editing should therefore report correction success together with the incidence and severity of rank displacement.

Knowledge graph foundation models such as ULTRA achieve zero-shot link prediction on unseen graphs through dedicated architectures that hard-code a transfer mechanism. In this work we move that mechanism out of the architecture and into the representation, by \emph{reifying} the input graph: every fact becomes a node, connected to its subject, object, and relation type through a fixed vocabulary of six meta-relations, with relation types as anonymous shared nodes rather than model parameters. On this representation, five textbook GNNs (GAT, GINE with sum and with mean+max aggregation, GraphSAGE, R-GCN), each trained on a single knowledge graph of 4,245 triples for 30 minutes on one NVIDIA A100, transfer zero-shot to 40 inductive link-prediction benchmarks. The best of them, an off-the-shelf GAT, matches ULTRA, a dedicated foundation model pretrained on three graphs, across ULTRA's own evaluation suite. The same fixed vocabulary extends to relational databases, a row becoming an entity and a foreign-key column a relation type; a preliminary probe on two unseen databases, with no cell values, schema text or in-context labels, shows a model of this family pretrained on three knowledge graphs ranking foreign-key targets far above random-initialization and degree controls. We release the code, the checkpoints, and the evaluation pipeline for all 40 benchmarks.

Knowledge graph embedding (KGE) demonstrates its effectiveness for predicting missing links in knowledge graphs (KGs) by projecting entities and relations into a low-dimensional vector space. It is crucial for KGE models to effectively capture inference patterns (patterns) inherent in KGs, such as symmetry/antisymmetry, inversion and composition. Although recent KGE models exhibit strong capabilities in modeling such diverse patterns, they suffer from inherent limitations stemming from pattern over-generalization, where embeddings learned from only a single pattern instance inevitably generalize that pattern to all related instances, i.e., generalize the pattern universally. To address this issue, we propose PogRE (Pattern Over-Generalization Robust Embedding), a simple but effective method that utilizes dense linear transformations and compound operations for relation representation. Our theoretical analysis demonstrates that a dense linear transformation allows a pattern to become progressively universal as more triples are observed in the pattern. Furthermore, after observing d+1 linearly independent entities (d+1 denotes the dimension of entity), the linear transformation guarantees universal generalization of the pattern across all related instances. Experimental results on three standard benchmark datasets show that PogRE outperforms existing state-of-the-art KGE models in link prediction. Moreover, our empirical results indicate that PogRE effectively addresses the negative impact of over-generalization.

Large language models extracting knowledge graphs from text capture only explicitly stated facts, often leaving semantically related entities disconnected across documents. We present an additive, engine-neutral second pass that discovers these latent ties without altering extracted facts. Each document is chunked and embedded once; top-k nearest- neighbor queries across existing chunks yield candidate node pairs via entity membership maps. Candidate pairs are scored using Shepard inverse-distance weighting with a rescaled chord distance metric, avoiding the threshold-collapsing flaw of affine cosine scoring behind a k-NN gate. Un-gated per-pair accumulators form a commutative monoid, ensuring the pipeline is strictly order-independent and scales incrementally without recomputing prior documents. Implemented across FalkorDB, Kinetica, ArangoDB, and Neo4j, our method shows that 768- and 240-dimensional embeddings retain 92% and 72% edge fidelity against a 3072-D baseline while achieving a 25x faster top-k formulation.

Embedding methods have become popular due to their scalability on link prediction and/or triple classification tasks on Knowledge Graphs (KGs). Embedding models are trained relying on both positive and negative samples of triples. However, since KGs generally contain only positive assertions, negative samples are artificially generated through negative sampling strategies, ranging from simple random corruption to more sophisticated approaches that exploit structural, semantic, or embedding information. The design and implementation of advanced negative samplers remains challenging, as most popular Knowledge Graph Embedding (KGE) libraries provide support only for basic strategies and lack a unified framework for developing more advanced and customized solutions. To address this gap, we introduce PyKEEN-NSX, an extension of PyKEEN, the popular KGE framework, that provides a modular engineered abstraction for negative sampling. The proposed architecture separates the generation of candidate negative pools, conditioned on an explicit context, from the selection strategy, enabling the development and integration of static, schema-aware and dynamic approaches within a consistent framework. Based on this abstraction, we implement six negative samplers, while remaining fully compatible with existing PyKEEN workflows and pipelines. As a proof of concept, we study negative availability across four datasets, showing that constrained pools frequently fall below the requested number of negatives, so that the encoded criterion is to a large extent replaced by the random fallback that supplements them.

Although Graph Neural Networks (GNNs) have made significant advances in spatio-temporal traffic forecasting, their performance is limited when they rely solely on sensor proximity or road-network topology. This paper presents a spatio-temporal prediction framework, developed to incorporate knowledge in various forms. This framework aims to improve sensor-level, contextual understanding of the environment. A general-purpose knowledge graph (e.g., Wikidata) is used to create semantic subgraphs around traffic sensors and generate knowledge graph embeddings that capture meaningful relationships, such as nearby points of interest, administrative hierarchies, and the functional roles of locations. These embeddings are then fused with conventional traffic sensor graphs to provide additional adjacency matrices informed by semantics. This allows GNNs to learn the semantic context beyond physical connectivity. This study differs from previous research in two key ways. Firstly, rather than proposing a novel GNN architecture, it demonstrates the general impact of external knowledge on prediction accuracy. Secondly, experiments with well-established traffic forecasting approaches show that external knowledge provides additional information that street network data alone cannot convey. The results show that integrating data from general-purpose knowledge graphs and sensor networks through data fusion can enhance the prediction accuracy of traffic forecasting models, and offers a potential pathway toward improved interpretability.

Trajectory-User Linking (TUL) aims to identify the owner of an anonymous trajectory from a set of candidate users, providing a basis for user mobility analysis and personalized location-aware services. Existing methods often learn Point of Interest (POI), temporal, and semantic features independently, make limited use of structural knowledge shared across trajectories, and compress structural and sequential information before classification. To address these issues, we propose Multi-Relational Knowledge Graph Enhanced Embedding for Trajectory-User Linking (MakeTUL), which, to the best of our knowledge, is the first attempt to introduce knowledge graph representation learning into TUL. MakeTUL organizes visit-time, POI-category, and transfer-speed information as typed relations in a multi-relational mobility knowledge graph, allowing heterogeneous mobility semantics to jointly constrain the learned embeddings. The resulting POI representations are further enriched with high-order co-occurrence patterns extracted from the trajectory collection, providing structural prior knowledge for sparse and overlapping trajectories. By integrating these prior-enhanced representations with temporal, category, and transfer information, the trajectory sequence learning module captures ordered mobility patterns, while a dual-branch classification layer preserves and combines global structural evidence and sequential evidence at the decision level.

