Large Vision-Language Models (LVLMs) achieve strong performance on image-grounded text generation and visual question answering. However, it remains difficult for them to comprehensively and accurately describe the factual relations among the entities and concepts associated with the objects depicted in an image. In this work, we propose a framework that efficiently exploits factual information from a knowledge graph via retrieval-augmented generation (RAG), with the goal of enabling LVLMs to generate detailed and accurate image explanations. Specifically, our method alternates between answer generation and knowledge-graph retrieval, and controls the search using a correctness judgment, thereby acquiring the necessary and sufficient factual information efficiently. We also construct a knowledge graph for the artwork domain (ExpArt-KG), in which the correspondence between images and entities is unambiguous. Applying the proposed method to this knowledge graph, we show experimentally that it improves the level of detail of artwork explanations and reduces the retrieval cost of external knowledge while maintaining generation quality comparable to that of iterating a fixed number of times.
https://arxiv.org/abs/2609.00629
Retrieval-Augmented Generation (RAG) mitigates large language models (LLMs) hallucinations, yet conventional dense retrieval struggles with the complex reasoning paths of multi-hop question answering (QA). Graph-based RAG captures multi-step relationships but suffers from severe semantic drift and high online latency due to noisy global graph traversals. Thus, we propose ISO-RAG (ISOperimetric Retrieval-Augmented Generation), a geometry-aware RAG framework. By projecting the underlying knowledge graph into a hyperbolic Poincare ball to precompute node-wise isoperimetric profiles, ISO-RAG prunes spurious edges during retrieval, restricting the search space to a strictly localized subgraph. This topological purification regulates Personalized PageRank (PPR) diffusion driving the retrieval process, ensuring exact and low-latency convergence. Experiments on multi-hop QA benchmarks demonstrate that ISO-RAG outperforms state-of-the-art baselines by average absolute gains of 10.0% in retrieval recall and 4.3% in downstream exact match, achieving a superior accuracy-efficiency trade-off by fundamentally eliminating the latency bottleneck of global traversals. Our source code is available at this https URL.
https://arxiv.org/abs/2609.00513
For emerging scientific research domains, local Small Language Models (SLMs) are becoming more attractive, as they offer stronger privacy control and more stable deployment pipelines than Large Language Models. However, in practice, scientific question-answering on SLMs often operates under inevitable constraints: small literature collections, fragmented evidence, limited context window and reasoning abilities. We propose the Evidence-Grounded Typed Knowledge Graph (EGT-KG), a retrieval framework to improve information retrieval with local SLMs. We assessed three question-answering settings: a vanilla Retrieval-Augmented Generation (RAG) workflow and two EGT-KG workflows: an automatically generated relation schema (AS) and an expert-defined relation schema (ES). Our experiments were evaluated with a six-dimensional evaluation framework (S3CRF: Soundness, Correctness, Completeness, Conciseness, Relevance, Fluency) on a Biopolymer-bound Soil Composite literature benchmark, showing that EGT-KG outperforms the vanilla RAG method in most settings, with the best improvement from llama3:8b: a Final Score of 70.37 (+14.67%) and 68.82 (+12.14%) by AS/ES EGT-KG variants.
https://arxiv.org/abs/2609.00479
General-purpose NLP embedding models perform well on linguistic tasks, but their ability to capture symbolic ontological structure remains unclear. We introduce AVA, a systematic framework for evaluating whether embeddings distinguish logic-sensitive relational semantics in ontologies and knowledge graphs. AVA comprises 171,007 contrastive triplets derived from 163 heterogeneous ontologies using hierarchy inversion, relation substitution, and disjointness injection. Each triplet contains an ontology statement, a semantically equivalent paraphrase, and a logic-sensitive hard negative with contradictory relational meaning. We evaluate more than 25 state-of-the-art embedding models and find substantial limitations: the best model achieves only 0.739 triplet accuracy, while hard negative accuracy falls to 0.135. Fine-tuning improves discrimination by a large margin but transfers poorly to downstream Semantic Web tasks, including taxonomy discovery and ontology alignment. Further analysis suggests that improvements stem partly from perturbation-specific pattern recognition rather than robust ontological understanding. These findings reveal a persistent gap between linguistic representation learning and ontology-level discrimination, challenging the assumption that strong NLP benchmark performance translates to Semantic Web competence.
