The application of machine learning on healthcare data is often hindered by the lack of standardized and semantically explicit representation, leading to limited interoperability and reproducibility across datasets and experiments. The Medical Event Data Standard (MEDS) addresses these issues by introducing a minimal, event-centric data model designed for reproducible machine-learning workflows from health data. However, MEDS is defined as a data-format specification and does not natively provide integration with the Semantic Web ecosystem. In this article, we introduce MEDS-OWL, a lightweight OWL ontology that provides formal concepts and relations to represent MEDS datasets as RDF graphs. Additionally, we implemented meds2rdf, a Python conversion library that transforms MEDS events into RDF graphs, ensuring conformance with the ontology. We evaluate the proposed approach on two datasets: a synthetic clinical cohort describing care pathways for ruptured intracranial aneurysms, and a real-world subset of MIMIC-IV. To assess semantic consistency, we performed a SHACL validation against the resulting knowledge graphs. The first release of MEDS-OWL comprises 13 classes, 10 object prop
Vision-language models (VLMs) have achieved impressive progress in natural image reasoning, yet their potential in medical imaging remains underexplored. Medical vision-language tasks demand precise understanding and clinically coherent answers, which are difficult to achieve due to the complexity of medical data and the scarcity of high-quality expert annotations. These challenges limit the effectiveness of conventional supervised fine-tuning (SFT) and Chain-of-Thought (CoT) strategies that work well in general domains. To address these challenges, we propose Med-R1, a reinforcement learning (RL)-enhanced vision-language model designed to improve generalization and reliability in medical reasoning. Built on the DeepSeek strategy, Med-R1 adopts Group Relative Policy Optimization (GRPO) to encourage reward-guided learning beyond static annotations. We comprehensively evaluate Med-R1 across eight distinct medical imaging modalities. Med-R1 achieves a 29.94% improvement in average accuracy over its base model Qwen2-VL-2B, and even outperforms Qwen2-VL-72B-a model with 36x more parameters. To assess cross-task generalization, we further evaluate Med-R1 on five question types. Med-R1 ou
The practical deployment of medical vision-language models (Med-VLMs) necessitates seamless integration of textual data with diverse visual modalities, including 2D/3D images and videos, yet existing models typically employ separate encoders for different modalities. To address this limitation, we present OmniV-Med, a unified framework for multimodal medical understanding. Our technical contributions are threefold: First, we construct OmniV-Med-Instruct, a comprehensive multimodal medical dataset containing 252K instructional samples spanning 14 medical image modalities and 11 clinical tasks. Second, we devise a rotary position-adaptive encoder that processes multi-resolution 2D/3D images and videos within a unified architecture, diverging from conventional modality-specific encoders. Third, we introduce a medical-aware token pruning mechanism that exploits spatial-temporal redundancy in volumetric data (e.g., consecutive CT slices) and medical videos, effectively reducing 60\% of visual tokens without performance degradation. Empirical evaluations demonstrate that OmniV-Med-7B achieves state-of-the-art performance on 7 benchmarks spanning 2D/3D medical imaging and video understand
Medical Question-Answering (QA) encompasses a broad spectrum of tasks, including multiple choice questions (MCQ), open-ended text generation, and complex computational reasoning. Despite this variety, a unified framework for delivering high-quality medical QA has yet to emerge. Although recent progress in reasoning-augmented large language models (LLMs) has shown promise, their ability to achieve comprehensive medical understanding is still largely unexplored. In this paper, we present Med-U1, a unified framework for robust reasoning across medical QA tasks with diverse output formats, ranging from MCQs to complex generation and computation tasks. Med-U1 employs pure large-scale reinforcement learning with mixed rule-based binary reward functions, incorporating a length penalty to manage output verbosity. With multi-objective reward optimization, Med-U1 directs LLMs to produce concise and verifiable reasoning chains. Empirical results reveal that Med-U1 significantly improves performance across multiple challenging Med-QA benchmarks, surpassing even larger specialized and proprietary models. Furthermore, Med-U1 demonstrates robust generalization to out-of-distribution (OOD) tasks.