Lecture videos distribute knowledge across speech, slide text, diagrams, equations, and presentation order, which transcript-only retrieval does not fully preserve. This paper presents an evidence-grounded multimodal pipeline that transcribes lectures, selects semantic anchors, applies optical character recognition (OCR), and uses a vision-language model to extract only concepts and typed relationships supported by transcript, OCR, or visual evidence. Mentions are validated and canonicalized into a provenance-rich knowledge graph. On three neural-network lectures, the pipeline processed 3,118 frames, 756 transcript segments, and 559 anchors. It retained 1,022 concept and 312 relationship mentions, yielding 172 canonical concepts and 282 relationships with 90.38% endpoint coverage. A preliminary three question retrieval test achieved 100% top-1 and top-3 accuracy and 100% mean top-5 recall. The contribution is an auditable construction method rather than a state-of-the-art performance claim.

Construction standards are critical for building safety and sustainability. Existing standard application workflows rely on keyword-based document retrieval and manual cross-clause interpretation, which cannot reliably support multi-clause reasoning, multimodal knowledge utilization, or traceable clause-level evidence linkage. To address these limitations, this study develops a multimodal knowledge-driven framework that supports question answering on standard knowledge named BEST-KAG (Knowledge-Augmented Generation for Building Engineering STandards). The framework introduces 1) a multimodal knowledge graph (MKG) for unified representation of document hierarchy and heterogeneous standard knowledge with various connections, 2) a rule-LLM hybrid knowledge construction pipeline for scalable multimodal knowledge extraction, creating a large MAG with 251 building engineering standards, 171,652 nodes and 310,914 edges, and 3) a graph-retrieval-based knowledge-augmented generation architecture for clause-grounded and traceable question answering. Experiments demonstrate that BEST-KAG consistently outperforms multiple mainstream LLMs in terms of Expert evaluation, and metrics including BLEU, and ROUGE, with the best improvement up to 74.01% compared to the baselines.

Retrieval-augmented generation (RAG) has emerged as a critical paradigm for grounding Multimodal Large Language Models (MLLMs) in external knowledge. Recent GraphRAG methods introduce structured entity-relation graphs to improve retrieval and reasoning. However, they remain limited by treating knowledge graphs as static data structures built offline and queried in a single pass. This static paradigm misaligns with the interactive, iterative nature of knowledge-intensive reasoning, creating three bottlenecks: (i) text-centric fragmentation that impedes cross-modal reasoning, (ii) frozen structures unable to incorporate new evidence or correct errors, and (iii) rigid single-pass retrieval without adaptive refinement. To overcome these limitations, we introduce EvoGraph-R1, a self-evolving GraphRAG framework that reconceptualizes knowledge graphs as dynamic environments shaped through agent interactions. We formulate retrieval as a Markov Decision Process (MDP) where the agent observes the graph state and executes actions to query (GraphRetrieve), expand (WebSearch), refine (GraphEdit), or terminate (Answer) the reasoning. These actions reshape the hypergraph structure and generate feedback signals that guide subsequent evolution. Through this closed loop, the hypergraph evolves by integrating new evidence, correcting errors, and refining structure to support multi-hop reasoning. Experiments on multimodal VQA and text QA benchmarks demonstrate substantial improvements over existing RAG baselines in accuracy, coverage, and traceability, establishing self-evolving knowledge graphs as a fundamental paradigm across modalities.

Knowledge graph foundation models such as Ultra and Trix achieve strong inductive transfer by learning relation-graph representations that generalise to unseen entities and relations. Extending this transferability to temporal knowledge graphs (TKGs) remains challenging: existing temporal models tie their parameters to dataset-specific entities, relations, or timestamps and are not designed to transfer to TKGs with disjoint vocabularies. We propose GRATE (Gated Rotary Attention for Temporal Encoding), an entity-side message function that adds no learnable parameters and encodes time through relative time differences by rotating each edge message according to its time gap to the query and applying a query-conditioned gate to select temporally relevant signals. GRATE integrates into NBFNet-style KG foundation models while preserving structural transferability. Existing TKG benchmarks evaluate within shared train/test vocabularies and cannot directly test cross-dataset temporal transfer; we therefore construct GDELTIndT and WIKIIndT, inductive transfer benchmark suites with disjoint entities, relations, and timestamps spanning both interpolation and extrapolation. Across these benchmarks and held-out forecasting datasets, a single jointly pretrained GRATE checkpoint improves over the static base model in most settings.

Multi-Modal Knowledge Graphs (MMKGs) enrich entities with multiple modalities such as text and images, yet entities with highly similar multi-modal features remain difficult to distinguish. Temporal information of an entity can serve as an additional modality to disambiguate such entities, but existing approaches rarely treat time as a separate modality alongside text and images due to two major challenges: (1) sparse temporal semantics, which hinder alignment with richer modalities, and (2) multiple timestamps, which introduce noise or reduce robustness in representation learning. To address these challenges, we propose Time Imprint, a framework that treats time as an entity-level modality and jointly aligns temporal, textual, and visual representations via a three-view contrastive objective. Additionally, to mitigate multi-timestamp ambiguity, Time Imprint studies a compact timestamp subset selection design space and aggregates the selected timestamps into a discriminative temporal embedding with attention pooling, balancing temporal specificity and robustness. Experiments on three MMKG benchmarks demonstrate that Time Imprint achieves state-of-the-art link prediction performance, improving Hits@1 by up to 6.07% overall and yielding up to 58% gains on the subset of the top-1% ambiguity samples. We further examine different fusion strategies and the sensitivity to timestamp availability and quality, clarifying when and why time-as-modality is most beneficial, while adding only modest training overhead. We release our code at https://anonymous.4open.science/r/Time-Imprint.

