Temporal knowledge graph embedding (TKGE) models infer missing facts in knowledge graphs that evolve over time. Many existing models use a single geometric space, which can limit their ability to represent diverse relational patterns, or treat entity representations as static. We propose Biquaternionic Space with Complex-valued Attention (BSCA), a TKGE model that combines circular and hyperbolic rotations within a unified biquaternionic framework. A complex-valued attention mechanism adaptively fuses time-conditioned and relation-conditioned entity representations, allowing them to vary with temporal and relational context. Experiments on five benchmark datasets show competitive performance across datasets, with the largest improvement on GDELT: BSCA achieves an MRR of 52.1\%, compared with 38.1\% for the strongest baseline in our comparison.
https://arxiv.org/abs/2609.14279
Knowledge graphs are increasingly distributed across autonomous organizations that share an entity space but own disjoint subsets of relations, forming a vertical partition. Answering a multi-hop query may require combining facts from several silos, making the partitioning strategy a key data management decision that affects communication, indexing, load balance, and query latency. However, the costs associated with different partitioning strategies remain insufficiently studied. We formalize vertical partitioning as a design space and compare four strategies: semantic domain grouping, frequency-balanced partitioning, co-occurrence graph-cut partitioning, and random partitioning. We evaluate them using five metrics: communication cost, candidate index size, cross-silo path length, load balance, and end-to-end query latency. Three of the five prove to be determined by the graph and the silo count rather than by the partition, which reduces the design problem to two conflicting axes, cross-silo path length and load balance. Experiments on MetaQA and PathQuestion use a fixed federated knowledge graph question-answering architecture based on TransE embeddings and a frozen BERT encoder across three silo configurations. By keeping the learning model unchanged, we isolate the effect of partitioning and show that the trade-off between locality and balance holds only where each silo can hold several relations, weakening as the number of silos increases. The study provides practical guidance for deployments constrained by cross-silo reasoning or by silo load.
https://arxiv.org/abs/2609.13664
Knowledge graph question answering usually assumes that one system can reach the whole graph. In practice, facts are often held by organizations that share entity identifiers but own disjoint relation types, so no single party sees a complete reasoning chain. This poster presents the empirical findings of FedV-KGQA on multi-hop question answering over such vertically partitioned graphs. Each silo enriches its local graph and trains a knowledge graph embedding on its own triples. A server then concatenates the silo-specific entity views, anchors the projected question at the topic entity, and ranks candidates by similarity. Raw triples and relation embeddings never leave a silo. Comparing the FedV-KGQA experiments with one another yields three results. First, federated fusion recovers most of the centralized accuracy, while a single silo recovers little. Second, anchoring and enrichment matter more than the choice of embedding model. Third, the cheapest encoder depends on the target accuracy rather than on parameter count. This poster paper contributes that cross-experiment comparison, four design lessons drawn from it, and an interactive prototype that runs real inference and traces the full pipeline, per question, on released checkpoints.
https://arxiv.org/abs/2609.13661
Retrieval-Augmented Generation (RAG) has empowered Large Language Models (LLMs) to tackle knowledge-intensive tasks. However, navigating global, heterogeneous knowledge bases (large-scale knowledge graphs and text corpora) for complex reasoning remains a challenge. Existing methods typically employ reactive, graph-driven exploration strategies, which blindly follow graph topology without adapting to the question context or evolving exploration progress, and lack deep bidirectional synergy between graph and text. To address these limitations, we propose CoG (Cognition on Graph), a cognitive-inspired, training-free framework for adaptive knowledge exploration. Drawing inspiration from human problem-solving, CoG performs a continuous plan-explore-reflect cycle, where it proactively formulates investigation plans, performs dual-source retrieval, and dynamically reflects on progress to adjust strategies. Crucially, it establishes deep bidirectional synergy between structured graph and unstructured text, where entities extracted from text dynamically guide graph exploration to bridge knowledge gaps. Extensive experiments on seven multi-hop QA benchmarks demonstrate that CoG significantly outperforms state-of-the-art methods while achieving superior exploration efficiency. Our code and datasets are available at this https URL.
