arXiv:2511.14256v1 Announce Type: new Abstract: Knowledge graph reasoning (KGR) is the task of inferring new knowledge by performing logical deductions on knowledge graphs. Recently, large language models (LLMs) have demonstrated remarkable performance in complex reasoning tasks. Despite promising success, current LLM-based KGR methods still face two critical limitations. First, existing methods often extract reasoning paths indiscriminately, without assessing their different importance, which may introduce irrelevant noise that misleads LLMs. Second, while many methods leverage LLMs to dynamically explore potential reasoning paths, they require high retrieval demands and frequent LLM calls. To address these limitations, we propose PathMind, a novel framework designed to enhance faithful and interpretable reasoning by selectively guiding LLMs with important reasoning paths. Specifically, PathMind follows a "Retrieve-Prioritize-Reason" paradigm. First, it retrieves a query subgraph from KG through the retrieval module. Next, it introduces a path prioritization mechanism that identifies important reasoning paths using a semantic-aware path priority function, which simultaneously considers the accumulative cost and the estimated future cost for reaching the target. Finally, PathMind generates accurate and logically consistent responses via a dual-phase training strategy, including task-specific instruction tuning and path-wise preference alignment. Extensive experiments on benchmark datasets demonstrate that PathMind consistently outperforms competitive baselines, particularly on complex reasoning tasks with fewer input tokens, by identifying essential reasoning paths.

arXiv:2511.14112v1 Announce Type: cross Abstract: Automatic ICD coding from clinical text is a critical task in medical NLP but remains hindered by the extreme long-tail distribution of diagnostic codes. Thousands of rare and zero-shot ICD codes are severely underrepresented in datasets like MIMIC-III, leading to low macro-F1 scores. In this work, we propose a data-centric framework that generates high-quality synthetic discharge summaries to mitigate this imbalance. Our method constructs realistic multi-label code sets anchored on rare codes by leveraging real-world co-occurrence patterns, ICD descriptions, synonyms, taxonomy, and similar clinical notes. Using these structured prompts, we generate 90,000 synthetic notes covering 7,902 ICD codes, significantly expanding the training distribution. We fine-tune two state-of-the-art transformer-based models, PLM-ICD and GKI-ICD, on both the original and extended datasets. Experiments show that our approach modestly improves macro-F1 while maintaining strong micro-F1, outperforming prior SOTA. While the gain may seem marginal relative to the computational cost, our results demonstrate that carefully crafted synthetic data can enhance equity in long-tail ICD code prediction.

arXiv:2511.14445v1 Announce Type: cross Abstract: We present Tell Me, a mental well-being system that leverages advances in large language models to provide accessible, context-aware support for users and researchers. The system integrates three components: (i) a retrieval-augmented generation (RAG) assistant for personalized, knowledge-grounded dialogue; (ii) a synthetic client-therapist dialogue generator conditioned on client profiles to facilitate research on therapeutic language and data augmentation; and (iii) a Well-being AI crew, implemented with CrewAI, that produces weekly self-care plans and guided meditation audio. The system is designed as a reflective space for emotional processing rather than a substitute for professional therapy. It illustrates how conversational assistants can lower barriers to support, complement existing care, and broaden access to mental health resources. To address the shortage of confidential therapeutic data, we introduce synthetic client-therapist dialogue generation conditioned on client profiles. Finally, the planner demonstrates an innovative agentic workflow for dynamically adaptive, personalized self-care, bridging the limitations of static well-being tools. We describe the architecture, demonstrate its functionalities, and report evaluation of the RAG assistant in curated well-being scenarios using both automatic LLM-based judgments and a human-user study. This work highlights opportunities for interdisciplinary collaboration between NLP researchers and mental health professionals to advance responsible innovation in human-AI interaction for well-being.

Nature, Published online: 18 November 2025; doi:10.1038/d41586-025-03718-w

A thorough examination of artificial intelligence’s promise in politics rests on a thorny premise: democracy is an information system.

arXiv:2407.04055v2 Announce Type: replace-cross Abstract: The prediction modeling of drug-target interactions is crucial to drug discovery and design, which has seen rapid advancements owing to deep learning technologies. Recently developed methods, such as those based on graph neural networks (GNNs) and Transformers, demonstrate exceptional performance across various datasets by effectively extracting structural information. However, the benchmarking of these novel methods often varies significantly in terms of hyperparameter settings and datasets, which limits algorithmic progress. In view of these, we conducted a comprehensive survey and benchmark for drug-target interaction modeling from a structural perspective via integrating tens of explicit (i.e., GNN-based) and implicit (i.e., Transformer-based) structure learning algorithms. We conducted a macroscopical comparison between these two classes of encoding strategies as well as the different featurization techniques that inform molecules' chemical and physical properties. We then carry out the microscopical comparison between all the integrated models across the six datasets via comprehensively benchmarking their effectiveness and efficiency. To ensure fairness, we investigate model performance under individually optimized configuration. Remarkably, the summarized insights from the benchmark studies lead to the design of model combos. We demonstrate that our combos can achieve new state-of-the-art performance on various datasets associated with cost-effective memory and computation.