Training multimodal search agents to perform multi-hop reasoning remains challenging due to a fundamental structural disconnect: existing pipelines construct training data, search environments, and reward signals independently, causing synthesized structural metadata to be discarded, environments to rely on irreproducible external engines, and RL rewards to remain sparse at the trajectory level. We present \textbf{SearchEyes}, which uses a typed knowledge graph as the backbone of a \emph{simulated search world} that unifies all three components. We propose \textbf{Perception-Knowledge Chains (PKC)} to sample constrained multi-hop paths over the visual-knowledge intersection of Wikidata5M, retaining hop-level entity metadata that simultaneously defines a self-contained search world and step-level reward anchors. We further propose \textbf{Hop-Anchored Policy Optimization (HaPO)}, which reuses these anchors for step-level credit assignment without a separately trained process reward model. Experiments on six multimodal knowledge-intensive benchmarks show that SearchEyes achieves state-of-the-art performance among open-source multimodal search agents, with SearchEyes-27B improving over the strongest open-source baseline by 6.2 points on average.%

High-throughput plant phenotyping generates valuable data that often remains trapped in unstructured text and isolated RGB images. To bridge this semantic gap, we propose a framework for constructing a multimodal granular Knowledge Graph (KG) to monitor genotype-phenotype interactions across time and experiments. In this work, we focus on wheat Triticum aestivum as a representative target crop to validate our methodology across complex canopy environments. Our pipeline first distills noisy field notes to extract entities and relations, dynamically constructing the KG by converting unique instances into hierarchical class entities via RDF-typing. These graph nodes are then aligned with standardized ontologies (PO, RO, WTO) using PlantDeBERTa. To visually ground the constructed graph, a Vision-Language Model paired with a wheat-segmentation ViT generates attention-based softmaps, linking specific KG entities directly to image pixels. We introduce a central observation node Plant_Obs_Id to connect these multimodal subgraphs temporally. Evaluated on 500 curated WisWheat samples using Pointing Game accuracy, Visual Word Sense Disambiguation (VWSD), and rank-based metrics, our neuro-symbolic approach successfully maps complex field observations to a structured graph. This enables automated field note auditing, temporal stress monitoring, and precise spatial trait localization for wheat breeders.

Accurate protein-protein interaction (PPI) prediction is central to functional genomics, disease mechanism discovery, and drug development. A difficult setting arises when candidate interactions include proteins that have no observed PPI edges during training, where models relying on network topology alone often lose useful context. This paper presents \method, a multimodal representation framework for cold-start PPI prediction. \method\ combines region-aware protein sequence encoding with four protein-centered biomedical knowledge graphs, including protein-drug, protein-disease, protein-miRNA, and protein-lncRNA associations. The sequence branch extracts contextual representations from structurally informed sequence regions, while graph attention encoders learn modality-specific protein embeddings from sparse biomedical associations. A bridge reconstruction objective regularizes graph learning by recovering shared protein-entity associations, and a pair-level gating module adaptively integrates sequence and graph evidence for each candidate protein pair. Experiments on two benchmark datasets under novel-old and novel-novel cold-start settings show that \method\ consistently outperforms competitive sequence, network, and knowledge-graph baselines across ACC, F1, AUC, AUPR, and MCC.

A Knowledge Graph (KG) represents facts as structured triples and is widely used to organize relational knowledge across diverse domains. Just as textual information ranges from words and sentences to complete documents, KG information can be interpreted at multiple levels, from entities, relations, and triples to subgraphs and entire KGs. However, existing KG embedding methods mainly focus on entities, relations, and triples, leaving graph-level semantics largely unaddressed. Conventional graph-level methods, which typically compare graphs based on structural patterns, are also insufficient because structural similarity alone cannot guarantee semantic similarity between KGs. To evaluate how well different methods capture such graph-level semantic information, we study graph-to-graph semantic similarity, which determines whether a pair of KGs represents semantically corresponding underlying information. To obtain reliable ground-truth correspondences, we construct a semantic matching dataset by modifying text documents, extracting KGs from both original and modified documents, and transferring their known correspondences to KG pairs. We compare text-based, structure-based, and KG embedding-based approaches on each dataset. For the KG embedding-based approach, we introduce two scoring functions: \textit{EmbPairSim}, which uses maximal pairwise entity similarity, and \textit{AvgEmbSim}, which uses a frequency-weighted centroid. Experiments on WikiText-2 and CC-News show that \textit{EmbPairSim} achieves up to 5.3 pp higher MRR than Sentence-BERT while using substantially fewer parameters. These results suggest that KGE representations can serve as compact and effective signals for graph-to-graph semantic similarity in KGs. Our code is available at https://github.com/SeungRyeolBaek/KG-to-KG-Semantic-Similarity.

Knowledge Tracing (KT) is important for personalized education but traditionally suffers from two key limitations: a reliance on shallow ID-based representations that neglect semantic depth and a restriction to single-granularity mastery estimation that overlooks hierarchical knowledge dependencies. To address these challenges, we propose MOSAIC (Multi-granularity Online Semantic AI for Collaborative Knowledge), a novel framework that orchestrates LLM-driven semantic alignment with sequential modeling. Unlike methods that use LLMs solely as predictors, MOSAIC leverages a frozen LLM to generate dynamic, context-aware embeddings and hierarchical prediction prompts, explicitly capturing collaborative signals and peer interactions. Furthermore, we introduce a cross-granularity consistency objective that jointly regularizes mastery estimation across concept, topic-cluster, and global proficiency levels. Extensive experiments on ASSISTments, EdNet, and a newly collected large-scale MOOC dataset demonstrate that MOSAIC establishes new state-of-the-art results. Specifically, our method achieves AUC improvements of up to 3.4% and Accuracy gains of up to 2.5 % across all benchmarks. Notably, MOSAIC exhibits superior robustness in collaboration-rich environments and long-sequence scenarios (AUC 0.862 on MOOC), offering both high predictive precision and semantically grounded interpretability.

Knowledge editing aims to efficiently update factual information in Large Language Models (LLMs) without full retraining. However, existing methods still suffer from performance degradation in batch knowledge editing. We identify that semantic representation entanglement, such as overlapping concepts and shared syntactic patterns, accumulates interference in the representation space and reduces editing precision. To bridge this gap, in this paper, we propose Orthogonal Representation Editing (ORE), which performs edits in the hidden representation space of LLMs by constructing a general semantic subspace and enforcing orthogonal constraints on edit vectors, effectively decoupling semantic entanglement. Furthermore, we introduce a gated non-linear representation head to enable adaptive learning of editing locations and precise control over knowledge injection. Extensive experiments show that ORE outperforms existing methods and achieves superior performance in cross-lingual knowledge editing scenarios. We release our code at https://github.com/YVVH/ORE.