https://arxiv.org/abs/2609.12791
Sensitive attributes such as age, income, and occupation can be inferred from user-generated content by aggregating indirect cues across many ordinary posts. LLM-based profilers can perform this aggregation automatically and with high accuracy, which makes large-scale personal attribute inference a major privacy threat. Existing LLM-based profilers, however, offer limited insight into which specific posts, concepts, and relationships made an inference possible, which is key to targeted privacy mitigation, i.e., redacting or rewriting only the few posts that actually leak an attribute, rather than perturbing entire histories. We introduce GraphProfiler, an auditable LLM-based profiler that represents each user's post history as a source-linked personal knowledge graph where nodes and edges trace back to the originating post and resolves attribute predictions to cited graph records and source texts. GraphProfiler reaches 86.7% attack success rate on the eight-attribute SynthPAI benchmark, within two points of strong text-only baselines, and 84.6% on PANDORA, while citing supporting evidence for over 98% of predictions. Our controlled ablation experiments provide evidence that the cited posts contribute to attack success, as removing them reduces the attack success rate substantially more than removing an equal number of random posts.
https://arxiv.org/abs/2609.12448
Graph-RAG systems often assume pristine data quality, overlooking the severe impact of perturbations in cloud-native databases. This paper proposes a three-layer decoupled diagnostic framework to orthogonally attribute system errors to reasoning loss, Knowledge Graph (KG) defects, and Cypher generation errors. Evaluated on a spatio-temporal ecological KG of the Southeastern Tibet region with eight defect types, results reveal that data integrity, rather than algorithmic reasoning, is the dominant performance bottleneck, with structural defects degrading system accuracy from 0.93 to 0.39. Crucially, we observe a masking-like phenomenon termed the Parametric Knowledge Masking Effect (PKME), suggesting LLMs compensate for broken retrieval paths using internal memory. This shrinks apparent query generation errors by over 70 percent, obscuring actual storage deterioration and increasing the risk of false negatives for automated monitoring. This work provides a quantitative foundation for auditing and optimizing data integrity in cloud-based information fusion systems.
https://arxiv.org/abs/2609.13324
Large language models (LLMs) can generate biomedical hypotheses, but it remains unclear whether they truly reason from scientific evidence or simply produce convincing-sounding ideas. To study this, we combine three major biological databases: the Kyoto Encyclopedia of Genes and Genomes (KEGG), Rhea, and UniProt, into a unified biochemical knowledge graph and construct a benchmark of 550 paths connecting enzyme sources to rare disease endpoints, yielding 13,200 hypotheses from six LLMs under four conditions varying the biological information each model receives: source enzyme only, full biological path, or source and disease endpoint only. Hypotheses are scored using an expert-derived five-criterion rubric on a 1-5 scale per criterion. We find that models given both the source and disease endpoint often produce the highest-scoring hypotheses, showing that LLMs can generate compelling ideas from minimal information. However, these hypotheses are less grounded in the evidence. In contrast, models given the full biological path generate hypotheses more consistent with known mechanistic relationships. We call this evidence-disciplined reasoning. To confirm this effect, we shuffled intermediate path steps while keeping endpoints fixed. Evidence grounding dropped significantly (delta = -0.793, p < 0.001), confirming models genuinely used path structure during reasoning. Our findings show that knowledge graphs support hypothesis generation in two ways: they identify biological endpoint pairs absent from the literature, and their mechanistic paths guide how LLMs reason between them.