Oncogenesis, Published online: 18 November 2025; doi:10.1038/s41389-025-00585-y

Sphingosine 1-phosphate signalling in cancer stem cells

arXiv:2506.09095v4 Announce Type: replace-cross Abstract: Foundation models (FMs) are changing the way medical images are analyzed by learning from large collections of unlabeled data. Instead of relying on manually annotated examples, FMs are pre-trained to learn general-purpose visual features that can later be adapted to specific clinical tasks with little additional supervision. In this review, we examine how FMs are being developed and applied in pathology, radiology, and ophthalmology, drawing on evidence from over 150 studies. We explain the core components of FM pipelines, including model architectures, self-supervised learning methods, and strategies for downstream adaptation. We also review how FMs are being used in each imaging domain and compare design choices across applications. Finally, we discuss key challenges and open questions to guide future research.

npj Digital Medicine, Published online: 18 November 2025; doi:10.1038/s41746-025-02066-3

Reply to: Utilizing foundation models for developing clinical tools

arXiv:2511.11587v2 Announce Type: replace-cross Abstract: Globally, disparities in healthcare infrastructure remain stark, leaving countless communities without access to even basic services. Traditional infrastructure planning is often slow and inaccessible, and although many architects are actively delivering humanitarian and aid-driven hospital projects worldwide, these vital efforts still fall far short of the sheer scale and urgency of demand. This paper introduces MedBuild AI, a hybrid-intelligence framework that integrates large language models (LLMs) with deterministic expert systems to rebalance the early design and conceptual planning stages. As a web-based platform, it enables any region with satellite internet access to obtain guidance on modular, low-tech, low-cost medical building designs. The system operates through three agents: the first gathers local health intelligence via conversational interaction; the second translates this input into an architectural functional program through rule-based computation; and the third generates layouts and 3D models. By embedding computational negotiation into the design process, MedBuild AI fosters a reciprocal, inclusive, and equitable approach to healthcare planning, empowering communities and redefining agency in global healthcare architecture.

npj Digital Medicine, Published online: 18 November 2025; doi:10.1038/s41746-025-02042-x

Large language models driven neural architecture search for universal and lightweight disease diagnosis on histopathology slide images

arXiv:2511.11597v1 Announce Type: new Abstract: Evaluating how Large Language Models (LLMs) handle complex, specialized knowledge remains a critical challenge. We address this through the lens of climate change by introducing CLINB, a benchmark that assesses models on open-ended, grounded, multimodal question answering tasks with clear requirements for knowledge quality and evidential support. CLINB relies on a dataset of real users' questions and evaluation rubrics curated by leading climate scientists. We implement and validate a model-based evaluation process and evaluate several frontier models. Our findings reveal a critical dichotomy. Frontier models demonstrate remarkable knowledge synthesis capabilities, often exhibiting PhD-level understanding and presentation quality. They outperform "hybrid" answers curated by domain experts assisted by weaker models. However, this performance is countered by failures in grounding. The quality of evidence varies, with substantial hallucination rates for references and images. We argue that bridging this gap between knowledge synthesis and verifiable attribution is essential for the deployment of AI in scientific workflows and that reliable, interpretable benchmarks like CLINB are needed to progress towards building trustworthy AI systems.

arXiv:2511.11899v1 Announce Type: new Abstract: Fine-grained analysis of intraoperative behavior and its impact on patient outcomes remain a longstanding challenge. We present Frame-to-Outcome (F2O), an end-to-end system that translates tissue dissection videos into gesture sequences and uncovers patterns associated with postoperative outcomes. Leveraging transformer-based spatial and temporal modeling and frame-wise classification, F2O robustly detects consecutive short (~2 seconds) gestures in the nerve-sparing step of robot-assisted radical prostatectomy (AUC: 0.80 frame-level; 0.81 video-level). F2O-derived features (gesture frequency, duration, and transitions) predicted postoperative outcomes with accuracy comparable to human annotations (0.79 vs. 0.75; overlapping 95% CI). Across 25 shared features, effect size directions were concordant with small differences (~ 0.07), and strong correlation (r = 0.96, p