Relational Deep Learning (RDL) models multi-tabular databases as temporal heterogeneous graphs for end-to-end representation learning. While RDL is evolving rapidly, existing approaches face significant generalization obstacles. They are either schema-specific, requiring training from scratch for every new database, or they rely on monolithic architectures that entangle feature encoding with graph message-passing. Analyzing these limitations, we establish four core pillars for building foundational relational models: semantic granularity, structural topology, temporal causality, and unified optimization. Addressing these pillars, we propose a modular approach that decouples row encoding from graph message-passing. We introduce the Universal Row Encoder, a transformer-based module that integrates raw cell data with schema metadata$-$including column semantics, table names, and global distribution statistics$-$to produce table-width invariant row embeddings. By explicitly feeding global statistics to an intra-row self-attention mechanism, the encoder natively contextualizes unseen features and handles sparse data. Serving as a flexible "backend" for any downstream graph architecture, our pretrained encoder enhances cross-database knowledge transfer on the established RelBench benchmarks while improving learning convergence and memory footprint.

Entity alignment (EA) aims to identify equivalent entities across heterogeneous knowledge graphs (KGs) and is a key component of knowledge fusion and cross-KG reasoning. The recent EA foundation model demonstrates that alignment knowledge, once pretrained, can be directly applied to diverse previously unseen KG pairs. However, it still underuses structural context in two places: cross-KG interaction is weak during encoding, and final candidate ranking still relies too heavily on coarse similarity. We address these limitations with ContextEA, an enhanced encoder-decoder framework for transferable EA. On the encoder side, we introduce a cross-KG interaction encoder that unifies the two KGs with anchor bridges and performs earlier relation-aware cross-graph propagation. On the decoder side, we introduce a structural calibration decoder that calibrates alignment scores with entity-level, neighborhood-level, relation-level, and anchor-aware structural evidence. This design strengthens both structural context construction and structural context exploitation while remaining lightweight. Experiments on 29 EA datasets in OpenEA, SRPRS, and DBP show consistent gains over strong transferable baselines. Notably, the pretrained ContextEA already surpasses the finetuned baselines on all three benchmark groups, demonstrating substantially stronger transfer to unseen KGs. These results suggest that explicitly harnessing structural context is an effective direction for improving EA foundation models.

Embedding models (KGEMs) constitute the main link prediction approach to complete knowledge graphs. Standard evaluation protocols emphasize rank-based metrics such as MRR or Hits@$K$, but usually overlook the influence of random seeds on result stability. Moreover, these metrics conceal potential instabilities in individual predictions and in the organization of embedding spaces. In this work, we conduct a systematic stability analysis of multiple KGEMs across several datasets. We find that high-performance models actually produce divergent predictions at the triple level and highly variable embedding spaces. By isolating stochastic factors (i.e., initialization, triple ordering, negative sampling, dropout, hardware), we show that each independently induces instability of comparable magnitude. Furthermore, for a given model, hyperparameter configurations with better MRR are not guaranteed to be more stable. Moreover, voting, albeit a known remediation mechanism, only provides a limited enhancement of stability. These findings highlight critical limitations of current benchmarking protocols, and raise concerns about the reliability of KGEMs for knowledge graph completion.

Large Language Models (LLMs) rely on Knowledge Editing (KE) to maintain temporal validity, yet real-world knowledge is inherently n-ary. We demonstrate that in non-stationary environments, sequential updates to complex relations induce N-ary Structural Drift, a phenomenon where the binary reification of n-ary events into triples fractures relational atomicity. This precipitates Structure-Conditioned Knowledge Transfer Failure, a systematic mis-grounding of the retriever frequently misdiagnosed as parametric hallucination. To tackle this, we propose HyperPatch, a parameter-preserving framework that reformulates sequential KE as a stability problem over hypergraph manifolds. HyperPatch preserves event integrity through three phases: (i) Structural Prior Initialization, establishing a topology-aware embedding space via contrastive learning on a Hypergraph Neural Network (HGNN) to capture high-order correlations; (ii) Sequential Topology Editing, utilizing a dual-stage mechanism that employs SimHash-based Topological Alignment for rapid conflict resolution and Topological LoRA Adaptation to track drift without backbone retraining; and (iii) Structure-Conditioned Reasoning, which integrates globally consistent evidence from fused linguistic and structural manifolds. On the MQuAKE-CF and MQuAKE-T benchmarks, HyperPatch achieves relative gains in Hop-wise Accuracy (H-Acc) of 96.24% and 21.06% over the strongest baseline, respectively. Further ablations demonstrate superior reliability under continuous n-ary update streams, whereas the standard KG-based variant suffers H-Acc collapses of up to 88.3% due to structural misalignment.

Existing methods in Multimodal Knowledge Editing (MKE) have advanced the ability to correct outdated or inaccurate knowledge in Multimodal Large Language Models (MLLMs). However, they exhibit a critical limitation: while effectively modifying target factual pairs, they fail to generalize edits to logically related queries and often cause unintended alterations to unrelated but visually or semantically linked information. We identify and formalize two underlying failure modes causing this issue: Causal Misalignment, which confines edits to the specific sample, and Feature Entanglement, which causes unintended alterations to coupled but irrelevant information. To address these issues, we propose Localized and Disentangled Knowledge Editing (LDKE), a new framework that achieves precise and generalized editing by localizing fact-specific model layers and disentangling target-relevant inputs from irrelevant ones. Our approach introduces a Fast Localization module to identify and update critical layers efficiently, along with a Disentanglement Classifier that routes inputs appropriately to preserve unrelated knowledge. Extensive experiments across various benchmarks and MLLMs demonstrate that LDKE achieves superior performance in propagating edits to related contexts while maintaining high locality.