https://arxiv.org/abs/2609.12260
Question-answering often requires reasoning across multiple connected facts rather than retrieving a single isolated relation. Knowledge graphs (KGs) provide a structured way to represent such facts, but training large language models (LLMs) only on isolated KG head-relation-tail triples may limit their ability to learn the surrounding context needed for multi-hop reasoning. In this work, we propose a context-augmented training framework for multi-hop question-answering. Although generally applicable, we validate the framework in the context of disease-specific KGs, extracted using a reliable KG extraction framework called GraphMERT, for Gastroparesis and Diabetes. For each primary KG triple, we attach supporting triples extracted from the same source text chunk to form a context graph (CG). This creates two supervision settings: KG-grounded supervision, which uses only the target KG triple or path, and CG-grounded supervision, which uses the target KG triple or path together with supporting context triples. We train the Qwen3-14B model using supervised fine-tuning (SFT) under both settings, producing KGModel and CGModel variants. To strengthen the lower-hop factual foundation of the models, we introduce an LLM-judged, history-aware adaptive repair pipeline that identifies unresolved one-hop failures, continually fine-tunes on targeted repair examples, and removes or quarantines problematic noisy triples. This repair stage enables the models to reach 100% accuracy on the cleaned retained one-hop validation sets. Finally, we employ reinforcement learning (RL) using lower-hop question-answer items and evaluate generalization on harder 3-hop, 4-hop, and 5-hop tasks. Across both diseases, context-augmented supervision consistently improves multi-hop performance over KG-only supervision. RL initialized from repaired SFT checkpoints yields larger and more stable gains.
https://arxiv.org/abs/2609.12230
This paper details the Eloquence team's approach to Task 2 of the 2nd MLC-SLM challenge at Interspeech 2026, which involves multilingual Multiple-Choice Question Answering (MCQA) across 21 languages. Three approaches are explored. First, we fine-tune Voxtral-Mini-3B via LoRA with cross-lingual data augmentation, ASR transcript augmentation and timestamp-aware audio cropping, achieving 0.72 macro-accuracy on evaluation Phase 2. Second, we apply multimodal in-context learning (ICL) to the frozen Voxtral-24B model to correct a strong label bias, reaching 0.81, our best result. Third, a training-free retrieval system based on a three-layer voice-anchored memory combining acoustic identity, semantic content, and a knowledge graph achieves 0.68. All three systems substantially outperform the official baseline.
https://arxiv.org/abs/2609.11724
Harvard Dataverse hosts over 150,000 research datasets, but the geographic information those datasets carry is entered as free text by depositors and has never been assembled into a searchable structure. We construct a knowledge graph from the repository's public data and metadata, organizing 102,650 datasets within a 215,985-node network of 528,003 edges linking datasets to keywords, publications, subjects, journals, and locations. Of those datasets, 43,991 (42.9 percent) carry at least one geospatial field, geographic coverage, geographic unit, or a bounding box and 96.9 percent of all nodes sit in a single connected component, so datasets remain reachable from one another even when their geospatial metadata share nothing in common. A conservative keyword search identifies 7,654 geospatially tagged datasets (17.4 percent) as directly policy-relevant, with elections and legislatures the largest cluster, followed by government administration, health policy, transportation, and education. Five datasets illustrate how this metadata behaves across policy domains and spatial scales, and an extended use case shows how community language models, stance detection with geographic aggregation, and partisan language bridging tools can attach discourse to place. The central obstacle is place resolution: the same location appears as many disconnected nodes. We argue that the graph provides a concrete setting for developing AI-driven metadata enrichment and entity resolution, and we document its coverage skew toward American, city-level data.