arXiv:2511.12239v1 Announce Type: new Abstract: World models have garnered substantial interest in the AI community. These are internal representations that simulate aspects of the external world, track entities and states, capture causal relationships, and enable prediction of consequences. This contrasts with representations based solely on statistical correlations. A key motivation behind this research direction is that humans possess such mental world models, and finding evidence of similar representations in AI models might indicate that these models "understand" the world in a human-like way. In this paper, we use case studies from the philosophy of science literature to critically examine whether the world model framework adequately characterizes human-level understanding. We focus on specific philosophical analyses where the distinction between world model capabilities and human understanding is most pronounced. While these represent particular views of understanding rather than universal definitions, they help us explore the limits of world models.

arXiv:2511.12306v1 Announce Type: new Abstract: As large language model (LLM) agents increasingly undertake digital work, reliable frameworks are needed to evaluate their real-world competence, adaptability, and capacity for human collaboration. Existing benchmarks remain largely static, synthetic, or domain-limited, providing limited insight into how agents perform in dynamic, economically meaningful environments. We introduce UpBench, a dynamically evolving benchmark grounded in real jobs drawn from the global Upwork labor marketplace. Each task corresponds to a verified client transaction, anchoring evaluation in genuine work activity and financial outcomes. UpBench employs a rubric-based evaluation framework, in which expert freelancers decompose each job into detailed, verifiable acceptance criteria and assess AI submissions with per-criterion feedback. This structure enables fine-grained analysis of model strengths, weaknesses, and instruction-following fidelity beyond binary pass/fail metrics. Human expertise is integrated throughout the data pipeline (from job curation and rubric construction to evaluation) ensuring fidelity to real professional standards and supporting research on human-AI collaboration. By regularly refreshing tasks to reflect the evolving nature of online work, UpBench provides a scalable, human-centered foundation for evaluating agentic systems in authentic labor-market contexts, offering a path toward a collaborative framework, where AI amplifies human capability through partnership rather than replacement.

arXiv:2511.12378v1 Announce Type: new Abstract: Autonomous agents operating in sequential decision-making tasks under uncertainty can benefit from external action suggestions, which provide valuable guidance but inherently vary in reliability. Existing methods for incorporating such advice typically assume static and known suggester quality parameters, limiting practical deployment. We introduce a framework that dynamically learns and adapts to varying suggester reliability in partially observable environments. First, we integrate suggester quality directly into the agent's belief representation, enabling agents to infer and adjust their reliance on suggestions through Bayesian inference over suggester types. Second, we introduce an explicit ``ask'' action allowing agents to strategically request suggestions at critical moments, balancing informational gains against acquisition costs. Experimental evaluation demonstrates robust performance across varying suggester qualities, adaptation to changing reliability, and strategic management of suggestion requests. This work provides a foundation for adaptive human-agent collaboration by addressing suggestion uncertainty in uncertain environments.

arXiv:2511.12439v1 Announce Type: new Abstract: Online health resources and large language models (LLMs) are increasingly used as a first point of contact for medical decision-making, yet their reliability in healthcare remains limited by low accuracy, lack of transparency, and susceptibility to unverified information. We introduce a proof-of-concept conversational self-triage system that guides LLMs with 100 clinically validated flowcharts from the American Medical Association, providing a structured and auditable framework for patient decision support. The system leverages a multi-agent framework consisting of a retrieval agent, a decision agent, and a chat agent to identify the most relevant flowchart, interpret patient responses, and deliver personalized, patient-friendly recommendations, respectively. Performance was evaluated at scale using synthetic datasets of simulated conversations. The system achieved 95.29% top-3 accuracy in flowchart retrieval (N=2,000) and 99.10% accuracy in flowchart navigation across varied conversational styles and conditions (N=37,200). By combining the flexibility of free-text interaction with the rigor of standardized clinical protocols, this approach demonstrates the feasibility of transparent, accurate, and generalizable AI-assisted self-triage, with potential to support informed patient decision-making while improving healthcare resource utilization.

arXiv:2511.12916v1 Announce Type: new Abstract: Power grid fault diagnosis is a critical process hindered by its reliance on manual, error-prone methods. Technicians must manually extract reasoning logic from dense regulations and attempt to combine it with tacit expert knowledge, which is inefficient, error-prone, and lacks maintainability as ragulations are updated and experience evolves. While Large Language Models (LLMs) have shown promise in parsing unstructured text, no existing framework integrates these two disparate knowledge sources into a single, verified, and executable workflow. To bridge this gap, we propose Fault2Flow, an LLM-based multi-agent system. Fault2Flow systematically: (1) extracts and structures regulatory logic into PASTA-formatted fault trees; (2) integrates expert knowledge via a human-in-the-loop interface for verification; (3) optimizes the reasoning logic using a novel AlphaEvolve module; and (4) synthesizes the final, verified logic into an n8n-executable workflow. Experimental validation on transformer fault diagnosis datasets confirms 100\% topological consistency and high semantic fidelity. Fault2Flow establishes a reproducible path from fault analysis to operational automation, substantially reducing expert workload.