Biological systems are governed by structured molecular interactions, where pathways, regulatory circuits, and functional gene relationships shape cellular behavior and disease progression. Much of this knowledge is naturally represented as graphs. However, most biomedical AI models cannot directly use graph-encoded biological knowledge and instead require compressed low-dimensional representations, which can lose important structure and reduce performance, especially in limited-sample clinical studies. Here, we introduce Graph-in-Graph (GiG), a knowledge graph-modulated deep learning framework for data-efficient clinical prediction. GiG represents each patient as a standalone modular graph, in which curated biological knowledge graphs define edges and patient-specific measurements, such as gene expression, define node features. This design allows multiple biological knowledge graphs to be integrated while preserving gene-gene interactions and pathway topology during patient-level representation learning. Across cohorts comprising nearly 9,700 patients and five clinical tasks, including liquid biopsy cancer detection, prostate cancer diagnosis, and 32-class pan-cancer classification, GiG consistently outperforms traditional and state-of-the-art methods, with the largest gains in limited-sample settings. On the challenging prostate cancer diagnosis task, GiG improves macro-F1 by up to 49 percentage points relative to competing methods. Control experiments replacing real pathway graphs with random topologies confirm that these gains arise from biologically grounded knowledge graph structure rather than graph modeling alone. These findings show that knowledge graph-modulated deep learning can improve robustness, interpretability, and sample efficiency in clinical data analysis, and provide a principled framework for integrating biological knowledge graphs into predictive modeling.

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.

We present Epicure, a family of three sibling skip-gram ingredient embeddings retrained from scratch on a multilingual recipe corpus. We aggregate 4.14M recipes from 11 sources spanning seven languages, English, Chinese, Russian, Vietnamese, Spanish, Turkish, Indonesian, German, and Indian-English, and normalise the raw ingredient strings to 1,790 canonical entries via an LLM-augmented pipeline. A 203,508-edge ingredient-ingredient NPMI graph and an 80,019-edge typed FlavorDB ingredient-compound graph, 2,247 typed compound nodes across 15 categories, seed three Metapath2Vec variants that share architecture and hyperparameters and differ only in the random-walk schema: Cooc walks the co-occurrence graph only, Chem walks the typed compound metapaths only, and Core blends both via injected ingredient-ingredient walks at controlled mixing, placing each model at a distinct point on the chemistry-vs-recipe-context spectrum.

Knowledge Graphs (KGs) are a powerful representation of linked data, offering flexibility, semantic richness, and support for knowledge enrichment and reasoning. They help data owners organize and exploit heterogeneous data to provide insightful services (e.g., recommendations), yet real-world KGs are often incomplete, hiding true facts or missing valuable insights. Knowledge graph embedding techniques are commonly used to infer valuable missing information. However, reasoning over KGs can inadvertently expose sensitive user information, even when such data is not explicitly stored. In this work, we investigate the privacy risks associated with KGE-based reasoning, focusing on attribute inference attacks where adversaries attempt to deduce sensitive user attributes from seemingly non-sensitive outputs. We propose and evaluate a framework that mitigates these privacy risks by applying post processing sanitization techniques to KGE outputs. Preliminary results demonstrate the effectiveness of these attacks on the outputs of KGE models, and explore the trade-off between recommendation quality and privacy protection when applying randomization based approaches, highlighting the need to experiment with more advanced techniques in future work to address this issue.

We introduce Graph-Augmented Sequence-to-Sequence (GA-S2S), a novel framework that integrates a T5-small encoder-decoder with a Relational Graph Attention Network (RGAT) to improve link prediction in knowledge graphs. While existing Seq2Seq models rely solely on surface-level textual descriptions of entities and relations and at best, flatten the neighborhoods of a query entity into a single linear sequence, thereby discarding the inherent graph structure, GA-S2S jointly encodes both textual features and the full $k$-hop subgraph topology surrounding the query entity. By integrating raw encoder outputs with RGAT's relation-aware embeddings, our model captures and leverages richer multi-hop relational patterns and textual information. Our preliminary experiments on the CoDEx dataset demonstrate that GA-S2S outperforms competitive Seq2Seq-based baseline models, achieving up to a 19% relative gain in link prediction accuracy.

The preservation and interpretation of cultural heritage increasingly rely on digital technologies, among which Knowledge Graphs (KGs) stand out for their ability to structure vast amounts of data. However, the construction and expansion of these KGs often face challenges due to the diverse and complex nature of cultural heritage information. In this paper, we propose a novel approach for extending KG resources in the domain of cultural heritage, which we applied to French data. First, we introduce a new knowledge graph in the domain of French cultural heritage, WJoconde, which is distinguished by its multimodality as it integrates both textual and image information of the entities. We further introduce three variants of WJoconde to facilitate downstream research, such as Knowledge Graph Completion (KGC). We also built a comprehensive benchmark for KGC methods on our dataset. Second, we propose a new framework for extending cultural heritage KGs using multi-modal approaches leveraging Large Language Models (LLMs) and Vision-Language Models (VLMs), which includes automated data extraction from unstructured resources combined with a special validation pipeline for grounding the output of both models, to further extend WJoconde. Our results show that by integrating the rich text and image information in cultural heritage data, we can efficiently enhance KGs with high reliability. We open-source all code and benchmark datasets with text and images, as well as the original data with an interactive access point

Multilingual knowledge editing (MKE) remains challenging because language-specific edits interfere with one another, even when locate-then-edit methods work well in monolingual settings. This paper focuses on three issues: the effectiveness of vector merging methods for MKE, the extent to which Task Singular Vectors for Merging (TSVM) can reduce multilingual interference, and the influence of the weight scaling factor and rank compression ratio on performance. We evaluate six merging variants with two popular backbone large language models, two base knowledge editing methods, and 12 languages on the MzsRE benchmark under a large-scale batch-editing setting. Our results show that vector summation with shared covariance is the most reliable overall strategy, whereas simple summation without shared covariance performs poorly. TSVM improves performance in some settings, but its ability to mitigate multilingual interference is limited. We also find that performance is sensitive to both weight scale and rank ratio, with larger-than-default scaling and relatively low rank often yielding better results. These findings clarify the practical strengths and limits of current vector merging methods for MKE and provide guidance for future multilingual knowledge editing research.