Trustworthiness and transparency are essential for the clinical adoption of artificial intelligence (AI) in healthcare and biomedical research. Recent deep research systems aim to accelerate evidence-grounded scientific discovery by integrating AI agents with multi-hop information retrieval, reasoning, and synthesis. However, most existing systems lack explicit and inspectable criteria for evidence appraisal, creating a risk of compounding errors and making it difficult for researchers and clinicians to assess the reliability of their outputs. In parallel, current benchmarking approaches rarely evaluate performance on complex, real-world medical questions. Here, we introduce DeepER-Med, a Deep Evidence-based Research framework for Medicine with an agentic AI system. DeepER-Med frames deep medical research as an explicit and inspectable workflow of evidence-based generation, consisting of three modules: research planning, agentic collaboration, and evidence synthesis. To support realistic evaluation, we also present DeepER-MedQA, an evidence-grounded dataset comprising 100 expert-level research questions derived from authentic medical research scenarios and curated by a multidiscipl
Large reasoning models excel in domains like mathematics where intermediate reasoning is straightforward to verify, but struggle to self-correct in medicine fields where evaluating intermediate reasoning is cumbersome and expensive. This verification bottleneck hinders the development of reliable AI reasoners for high-stakes application. Here we propose Med-REFL, a novel framework that learns fine-grained reflection without human labels or model distillation. Med-REFL introduces a deterministic structural assessment of the reasoning space to automatically generate preference data for reflection. By globally evaluating all explored reasoning paths in a tree-of-thoughts, our method quantifies the value of corrective actions, enabling the automated construction of direct preference optimization pairs. This trains the model to recognize and amend its own reasoning fallacies. Extensive experiments show Med-REFL delivers robust gains across diverse models architectures and medical benchmarks, boosting a general-purpose Llama3.1-8B by +5.82% and the state-of-the-art Huatuo-o1 by +4.13% on the MedQA benchmark. Our Med-REFL-8B achieves state-of-the-art performance among 7-8B models while ev
Real-world clinical decision-making requires integrating heterogeneous data, including medical text, 2D images, 3D volumes, and videos, while existing AI systems fail to unify all these signals, limiting their utility. In this paper, we introduce Hulu-Med, a transparent, generalist medical Vision-Language Model (VLM) designed to unify language-only, 2D/3D vision-language, and video understanding within a single architecture. Hulu-Med is trained on a curated corpus of 16.7 million samples, comprising exclusively public or synthetic data, spanning 12 major anatomical systems and 14 medical imaging modalities. Hulu-Med employs a medical-aware token-reduction strategy that prunes redundant visual tokens, achieving up to a 55% reduction for 3D and video inputs, improving cross-modal efficiency, and enabling training at 7B-32B parameter scales in approximately 4,000-40,000 GPU hours. Across 30 public in-domain and out-of-domain medical benchmarks-covering text reasoning, visual question answering, report generation, multilingual dialogue, video understanding, and rare disease diagnosis-Hulu-Med surpasses existing open-source models on 27 of 30 benchmarks and outperforms proprietary syste
Text-to-image generative models have achieved remarkable breakthroughs in recent years. However, their application in medical image generation still faces significant challenges, including small dataset sizes, and scarcity of medical textual data. To address these challenges, we propose Med-Art, a framework specifically designed for medical image generation with limited data. Med-Art leverages vision-language models to generate visual descriptions of medical images which overcomes the scarcity of applicable medical textual data. Med-Art adapts a large-scale pre-trained text-to-image model, PixArt-$α$, based on the Diffusion Transformer (DiT), achieving high performance under limited data. Furthermore, we propose an innovative Hybrid-Level Diffusion Fine-tuning (HLDF) method, which enables pixel-level losses, effectively addressing issues such as overly saturated colors. We achieve state-of-the-art performance on two medical image datasets, measured by FID, KID, and downstream classification performance.
We present Shap-MeD, a text-to-3D object generative model specialized in the biomedical domain. The objective of this study is to develop an assistant that facilitates the 3D modeling of medical objects, thereby reducing development time. 3D modeling in medicine has various applications, including surgical procedure simulation and planning, the design of personalized prosthetic implants, medical education, the creation of anatomical models, and the development of research prototypes. To achieve this, we leverage Shap-e, an open-source text-to-3D generative model developed by OpenAI, and fine-tune it using a dataset of biomedical objects. Our model achieved a mean squared error (MSE) of 0.089 in latent generation on the evaluation set, compared to Shap-e's MSE of 0.147. Additionally, we conducted a qualitative evaluation, comparing our model with others in the generation of biomedical objects. Our results indicate that Shap-MeD demonstrates higher structural accuracy in biomedical object generation.