arXiv:2511.13137v1 Announce Type: new Abstract: Task decomposition has shown promise in complex cooperative multi-agent reinforcement learning (MARL) tasks, which enables efficient hierarchical learning for long-horizon tasks in dynamic and uncertain environments. However, learning dynamic task decomposition from scratch generally requires a large number of training samples, especially exploring the large joint action space under partial observability. In this paper, we present the Conditional Diffusion Model for Dynamic Task Decomposition (C$\text{D}^\text{3}$T), a novel two-level hierarchical MARL framework designed to automatically infer subtask and coordination patterns. The high-level policy learns subtask representation to generate a subtask selection strategy based on subtask effects. To capture the effects of subtasks on the environment, C$\text{D}^\text{3}$T predicts the next observation and reward using a conditional diffusion model. At the low level, agents collaboratively learn and share specialized skills within their assigned subtasks. Moreover, the learned subtask representation is also used as additional semantic information in a multi-head attention mixing network to enhance value decomposition and provide an efficient reasoning bridge between individual and joint value functions. Experimental results on various benchmarks demonstrate that C$\text{D}^\text{3}$T achieves better performance than existing baselines.

arXiv:2511.13290v1 Announce Type: new Abstract: Humans display significant uncertainty when confronted with moral dilemmas, yet the extent of such uncertainty in machines and AI agents remains underexplored. Recent studies have confirmed the overly confident tendencies of machine-generated responses, particularly in large language models (LLMs). As these systems are increasingly embedded in ethical decision-making scenarios, it is important to understand their moral reasoning and the inherent uncertainties in building reliable AI systems. This work examines how uncertainty influences moral decisions in the classical trolley problem, analyzing responses from 32 open-source models and 9 distinct moral dimensions. We first find that variance in model confidence is greater across models than within moral dimensions, suggesting that moral uncertainty is predominantly shaped by model architecture and training method. To quantify uncertainty, we measure binary entropy as a linear combination of total entropy, conditional entropy, and mutual information. To examine its effects, we introduce stochasticity into models via "dropout" at inference time. Our findings show that our mechanism increases total entropy, mainly through a rise in mutual information, while conditional entropy remains largely unchanged. Moreover, this mechanism significantly improves human-LLM moral alignment, with correlations in mutual information and alignment score shifts. Our results highlight the potential to better align model-generated decisions and human preferences by deliberately modulating uncertainty and reducing LLMs' confidence in morally complex scenarios.

arXiv:2511.13293v1 Announce Type: new Abstract: Accurate healthcare prediction is critical for improving patient outcomes and reducing operational costs. Bolstered by growing reasoning capabilities, large language models (LLMs) offer a promising path to enhance healthcare predictions by drawing on their rich parametric knowledge. However, LLMs are prone to factual inaccuracies due to limitations in the reliability and coverage of their embedded knowledge. While retrieval-augmented generation (RAG) frameworks, such as GraphRAG and its variants, have been proposed to mitigate these issues by incorporating external knowledge, they face two key challenges in the healthcare scenario: (1) identifying the clinical necessity to activate the retrieval mechanism, and (2) achieving synergy between the retriever and the generator to craft contextually appropriate retrievals. To address these challenges, we propose GHAR, a \underline{g}enerative \underline{h}ierarchical \underline{a}gentic \underline{R}AG framework that simultaneously resolves when to retrieve and how to optimize the collaboration between submodules in healthcare. Specifically, for the first challenge, we design a dual-agent architecture comprising Agent-Top and Agent-Low. Agent-Top acts as the primary physician, iteratively deciding whether to rely on parametric knowledge or to initiate retrieval, while Agent-Low acts as the consulting service, summarising all task-relevant knowledge once retrieval was triggered. To tackle the second challenge, we innovatively unify the optimization of both agents within a formal Markov Decision Process, designing diverse rewards to align their shared goal of accurate prediction while preserving their distinct roles. Extensive experiments on three benchmark datasets across three popular tasks demonstrate our superiority over state-of-the-art baselines, highlighting the potential of hierarchical agentic RAG in advancing healthcare systems.