Automated data quality assessment is crucial for managing big data, but existing solutions face challenges in achieving accurate context-aware assessment. This paper presents a novel knowledge-based approach to enhance automated data quality assessment. Our approach utilizes knowledge graph embeddings to predict missing edges between the input dataset's context representation and the relevant quality rules and dimensions within a knowledge graph representing contextual data characteristics and the required quality assessment operations. We surpass conventional practices by integrating diverse representations within the knowledge graph, drawing insights from contextual information from a thorough literature investigation. This integration allows us to develop a comprehensive and context-specific data quality assessment plan tailored to each context. Leveraging the knowledge graph improves our understanding of the input dataset's context, overcoming the limitations of traditional methods that rely solely on strict matching and overlook contextual characteristics. By injecting numerical edge attributes, we assign corresponding weights to each predicted quality measurement, providing a comprehensive data quality assessment plan for the input dataset. To evaluate our approach, we leverage AmpliGraph, a framework developed and benchmarked by AccentureLabs. The evaluation involves employing a real-world radiation sensors dataset provided by the Lebanese Atomic Energy Commission (LAEC-CNRS). The results obtained from this evaluation demonstrate the capability of our solution to generate a comprehensive data quality assessment plan for the given input dataset.

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

Knowledge graph embedding (KGE) models typically represent each relation as an operator on entity embeddings. In this work, we identify three structural axioms that any principled relation operator must satisfy, linearity, trace preservation, and complete positivity, and show that they characterize a Kraus channel structure via the Kraus representation theorem. The completeness constraint defining this family is equivalent to these axioms, providing a principled foundation rather than an externally imposed condition. Under this formulation, most existing operator-based KGE models are recoverable as special cases with Kraus rank $κ= 1$ under specific embedding choices. We further generalize this characterization to arbitrary metric geometries by introducing \mbox{w-Kraus} channels, which satisfy completeness by construction within their respective spaces. Building on this theory, we propose \textsc{KrausKGE}, a principled KGE model that naturally handles $1$-to-$N$ and $N$-to-$N$ relations, supports $k$-hop reasoning without requiring explicit path encoders, and eliminates the need for norm constraints on entity embeddings. Additionally, our framework yields the first theoretically grounded per-relation complexity measure in the KGE literature, with a provable lower bound in terms of the empirical relation matrix rank. Empirical evaluation demonstrates that \textsc{KrausKGE} consistently outperforms strong baselines on $N$-to-$N$ relations, with performance gains that increase monotonically with relation fan-out, in alignment with theoretical predictions.

Large Language Models (LLMs) provide flexible natural language processing capabilities, while knowledge graphs (KGs) offer explicit and structured knowledge. Integrating these two in a complementary manner enables the development of reliable and verifiable AI systems. In particular, knowledge graph question answering (KGQA) has attracted attention as a means to reduce LLM hallucinations and to leverage knowledge beyond the training data. However, existing KGQA benchmark datasets are biased toward encyclopedic knowledge, limited to a single modality, and lack fine-grained spatiotemporal data, which limits their applicability to real-world scenarios targeted by Embodied AI. We introduce HOME-KGQA, a novel KGQA benchmark dataset built on a multimodal KG of daily household activities. HOME-KGQA consists of complex, multi-hop natural language questions paired with graph database query languages. Compared to existing benchmarks, it includes more challenging questions that involve multi-level spatiotemporal reasoning, multimodal grounding, and aggregate functions. Experimental results show that the LLM-based KGQA methods fail to achieve performance comparable to that on existing datasets when evaluated on HOME-KGQA. This highlights significant challenges that should be addressed for the real-world deployment of KGQA systems. Our dataset is available at https://github.com/aistairc/home-kgqa

The emerging collaborative information-based knowledge tracing (KT) has been a promising way to enhance modeling of learners' knowledge states. The core idea is to extract the collaborative information from interaction sequences of other learners to assist the prediction on the target one. Despite effectiveness, existing methods are built on the raw interaction sequences with tailored modules, which inevitably limits their capacity in deeply capturing learning behavioral patterns and generalization. To this end, we propose a general meta-behavioral pattern-aware framework (MBP-KT) for KT. Specifically, MBP-KT introduces a novel meta-behavioral sequence construction to transform the raw interaction sequences into the combinations of different meta-behavioral patterns. In this way, the learning behavioral patterns of learners can be effectively preserved. Then, MBP-KT develops a parameter-free module to extract the global collaborative representations from the constructed meta-behavioral sequences. Moreover, MBP-KT provides general injection strategies to introduce the extracted global collaborative information into various downstream KT models, ensuring the universality of the collaborative information. Extensive results on real-world datasets demonstrate that MBP-KT can consistently boosts the performance of a wide range of KT models.

In recent years, the use of edge information provided by knowledge graphs together with the advantages of higher-order connectivity in graph neural networks for recommendation systems has become an important research direction. However, existing approaches are often limited by sparse labels, insufficient graph structure learning, and noisy entities in the knowledge graph, which reduce recommendation accuracy. To address these limitations, we propose a multi-view graph contrastive learning framework. The proposed method enhances user representations through multi-view knowledge graph distillation, enabling more accurate modeling of user preferences over entities and relations. The network aggregates neighborhood entity information to construct informative item representations. Furthermore, we design a multi-level self-supervised contrastive learning module that performs comparisons across three perspectives: Inter-Level, Intra-Level, and Interaction-Level. This design improves the model's ability to generalize across intra-class samples while increasing discrimination between inter-class samples, thereby enabling more effective multi-dimensional feature modeling. We conduct extensive experiments on three public datasets using both baseline and ablation settings. Experimental results demonstrate that the proposed framework consistently outperforms existing state-of-the-art methods. Ablation studies further verify the effectiveness of each module in the proposed model.

Knowledge Graphs (KGs) have proven highly effective for recommendation systems by capturing latent item relationships, while recent integration of Large Language Models (LLMs) has further enhanced semantic understanding and addressed knowledge sparsity issues. Nevertheless, current KG-and-LLM-based methods still face three main limitations: 1) inadequate modeling of implicit semantic relationships beyond explicit KG links; 2) suboptimal single-channel fusion of ID and LLM embeddings, which often leads to signal interference and blurred representations; and 3) insufficient consideration of user-item interaction frequency variations in recommendation strategies. To address these challenges, we propose the Dual-Channel Graph Learning (DCGL) framework, featuring three key innovations: 1) a dual-channel architecture that structurally decouples rich semantic information from user behavioral patterns, preventing early interference; 2) a multi-level contrastive learning mechanism that enhances robustness against KG noise through intra-view contrasts and bridges semantic gaps between channels via inter-view alignment; and 3) a dynamic fusion mechanism that adaptively balances semantic generalization and behavioral specificity based on interaction frequency, resolving the cascading limitation. Extensive experiments on four real-world datasets show that DCGL consistently outperforms state-of-the-art methods, yielding substantial improvements in sparse scenarios while maintaining precision for active users. Our code is available at https://github.com/XinchiZou/DCGL.