https://arxiv.org/abs/2609.00177
Ontology alignment (OA) has evolved through several methodological paradigms, ranging from lexical and structural aligners to knowledge graph embedding (KGE) models and, more recently, Large Language Model (LLM)-based approaches. Although modern OA frameworks provide unified ecosystems for deploying these heterogeneous aligners, mechanisms for systematically reconciling their complementary and sometimes conflicting predictions remain relatively underexplored. We present OntoAligner-Ensemble, a modular and aligner-agnostic framework that combines candidate correspondences through a configurable two-stage process comprising voting-based fusion strategies followed by post-fusion selection policies. The framework supports any aligner implemented within OntoAligner that produces candidate correspondences, enabling diverse alignment paradigms to be integrated through a unified decision process. To demonstrate its effectiveness, we instantiate the framework using representative lightweight string-aligner, KGE-based, and Retrieval-Augmented Generation aligners powered by both open-weight and API-based LLMs. We evaluate individual aligners and ensemble configurations across eight benchmark tasks from five OAEI tracks spanning biomedical to beyond-equivalence. The results show that ensemble fusion consistently improves the balance between precision and recall and frequently outperforms standalone aligners across diverse domains. Furthermore, our analysis reveals that ensemble composition directly affects the precision-recall trade-off: heterogeneous cross-paradigm ensembles generally improve precision, whereas homogeneous LLM ensembles more often achieve higher overall F1-scores. These findings demonstrate that systematic ensemble learning offers a robust and reproducible strategy for OA while providing practical guidance for selecting ensemble compositions under different alignment scenarios.
https://arxiv.org/abs/2608.31137
Despite the strong capabilities of multimodal large language models (MLLMs), their parametric knowledge remains incomplete and difficult to update, motivating multimodal retrieval-augmented generation (RAG) to ground responses in external text and images. However, existing benchmarks face two major limitations: (i) they typically emphasize single-hop retrieval or reasoning over a small set of provided contexts rather than open-domain evidence discovery; and (ii) they provide fragmented coverage of cross-modal reasoning paths, leaving complex multi-hop and multi-image reasoning underexplored. In this paper, we introduce CrossModalQA, an open-domain benchmark for evaluating multimodal retrieval and reasoning over heterogeneous corpora. CrossModalQA contains 1,863 question-answer pairs constructed from 4,987 Wikipedia articles and 4,431 Wikimedia Commons images. It covers five complementary reasoning paths: vision-to-text, text-to-vision, vision-to-text-to-vision, multi-image intersection, and image-set reasoning. Every question requires retrieving and composing distributed textual and visual evidence, with an average reasoning depth of 3.50 hops. We construct the benchmark through multimodal knowledge graph-guided subgraph sampling and apply rule-based consistency checking and LLM verification to ensure multimodal dependence and traceable evidence. Extensive experiments demonstrate that existing multimodal RAG systems struggle to recover complete evidence chains and can underperform closed-book models when incomplete retrieval introduces distracting context. Further analysis reveals that complete cross-modal retrieval contributes more to answer accuracy than generator scaling, while multi-image retrieval and reasoning remain the primary bottlenecks limiting end-to-end performance.
https://arxiv.org/abs/2609.05518
Artificial intelligence (AI) and natural language processing (NLP) are increasingly used to extract, integrate, and interpret biomedical knowledge relevant to cancer genomics, yet their translation into routine clinical oncology has been comparatively slow. The central challenge is not computational capability alone, but trustworthy integration into clinical workflows. This review examines how NLP and AI support the cancer genomics pipeline, from literature mining and automated variant interpretation to clinical trial matching, knowledge graph construction, and multimodal data integration. We identify four interrelated translational failure domains: evidence inconsistency, explainability and uncertainty, data governance and reproducibility, and interoperability. Rather than considering these challenges in isolation, we take a systems-level view, focusing on their interaction across the translational pathway. We propose a conceptual framework and roadmap for addressing these domains through rigorous validation, uncertainty-aware methods, interoperable infrastructures, regulatory alignment, and human oversight across the AI lifecycle. Progress toward routine clinical use will depend less on further improving model capability than on systematically addressing these interacting failure domains from development through deployment and post-deployment monitoring.
https://arxiv.org/abs/2608.30912
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.