Vision-language pretraining has driven significant progress in medical image analysis. However, current methods typically supervise visual encoders using one-hot labels or free-form text, neither of which effectively captures the complex semantic relationships among clinical findings. In this study, we introduce VIVID-Med, a novel framework that leverages a frozen large language model (LLM) as a structured semantic teacher to pretrain medical vision transformers (ViTs). VIVID-Med translates clinical findings into verifiable JSON field-state pairs via a Unified Medical Schema (UMS), utilizing answerability-aware masking to focus optimization. It then employs Structured Prediction Decomposition (SPD) to partition cross-attention into orthogonality-regularized query groups, extracting complementary visual aspects. Crucially, the LLM is discarded post-training, yielding a lightweight, deployable ViT-only backbone. We evaluated VIVID-Med across multiple settings: on CheXpert linear probing, it achieves a macro-AUC of 0.8588, outperforming BiomedCLIP by +6.65 points while using 500x less data. It also demonstrates robust zero-shot cross-domain transfer to NIH ChestX-ray14 (0.7225 macro-A
Evaluating large language models (LLMs) in medicine is crucial because medical applications require high accuracy with little room for error. Current medical benchmarks have three main types: medical exam-based, comprehensive medical, and specialized assessments. However, these benchmarks have limitations in question design (mostly multiple-choice), data sources (often not derived from real clinical scenarios), and evaluation methods (poor assessment of complex reasoning). To address these issues, we present LLMEval-Med, a new benchmark covering five core medical areas, including 2,996 questions created from real-world electronic health records and expert-designed clinical scenarios. We also design an automated evaluation pipeline, incorporating expert-developed checklists into our LLM-as-Judge framework. Furthermore, our methodology validates machine scoring through human-machine agreement analysis, dynamically refining checklists and prompts based on expert feedback to ensure reliability. We evaluate 13 LLMs across three categories (specialized medical models, open-source models, and closed-source models) on LLMEval-Med, providing valuable insights for the safe and effective depl
Large language models have shown promise in clinical decision making, but current approaches struggle to localize and correct errors at specific steps of the reasoning process. This limitation is critical in medicine, where identifying and addressing reasoning errors is essential for accurate diagnosis and effective patient care. We introduce Med-PRM, a process reward modeling framework that leverages retrieval-augmented generation to verify each reasoning step against established medical knowledge bases. By verifying intermediate reasoning steps with evidence retrieved from clinical guidelines and literature, our model can precisely assess the reasoning quality in a fine-grained manner. Evaluations on five medical QA benchmarks and two open-ended diagnostic tasks demonstrate that Med-PRM achieves state-of-the-art performance, with improving the performance of base models by up to 13.50% using Med-PRM. Moreover, we demonstrate the generality of Med-PRM by integrating it in a plug-and-play fashion with strong policy models such as Meerkat, achieving over 80\% accuracy on MedQA for the first time using small-scale models of 8 billion parameters. Our code and data are available at: ht
Assessing whether an article supports an assertion is essential for hallucination detection and claim verification. While large language models (LLMs) have the potential to automate this task, achieving strong performance requires frontier models such as GPT-5 that are prohibitively expensive to deploy at scale. To efficiently perform biomedical evidence attribution, we present Med-V1, a family of small language models with only three billion parameters. Trained on high-quality synthetic data newly developed in this study, Med-V1 substantially outperforms (+27.0% to +71.3%) its base models on five biomedical benchmarks unified into a verification format. Despite its smaller size, Med-V1 performs comparably to frontier LLMs such as GPT-5, along with high-quality explanations for its predictions. We use Med-V1 to conduct a first-of-its-kind use case study that quantifies hallucinations in LLM-generated answers under different citation instructions. Results show that the format instruction strongly affects citation validity and hallucination, with GPT-5 generating more claims but exhibiting hallucination rates similar to GPT-4o. Additionally, we present a second use case showing that