https://arxiv.org/abs/2609.11674
We present EXYGEN (EXplore Your Graphs ENgine), a framework for knowledge graph (KG) understanding that enables conversational access to KGs at scale. We address two questions in sequence. First, how effectively can LLMs perform text-to-SPARQL generation given only automatically derived structured metadata and small graph samples, rather than task-specific fine-tuning? We integrate VoID descriptions and ShEx schemas into a retrieval-augmented generation (RAG) pipeline and ablate KG-derived context on the SciQA benchmark. Our best configuration -- combining ShEx schemas, retrieved triples, and example question-query pairs -- reaches an exact match of 0.419 on execution results without any LLM fine-tuning. We further find that lexical metrics such as F1 poorly predict query correctness, and that larger general-purpose LLMs can outperform smaller code-specialized ones once given sufficient context. Second, we ask how to generate the structured metadata that this method relies on from very large KGs, where KG metadata generation becomes computationally intractable. We introduce a predicate-coverage-aware parallel graph sampling strategy that preserves structural diversity while remaining computationally tractable. On OpenCitations Meta and GESIS, it retains high predicate coverage with minimal triple loss and reduces runtime by over 80x; on ORKG, sampling is not just faster but the only tractable path to obtain complete metadata. Together, these results show that structured schema context and lightweight prompting can substantially reduce reliance on fine-tuning for scalable conversational access to KGs, though closing the remaining gap to fully fine-tuned approaches will likely require reducing dependence on curated question-query exemplars -- whether through synthetic generation or an execution-feedback-driven approach -- and validating these findings beyond a single benchmark.
https://arxiv.org/abs/2609.11569
Chemistry, Manufacturing and Controls (CMC) process development generates an enormous body of technical information across a multi-stage, knowledge-intensive continuum from drug discovery to commercial manufacturing. This knowledge is traditionally fragmented across functions and heterogeneous formats, causing traceability gaps and significant knowledge-management costs during technology transfer and regulatory filing. We present a modular agentic-AI platform that converts a heterogeneous corpus of process-development documents into a queryable, dual-layer knowledge graph. A base knowledge layer builds a lexical graph with a Document-Section-Chunk hierarchy through lossless ingestion of digital, scanned, handwritten, and multilingual documents, while an intelligence layer extracts ontology-aligned entities and bridges cross-document concepts through a provenance-anchored domain graph. LLM agents operate across both layers, selecting the retrieval path best suited to each question. We evaluate the lexical layer with a novel three-tier protocol measuring the deployment-fidelity of a retrieval-augmented generation (RAG) system on proprietary data, demonstrated on 505 questions curated from 38 development reports of a Sanofi small-molecule program. Tier-1 multiple-choice accuracy of 95% signals strong platform reliability; the stricter Tier-2 LLM-judge pass rate of 85%, which degrades on comparative and corpus-wide questions, reveals a failure taxonomy that Tier-1 accuracy alone fails to capture. A router agent selects between layers according to question type. We anticipate this protocol will enable future designers of agentic platforms to assess their systems against nonpublic databases, and that graph-based architectures will see broader adoption in pharma as a means of transforming fragmented document repositories into structured process intelligence.
https://arxiv.org/abs/2609.11493
Cultural-heritage KGs such as the NFDI4Culture-KG contain millions of triples about artworks, music, inscriptions, historical events, and the people and places connected to them. For many users, however, discovering this knowledge can be difficult. While SPARQL can be learned, writing meaningful queries first requires an in-depth understanding of the graph's data model, an investment many domain researchers and practitioners are unwilling to make. Even with existing user interfaces, a starting point and some guidance are usually needed, because the data contained in the graph is highly specialized, heterogeneous, and constantly growing, making it challenging to know what it contains or which questions it can answer. In this paper, we present data stories as a way not only to lower this barrier, but also to turn exploration into data-quality assessment, and thus combine accessible querying with the discovery of issues that remain hidden in aggregate statistics. In this contribution, a data story is understood as a narrative document that integrates explanatory text and images with executable SPARQL queries and their visualized results. It is described how they are authored against the graph and how they serve several purposes: guiding users through an unfamiliar graph, creating reproducible narratives, and surfacing data-quality issues previously hidden in aggregate statistics. The authoring platform LODEON including its Sparnatural and AI-supported authoring assistants is introduced as a proof-of-concept. Within the authoring environment, every claim made about the data can be backed by an explicit query, making these narratives transparent and reproducible. This paper also reflects on lessons learned from hands-on seminars and workshops. Early experience suggests that such data stories make cultural-heritage knowledge graphs more accessible for both exploration and quality assessment.
https://arxiv.org/abs/2609.11403
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.