Multimodal knowledge editing (MKE) aims to correct the internal knowledge of large vision-language models after deployment, yet the behavioral patterns of post-edit models remain underexplored. In this paper, we identify a systemic failure mode in edited models, termed Entity Identity Confusion (EIC): edited models exhibit an absurd behavior where text-only queries about the original entity's identity unexpectedly return information about the new entity. To rigorously investigate EIC, we construct EC-Bench, a diagnostic benchmark that directly probes how image-entity bindings shift before and after editing. Our analysis reveals that EIC stems from existing methods failing to distinguish between Image-Entity (I-E) binding and Entity-Entity (E-E) relational knowledge in the model, causing models to overfit E-E associations as a shortcut: the image is still perceived as the original entity, with the new entity's name serving only as a spurious identity label. We further explore potential mitigation strategies, showing that constraining edits to the model's I-E processing stage encourages edits to act more faithfully on I-E binding, thereby substantially reducing EIC. Based on these findings, we discuss principled desiderata for faithful MKE and provide methodological guidance for future research.

Foundation models have established unified representations for natural language processing, yet this paradigm remains largely unexplored for tabular data. Existing methods face fundamental limitations: LLM-based approaches lack retrieval-compatible vector outputs, whereas text embedding models often fail to capture tabular structure and numerical semantics. To bridge this gap, we first introduce the Tabular Embedding Benchmark (TabBench), a comprehensive suite designed to evaluate the tabular understanding capability of embedding models. We then propose TabEmbed, the first generalist embedding model that unifies tabular classification and retrieval within a shared embedding space. By reformulating diverse tabular tasks as semantic matching problems, TabEmbed leverages large-scale contrastive learning with positive-aware hard negative mining to discern fine-grained structural and numerical nuances. Experimental results on TabBench demonstrate that TabEmbed significantly outperforms state-of-the-art text embedding models, establishing a new baseline for universal tabular representation learning. Code and datasets are publicly available at https://github.com/qiangminjie27/TabEmbed and https://huggingface.co/datasets/qiangminjie27/TabBench.

Most multi-modal knowledge graph completion (MMKGC) models use one embedding scorer to do both retrieval over the full entity set and final decision making. We argue that this coupling is a core bottleneck: global high-recall search and local fine-grained disambiguation require different inductive biases. Therefore, we propose a Retrieval-Augmented Discrete Diffusion (RADD) framework to decouple retrieve and reranking for MMKGC. A relation-aware multimodal KGE retriever serves as both global retriever and distillation teacher, while a conditional discrete denoiser performs shortlist-level entity-identity generation for reranking. Training combines KGE supervision, denoising cross-entropy, and temperature-scaled distillation from the retriever to the denoiser. At inference, the designed Diff-Rerank first forms a top-$K$ shortlist with the retriever and then reranks it with the denoiser, ensuring that recall is a strict prerequisite for precision. Experiments on three MMKGC benchmarks show that RADD achieves the best performance and consistent gains over strong unimodal, multimodal, and LLM-based baselines, while ablations further verify the contribution of each component.

Knowledge base (KB) embeddings aim at combining the capability of classical knowledge graph embeddings to generalize the information present in facts, the ABox, with conceptual knowledge represented in an ontology language, the TBox. Several authors have recently explored the idea of mapping concepts to convex regions in a vector space. This is useful to represent hierarchies, typically present in TBoxes, since more general concepts can be mapped to larger regions, containing those regions associated with more specific concepts. However, the power of convexity is rarely leveraged during the actual learning tasks. Here, we introduce BoxLitE, a KB embedding model for DL-Lite$^{\mathcal{H}}$ that allows for convex optimization. We show that for any satisfiable DL-Lite$^{\mathcal{H}}$ KB, there is a BoxLitE embedding that is a weakly faithful model. As a proof of concept, we show how to formulate the KB embedding task as a convex optimization problem and how to obtain embeddings with such desirable faithfulness properties.

Accurate mapping between Common Vulnerabilities and Exposures (CVE) and Common Weakness Enumeration (CWE) entries is critical for effective vulnerability management and risk assessment. However, public databases, such as the National Vulnerability Database (NVD), suffer from inconsistent and incomplete CVE to CWE mappings, complicating automated analysis and remediation. We introduce FixV2W, a lightweight approach that leverages knowledge graph embeddings and longitudinal trends to improve mapping accuracy of the NVD. FixV2W systematically analyzes historical remapping patterns and leverages hierarchical relationships within NVD and CWE data to predict more precise CWE mappings for vulnerabilities linked to Prohibited or Discouraged categories. We run extensive experimental evaluation of FixV2W, based on test data set collected between August 2021 and December 2024. Considering the Top 10 ranked predictions, the results show that FixV2W predicts the correct CWE mappings for 69% of exploited vulnerabilities that had invalid CWEs before they were exploited. We also show that FixV2W significantly improves the performance of ML models relying on NVD data. For instance, for a model geared at uncovering unknown CVE-CWE mappings, FixV2W improves the Mean Reciprocal Rank (MRR) from 0.174 to 0.608. These results show that FixV2W is a promising approach to identify and thwart emerging threats.