https://arxiv.org/abs/2608.30652
Path-finding over knowledge graphs has become an effective way to ground LLM reasoning on multi-hop questions. However, biomedical QA introduces two distinct challenges that general-domain methods are not designed for: (i) queries do not expose intermediate reasoning and can be answered through multiple valid pathways, and (ii) biomedical knowledge graphs are densely connected, so path-finding methods easily take wrong turns. To address these challenges, we propose AdaPath, a path-finding framework that retrieves query-adaptive meta-paths from Path-Bank, which captures both query semantics and biomedical knowledge graph structure. AdaPath provides the missing cues in biomedical queries while effectively pruning dense knowledge graph neighborhoods during multi-hop reasoning. We further release BioStrat-QA, a biomedical KGQA benchmark that stratifies multi-hop queries by how much intermediate reasoning they expose. Across biomedical KGQA benchmarks, AdaPath consistently outperforms baselines, sustaining meaningful path-finding even when multi-hop queries expose less surface information. The source code is available at this https URL.
https://arxiv.org/abs/2608.30556
Biomedical artificial intelligence (AI) systems increasingly extract, organize, and reuse scientific claims from literature, clinical trials, and regulatory documents. But automatic extraction alone does not make a claim reliable evidence: a claim becomes useful only when it can be traced to its source, linked to the quantitative details that support it, and read within its biomedical context and uncertainty. This matters as large language models (LLMs) and increasingly autonomous systems drive evidence synthesis, knowledge graph (KG) construction, and decision support. Many text-mining and LLM pipelines remain relation-centric: they capture entities and relations such as Drug--TREATS--Disease, but drop the dose, effect size, population, comparator, uncertainty, and conditions under which a claim holds. Such relations can look actionable yet remain hard to verify, compare, or reuse. In this perspective, we argue for a shift toward quantitative evidence mining---extracting values, units, measured entities and properties, context, uncertainty, provenance, and plausibility as structured evidence units that populate evidence-aware KGs and can be checked for source grounding, unit consistency, completeness, and biological plausibility. We outline a framework for plausibility-aware AI that treats extracted claims not as final answers but as auditable evidence objects, making clear what was measured, how much it changed, in which setting, with what uncertainty, and from which source. The central risk is not only incorrect extraction, but claims that look like evidence while lacking the structure needed to trust them.
https://arxiv.org/abs/2608.30393
Knowledge graph completion requires models to use both textual descriptions and relational structure. Existing LLM-based methods either encode KG structure as discrete tokens or refine a restricted set of candidate entities, and these two directions have largely been studied separately. We propose CoSC for LLM-based KGC, which combines discrete structural coding with similar entity information. Specifically, an LLM generates an initial candidate entity ranking from discrete structural codes, after which information from entities with structures similar to that of the query entity refines the ranking. Experiments on FB15k-237 show that CoSC outperforms existing baselines on MRR and Hits@10 while remaining competitive on Hits@1.
https://arxiv.org/abs/2608.30235
This paper introduces a hybrid fact-checking framework that integrates Knowledge Graph-based semantic memory with adversarial multi-agent reasoning for explainable misinformation detection. The proposed system follows a memory-first, web-fallback architecture, in which input claims are initially evaluated against a dual-index Knowledge Graph through Sentence-BERT-based semantic retrieval and Natural Language Inference. When the evidence retrieved from the graph is insufficient to support a reliable decision, the framework collects information from trusted web sources and assesses it using an adversarial tribunal composed of support, contradiction, and judging agents. A graph-aware confidence mechanism combines semantic similarity, NLI confidence, and structural graph evidence to determine whether internal knowledge is sufficient, thereby reducing unnecessary web retrieval. Following verification, validated information is transformed into structured triples and incorporated into the Knowledge Graph, supporting the incremental expansion of the system's semantic memory. Experimental evaluation on a curated COVID-19 misinformation benchmark demonstrates that the proposed framework achieves an accuracy of 97.4\% and a macro-averaged F1-score of 92.6% on resolved claims, outperforming a Llama~3.3~70B baseline, which obtains an accuracy of 87.7% and a macro-averaged F1-score of 86.3%.