https://arxiv.org/abs/2609.11347
Temporal graph counterfactual explanations typically change past events to change or invalidate an original prediction, while leaving its replacement unspecified. Yet a user facing a predicted outcome often asks which past conditions would make a particular alternative occur instead. We formulate this destination-specific question as the Specified-Foil Counterfactual: given an original prediction A and a foil B fixed before search, find a low-cost past-event intervention under which the same predictor selects B as top-ranked. Our trace-guided intervention search contrasts the completed execution of A with a reconstructed incomplete execution of B, maps their difference to DELETE, INSERT, REWIRE, RELABEL, and SHIFT operations, and verifies B through exact replay. We instantiate this principle with LiFTER on continuous-time dynamic graphs and TLogic on temporal knowledge graphs. On CTDGs, the method retains 85.7-93.6% of black-box greedy successes while reducing predictor evaluations by 75.0-80.0%; on TKGs, it reaches the specified foil in 74.8% of 600 comparisons. Executable traces thereby become computational structures for constructing conditions of unselected alternatives, rather than records used only to explain predictions already made.
https://arxiv.org/abs/2609.11170
Background: Emergency Department (ED) return visits are commonly reviewed for quality assurance, but are often limited (e.g., to revisits within 48-72 hours) to increase actionable finding yield while minimizing chart review burden. Those limitations may lead to missed quality improvement opportunities. Methods: We conducted an exploratory, retrospective study of randomly selected ED visits to a multihospital health system having an ED revisit within 1-14 days to the same health system. Given only each visit's primary diagnosis, raters (2-3 clinicians and GPT-4 large language model [LLM]) assessed characteristics of the diagnosis pairs, including the "target": whether a pair warranted further assessment. Informed by rater response analyses, an algorithm leveraging an LLM-populated knowledge graph ("KGA") was created to automatically screen for potentially concerning pairs, then preliminarily assessed. Results: 99 diagnosis pairs were included. GPT-4 responses poorly correlated to clinician raters, rating nearly all (94%) pairs as warranting follow-up (4.4-13.3 times more than clinicians). However, prompt engineering was minimal. Among clinician raters, revisit medical gravity was consistently significantly associated with the target, while a differential diagnosis/complication composite was significantly associated on unadjusted, but not adjusted (though less powered) analysis. The KGA achieved 83-100% positive predictive value for at least one clinician rater determining further assessment was warranted based on the diagnosis pair. Conclusion: These results can inform next steps for improving screening with LLMs like ChatGPT. Further research is warranted to validate this preliminary work's finding that the KGA may enable enhancing the scope and yield of screening without substantially increasing reviewer workload.
https://arxiv.org/abs/2609.10421
A graph retrieval-augmented generation pipeline chooses which triples to put in the prompt, a syntax to write them in, an order to write them in, and a sentence telling the model what to do with them. We vary all four over six large language models and two knowledge-graph question answering benchmarks. Two of the four choices move the answer and the other two are flat. The first is whether the answer path, the triples needed to reach the answer, is in the prompt at all. Holding the number of triples fixed and replacing every triple that is not on the chain with material from an unrelated entity changes answer accuracy by +0.003 F1, while removing the chain costs most of what the graph was worth. Retrieval budget belongs on recall, and precision in the range we can test buys nothing. There is no retriever here: subgraphs come from gold SPARQL, so precision describes the context we build, not a system setting. The second is the grounding instruction. With no facts in the prompt, telling a model to answer using only the provided facts drops F1 from 0.299 to 0.035, a factor of 8.63. That figure describes an evaluation with an empty context arm rather than a working pipeline, and an experiment that applies the instruction to its context arm but not to its no-context baseline manufactures a spurious finding that graph context hurts at depth. We found one in our own results and retract it. Syntax, triple order and subgraph size produce no effect we can measure at multi-hop depth. The comparison that would price the grounding instruction against correct context is not measurable with a format-sensitive scorer, because the instruction determines the response format; we report it as an open contrast rather than a number.