Grounded Multimodal Named Entity Recognition (GMNER) aims to extract named entities and localize their visual regions within image-text pairs, serving as a pivotal capability for various downstream applications. In open-world social media platforms, GMNER remains challenging due to the prevalence of long-tailed, rapidly evolving, and unseen entities. To tackle this, existing approaches typically rely on either external knowledge exploration through heuristic retrieval or internal knowledge exploitation via iterative refinement in Multimodal Large Language Models (MLLMs). However, heuristic retrieval often introduces noisy or conflicting evidence that degrades precision on known entities, while solely internal exploitation is constrained by the knowledge boundaries of MLLMs and prone to hallucinations. To address this, we propose SAKE, an end-to-end agentic framework that harmonizes internal knowledge exploitation and external knowledge exploration via self-aware reasoning and adaptive search tool invocation. We implement this via a two-stage training paradigm. First, we propose Difficulty-aware Search Tag Generation, which quantifies the model's entity-level uncertainty through multiple forward samplings to produce explicit knowledge-gap signals. Based on these signals, we construct SAKE-SeCoT, a high-quality Chain-of-Thought dataset that equips the model with basic self-awareness and tool-use capabilities through supervised fine-tuning. Second, we employ agentic reinforcement learning with a hybrid reward function that penalizes unnecessary retrieval, enabling the model to evolve from rigid search imitation to genuine self-aware decision-making about when retrieval is truly necessary. Extensive experiments on two widely used social media benchmarks demonstrate SAKE's effectiveness.

Knowledge Graph Embeddings (KGEs) support a wide range of downstream tasks over Knowledge Graphs (KGs). In practice, KGs evolve as new entities and facts are added, motivating Continual Knowledge Graph Embedding (CKGE) methods that update embeddings over time. Current CKGE approaches address catastrophic forgetting (i.e., the performance degradation on previously learned tasks) primarily by limiting changes to existing embeddings. However, we show that this view is incomplete. When new entities are introduced, their embeddings can interfere with previously learned ones, causing the model to predict them in place of previously correct answers. This phenomenon, which we call entity interference, has been largely overlooked and is not accounted for in current CKGE evaluation protocols. As a result, the assessment of catastrophic forgetting becomes misleading, and CKGE methods performance is systematically overestimated. To address this issue, we introduce a corrected CKGE evaluation protocol that accounts for entity interference. Through experiments on multiple benchmarks, we show that ignoring this effect can lead to performance overestimation of up to 25%, particularly in scenarios with significant entity growth. We further analyze how different CKGE methods and KGE models are affected by the different sources of forgetting, and introduce a catastrophic forgetting metric tailored to CKGE.

Table annotation is crucial for making web and enterprise tables usable in downstream NLP applications. Unlike textual data where learning semantically rich token or sentence embeddings often suffice, tables are structured combinations of columns wherein useful representations must jointly capture column's semantics and the inter-column relationships. Existing models learn by linearizing the 2D table into a 1D token sequence and encoding it with pretrained language models (PLMs) such as BERT. However, this leads to limited semantic quality and weaker generalization to unseen or rare values compared to modern LLMs, and degraded structural modeling due to 2D-to-1D flattening and context-length constraints. We propose TabEmb, which directly targets these limitations by decoupling semantic encoding from structural modeling. An LLM first produces semantically rich embeddings for each column, and a graph-based module over columns then injects relationships into the embeddings, yielding joint semantic-tructural representations for table annotation. Experiments show that TabEmb consistently outperforms strong baselines on different table annotation tasks. Source code and datasets are available at https://github.com/hoseinzadeehsan/TabEmb

Retrieval-Augmented Generation (RAG) mitigates hallucinations in Multimodal Large Language Models (MLLMs), yet existing systems struggle with complex cross-modal reasoning. Flat vector retrieval often ignores structural dependencies, while current graph-based methods rely on costly ``translation-to-text'' pipelines that discard fine-grained visual information. To address these limitations, we propose \textbf{MG$^2$-RAG}, a lightweight \textbf{M}ulti-\textbf{G}ranularity \textbf{G}raph \textbf{RAG} framework that jointly improves graph construction, modality fusion, and cross-modal retrieval. MG$^2$-RAG constructs a hierarchical multimodal knowledge graph by combining lightweight textual parsing with entity-driven visual grounding, enabling textual entities and visual regions to be fused into unified multimodal nodes that preserve atomic evidence. Building on this representation, we introduce a multi-granularity graph retrieval mechanism that aggregates dense similarities and propagates relevance across the graph to support structured multi-hop reasoning. Extensive experiments across four representative multimodal tasks (i.e., retrieval, knowledge-based VQA, reasoning, and classification) demonstrate that MG$^2$-RAG consistently achieves state-of-the-art performance while reducing graph construction overhead with an average 43.3$\times$ speedup and 23.9$\times$ cost reduction compared with advanced graph-based frameworks.

Entity alignment (EA) is critical for knowledge graph (KG) fusion. Existing EA models lack transferability and are incapable of aligning unseen KGs without retraining. While using graph foundation models (GFMs) offer a solution, we find that directly adapting GFMs to EA remains largely ineffective. This stems from a critical "reasoning horizon gap": unlike link prediction in GFMs, EA necessitates capturing long-range dependencies across sparse and heterogeneous KG structuresTo address this challenge, we propose a EA foundation model driven by a parallel encoding strategy. We utilize seed EA pairs as local anchors to guide the information flow, initializing and encoding two parallel streams simultaneously. This facilitates anchor-conditioned message passing and significantly shortens the inference trajectory by leveraging local structural proximity instead of global search. Additionally, we incorporate a merged relation graph to model global dependencies and a learnable interaction module for precise matching. Extensive experiments verify the effectiveness of our framework, highlighting its strong generalizability to unseen KGs.

Operational knowledge-graph (KG) pipelines in networking and cybersecurity increasingly need to refresh embeddings under strict time, memory, and audit budgets, especially as curated feeds and LLM-assisted extraction accelerate KG updates. A recurring per-step cost in mini-batch KG learning is neighborhood-context estimation: uniform neighbor sampling without replacement followed by mean aggregation. Common frameworks implement this estimator through sampled-subgraph materialization and intermediate feature gathers, adding kernel launches, allocator pressure, and transient memory spikes. We present One-Pass Neighborhood Estimation, a fused PyTorch CUDA operator that samples neighbors and directly emits the sampled-neighborhood mean, avoiding explicit block construction while preserving GraphSAGE-mean semantics for the same sampled neighbor IDs. It supports seed-controlled sampling and optional saved-index replay for reproducible validation and regression testing. Across large-graph mini-batch workloads, it improves FP32 end-to-end step latency by 2.24x-3.48x over tuned DGL baselines and reduces transient GPU memory by up to 160x in our measurements. On OGB KG completion benchmarks such as WikiKG2 and BioKG, it reduces step time and peak VRAM while matching ranking quality within seed variability, improving time-to-quality for budgeted KG refresh.