https://arxiv.org/abs/2608.29617
Large language model (LLM) agents need durable, faithful memory of everything a user or organization has said and stored, yet most memory systems commit to a single organizing structure (a fact store, a vector index, or a knowledge graph) and inherit its blind spots. We present Agent Zero Memory, a provenance-aware long-term memory system that distils a user's conversations, files, and connected sources into three parallel memory systems, each capturing a different facet of the same history: an episodic Memory Events timeline that makes when and what changed first-class, an associative entity-event knowledge graph that links people and projects across sessions, and a semantic, curated, citation-locked Hierarchical Documentary Memory (HDM) of durable facts. A retrieval turn runs an intent gate (so self-contained turns add no latency), a source router, and three concurrent agentic searches, one per system, each a tool-using loop over hybrid (embedding + lexical) search under agent-controlled filters; their grounded, cited answers are integrated into one answer with a single confidence. We formalize the reading discipline: every learned item is a provenanced item carrying its origin, timestamp, and evidence pointer, and every answer is read under a citation lock, so it may cite only evidence its reader actually opened; fabrication is structurally excluded and the system abstains rather than guesses. On two public benchmarks the system sets a new state of the art: 95.60% on LongMemEval and 93.60% on LoCoMo, improving over the strongest prior systems by +0.73 and +1.10 points. A controlled study across eight backbone LLMs characterizes the accuracy-cost-latency frontier: accuracy varies by only 3.4 points while per-query cost varies by ~30x, with near-state-of-the-art quality at up to 20x lower cost per query, the signature of memory-driven, rather than model-driven, quality.
https://arxiv.org/abs/2608.29606
The most disruptive step that enterprises of small-medium size and maturity can take to make the most of the latest technological advances in AI is to step back from the hype and focus on establishing or reviving a good knowledge foundation layer. It is a hard message to present to the executive team; therefore, it needs to be backed by evidence, and its implementation needs to be of minimal impact on the existing processes. In this vision statement, we discuss how we need to rethink what evidence speaks to the decision-makers and propose a low-impact data strategy that adapts to the existing and ever-changing data flows and processes across the company. We firmly believe that knowledge graph techniques will increasingly become non-negotiable in the data strategy of an AI-powered enterprise, provided that we approach their design in a modular, dynamic and cross-functional way.
https://arxiv.org/abs/2608.29368
Large Language Models (LLMs) often suffer from hallucination and struggle with complex reasoning tasks requiring multi-hop domain knowledge. While integrating Knowledge Graphs (KGs) provides a structured and verifiable information source, current KG-enhanced LLM paradigms usually rely on single-agent path extraction and fixed prompting, lacking adaptability and facing huge search spaces. To address these challenges, we propose RACER, a Reinforced Agent Collaboration framework for Explainable Reasoning on knowledge graphs. RACER employs a semantic-aware action pruning and teacher-guided reinforcement learning mechanism to efficiently extract high-quality reasoning pathways from large-scale KGs. Furthermore, to mitigate single-path generation pitfalls, we introduce a cross-task accumulated shared memory graph paired with an attention-driven multi-path knowledge refinement module. Finally, RACER orchestrates these components through a four-role multi-agent collaboration system (GraphAgent, TemplateAgent, AnswerAgent, and CriticAgent) to dynamically refine prompts and evaluate answers. Extensive experiments on CommonsenseQA and OpenBookQA datasets demonstrate that RACER significantly outperforms state-of-the-art KG-enhanced LLM baselines with an average improvement of 5\%, offering robust and highly interpretable reasoning capabilities.
https://arxiv.org/abs/2608.29263
The online culinary ecosystem is increasingly populated by recipe content generated, modified, or summarized by Large Language Models (LLMs). While often plausible, such outputs may contain hallucinated ingredients, misrepresented quantities, or culturally implausible combinations, limiting their suitability for downstream applications and knowledge graph construction. In this paper, we present a semi-automated soundness assessment workflow for validating structured recipe data extracted and augmented by LLMs from informal culinary sources. Developed as part of this http URL, a knowledge graph of Indian food, the pipeline identifies and addresses common failure modes, including structural inconsistencies, semantic and logical incoherence, and deviations from the source text, through a multi-stage process combining formal grammars, vocabulary-based checks, statistical heuristics, Set Transformer-based coherence modeling, and retrieval-based verification. Although evaluated on Indian recipes, the proposed methods are applicable to broader multilingual and multicultural culinary domains. We provide a practical, auditable, and application-agnostic framework for validating LLM-augmented recipe data, thereby strengthening the foundations of machine-readable food knowledge infrastructures in the era of LLM-generated content.