https://arxiv.org/abs/2609.10237
As Digital Twin (DT) systems evolve beyond state synchronization toward task-oriented and knowledge-driven operation, Cognitive Digital Twins (CDTs) have emerged as an extension that incorporates cognitive capabilities into twin operation. Existing CDT studies often focus on specific enabling techniques, such as learning modules, knowledge graphs, and large language models, while providing limited insight into how cognition can be systematically integrated into DT architectures. To address this issue, this paper proposes a four-layer CDT architecture consisting of the physical layer, digital-twin layer, cognitive layer, and task layer. The proposed architecture establishes a self-evolving closed operational loop spanning these four layers, in which physical states are synchronized into digital representations, cognition constructs task-specific cognitive models through knowledge, memory, and attention, and task-level decisions are generated under practical constraints. Operational feedback further refines cognitive experience and updates relationships and annotations in the digital representation, enabling subsequent task interpretation, initiation, and reasoning to evolve with system operation. Based on this framework, two representative operation modes are characterized: user-request-driven cognition and self-driven cognition. We further discuss key enabling mechanisms and deployment challenges associated with semantic communication, knowledge querying, task orchestration, and closed-loop synchronization. A lightweight simulation study illustrates reliable closed-loop task feasibility under limited semantic information and improved operational efficiency through accumulated task experience. The proposed framework provides a structured foundation for the design and development of future CDT systems.
https://arxiv.org/abs/2609.09625
Large language models are increasingly deployed as agents that plan over long horizons and act through external tools. Most agents select actions through unconstrained generation over an accumulating history, leaving implicit the procedural knowledge of what to do, in what order, and under which conditions. As trajectories lengthen, agents can lose track of their objectives, invoke tools out of order, and repeat unproductive actions. We introduce the Procedural Graph: just as a knowledge graph organizes factual knowledge into (entity, relation, entity) triplets for what-is questions, a Procedural Graph organizes procedural knowledge into (procedure, relation, procedure) triplets for what-to-do questions. At each decision step, the framework localizes the agent's active node, and a guidance model translates the surrounding subgraph into step-level situational guidance that biases the solver's next action without dictating it. The graph is self-evolving: an LLM refiner contrasts failed trajectories with successful ones and edits the graph's topology and attributes, committing edits that preserve or improve held-out validation performance while retaining rejected ones to discourage repetition. Starting from a minimal skeleton, the loop builds graphs that match or surpass hand-designed ones. It can also repair a flawed expert prior. Across multiple datasets, task types, and LLMs, the Procedural Graph delivers consistent gains over memory-based baselines, and self-evolution further improves performance without manual engineering.
https://arxiv.org/abs/2609.09153
Analysts in emerging equity markets keep answering the same questions. Did fundamentals match the market's response? How does the local currency co-move with returns? Which firms outperform sector and benchmark, and which disclosures coincide with abnormal trading? These answers come from ad-hoc spreadsheets that are hard to reproduce, audit, or trust. We present OntoKG-EQ, a knowledge-based system that makes such queries reproducible, evidence-linked, temporally explicit, valid, and inspectable. It couples a bounded, competency-question-governed core ontology with a provenance-aware knowledge graph in which every class, property, shape, and metric is justified by one of five frozen questions. The system materialises market data into the graph, computes the metrics, validates its structure against declarative shape constraints, answers each competency question with a graph query, derives typed findings, and generates an explanation tracing each result to its observations, evidence, sources, and provenance. We evaluate on curated datasets from three emerging markets (Pakistan, Malaysia, Indonesia). Once each market's data is mapped into the common schema, the ontology, shapes, queries, and rules are reused unchanged. A relational-database baseline shows the graph changes no analytics. Its value is governance, provenance, and self-explaining structure. Because answers are rendered deterministically from the validated graph, their consistency with it is guaranteed by construction. Used as a reference, the system measures how consistently eight open language models transcribe the same evidence (provenance coverage 0.00 to 1.00). A study with a 17-participant convenience panel finds the evidence bundle significantly increased perceived trust and completeness. Code and data are openly released.
https://arxiv.org/abs/2609.08869