https://arxiv.org/abs/2608.29249
Temporal inconsistencies, such as mandates attributed outside their real interval, events presented as past before they occurred, or inverted causal sequences, are a form of political disinformation that evades style-based fake news detectors: a well-written article with a single wrong date carries no lexical signal of falsehood. This paper introduces the Temporal Coherence Score (TCS), a continuous, intrinsically interpretable metric that quantifies the temporal coherence of a news article, computed by a four-stage pipeline: extraction of temporal facts, construction of a temporal knowledge graph, hierarchical verification against internal consistency rules and external reference sources, and score aggregation with automatically generated explanations. Verification combines eight internal checkers derived from Allen's interval algebra with a five-level external hierarchy ranging from a locally stored reference knowledge base of 1{,}256 curated political facts to live Wikidata SPARQL queries. On a benchmark of 100 political news articles with injected temporal errors, the system reaches a precision of 0.909 at the selected operating threshold, with a single residual false positive, a profile deliberately tuned for human-in-the-loop fact-checking assistance, where false alarms are costlier than missed detections. Unlike lexical baselines that output only a binary label, every flagged article is accompanied by the inconsistency type, the entities involved, and the reference source that contradicts the claim.
https://arxiv.org/abs/2608.29175
Learning effective multimodal entity representations is fundamental for reasoning tasks such as multimodal knowledge graph completion (MMKGC). However, existing methods often suffer from semantic over-smoothing within modalities and ineffective noise filtration across modalities, particularly under sparse or ambiguous conditions. To overcome these limitations, we propose PrismF, a unified framework that synergizes multi-perspective enhancement with progressive fusion to extract stronger signals from diverse inputs. PrismF enhances fine-grained intra-modal semantics through a multi-perspective mechanism that decomposes each modality into complementary views and constrains them with a decoupling loss to reduce representation collapse. Furthermore, it improves cross-modal integration through a progressive fusion strategy that dynamically calibrates inter-modal interactions, enabling the model to emphasize informative signals while suppressing noisy or unreliable ones. Extensive experiments on three public benchmarks show that PrismF achieves the strongest overall performance, including relative improvements of 4.04% in MRR and 11.17% in Hits@1 on KVC16K. Our code can be found at this https URL.
https://arxiv.org/abs/2608.29139
Can the specialized architectures that machine learning has traditionally built for structured data be replaced by language-based models? This question is examined through a review of 159 papers (2016--2026) across nine modalities, with predictive accuracy considered alongside structural representation and computation. A distinction is made between performing a task and preserving and computing the structure that makes the task tractable, and existing approaches are organized into eight representational regimes, ranging from language-only systems to fully specialized architectures. Language-mediated models are found to be highly competitive in specific settings, including extreme few-shot prediction, discretized symbolic tasks, textually annotated knowledge graphs, and large-scale single-modality pretraining. However, whenever structural representation or computation is directly evaluated rather than accuracy alone, no evidence of general architectural replacement is found. Instead, a recurring pattern is observed across independent research communities: when language alone is insufficient, the missing structure is reintroduced through a graph module, structural tokens, specialized attention, or another non-linguistic component. In this sense, specialization more often relocates than disappears. Moreover, although performance of language-based models is improved by scaling, whether the gap to a structure-aware architecture can eventually be eliminated remains untested.
https://arxiv.org/abs/2608.28980
Knowledge graphs have been proposed as a structured alternative to flat retrieval-augmented generation for long-term agent memory, on the assumption that representing conversations as entities and relations improves recall. We evaluate that assumption directly. Our framework extracts each conversational turn into typed nodes and attributed edges, answers questions from a two-hop subgraph, and periodically prunes nodes that score low on a weighted combination of recency, access frequency, degree centrality, and age. On LongMemEval, the graph does not outperform a flat vector baseline at a matched candidate-generation budget of five retrieval roots: token F1 is $0.417$ against $0.468$, and a paired bootstrap over 500 questions gives $\Delta = -0.050$ (95\% CI $[-0.085, -0.016]$). The gap is widest on questions that require recalling a specific prior assistant turn, where judged correctness falls from $0.911$ to $0.607$, suggesting that decomposing a turn into entities discards the surface form these questions depend on. The forgetting module is more successful. Applied once to a persistent 27{,}021-node graph, it removes 9.8\% of nodes and 9.5\% of stored bytes; token F1 is unchanged ($+0.001$, 95\% CI $[-0.015, +0.016]$) and judged correctness falls by $1.6$ points, with the 95\% interval bounding any loss at $3.8$ points ($[-0.038, +0.006]$). Because our extractor is a single small model evaluated on one benchmark, these results characterise this extraction-based pipeline rather than graph-structured memory in general. Code: this https URL
https://arxiv.org/abs/2608.28978