In the face of rapid advances in medical imaging, cross-domain adaptive medical image detection is challenging due to the differences in lesion representations across various medical imaging technologies. To address this issue, we draw inspiration from large language models to propose EAFP-Med, an efficient adaptive feature processing module based on prompts for medical image detection. EAFP-Med can efficiently extract lesion features of different scales from a diverse range of medical images based on prompts while being flexible and not limited by specific imaging techniques. Furthermore, it serves as a feature preprocessing module that can be connected to any model front-end to enhance the lesion features in input images. Moreover, we propose a novel adaptive disease detection model named EAFP-Med ST, which utilizes the Swin Transformer V2 - Tiny (SwinV2-T) as its backbone and connects it to EAFP-Med. We have compared our method to nine state-of-the-art methods. Experimental results demonstrate that EAFP-Med ST achieves the best performance on all three datasets (chest X-ray images, cranial magnetic resonance imaging images, and skin images). EAFP-Med can efficiently extract lesi
Prompt-based medical image segmentation has rapidly emerged, yet existing methods rely on explicit prompts like bounding boxes and struggle to reason about the spatial relationships essential for clinical diagnosis. While general-domain models attempt complex coordinate regression, these approaches often lack the structured reliability required for medical applications. In this work, we introduce PRS-Med, a unified framework that adopts an elegant, clinical-first approach to position reasoning segmentation. By utilizing a medical vision-language model integrated with a segmentation decoder, PRS-Med mimics the structured "search patterns" used by radiologists to identify pathologies within specific anatomical zones. To support this robust reasoning, we present the Medical Position Reasoning Segmentation (PosMed) dataset, comprising 116,000 expert-validated, spatially grounded question-answer pairs across six imaging modalities. Unlike previous brittle attempts at spatial reasoning, PosMed leverages a scalable, deterministic pipeline validated by board-certified radiologists to ensure clinical accuracy. Extensive experiments demonstrate that our zone-based reasoning not only improves
Visual Language Models (VLMs) achieve promising results in medical reasoning but struggle with hallucinations, vague descriptions, inconsistent logic and poor localization. To address this, we propose a agent framework named Medical Visual Reasoning Agent (\textbf{Med-VRAgent}). The approach is based on Visual Guidance and Self-Reward paradigms and Monte Carlo Tree Search (MCTS). By combining the Visual Guidance with tree search, Med-VRAgent improves the medical visual reasoning capabilities of VLMs. We use the trajectories collected by Med-VRAgent as feedback to further improve the performance by fine-tuning the VLMs with the proximal policy optimization (PPO) objective. Experiments on multiple medical VQA benchmarks demonstrate that our method outperforms existing approaches.
Reliable and interpretable decision-making is essential in medical imaging, where diagnostic outcomes directly influence patient care. Despite advances in deep learning, most medical AI systems operate as opaque black boxes, providing little insight into why a particular diagnosis was reached. In this paper, we introduce Med-CAM, a framework for generating minimal and sharp maps as evidence-based explanations for Medical decision making via Classifier Activation Matching. Med-CAM trains a segmentation network from scratch to produce a mask that highlights the minimal evidence critical to model's decision for any seen or unseen image. This ensures that the explanation is both faithful to the network's behaviour and interpretable to clinicians. Experiments show, unlike prior spatial explanation methods, such as Grad-CAM and attention maps, which yield only fuzzy regions of relative importance, Med-CAM with its superior spatial awareness to shapes, textures, and boundaries, delivers conclusive, evidence-based explanations that faithfully replicate the model's prediction for any given image. By explicitly constraining explanations to be compact, consistent with model activations, and d
Medical image grounding aims to align natural language phrases with specific regions in medical images, serving as a foundational task for intelligent diagnosis, visual question answering (VQA), and automated report generation (MRG). However, existing research is constrained by limited modality coverage, coarse-grained annotations, and the absence of a unified, generalizable grounding framework. To address these challenges, we construct a large-scale medical grounding dataset Med-GLIP-5M comprising over 5.3 million region-level annotations across seven imaging modalities, covering diverse anatomical structures and pathological findings. The dataset supports both segmentation and grounding tasks with hierarchical region labels, ranging from organ-level boundaries to fine-grained lesions. Based on this foundation, we propose Med-GLIP, a modality-aware grounding framework trained on Med-GLIP-5M. Rather than relying on explicitly designed expert modules, Med-GLIP implicitly acquires hierarchical semantic understanding from diverse training data -- enabling it to recognize multi-granularity structures, such as distinguishing lungs from pneumonia lesions. Extensive experiments demonstrat
Medical question answering systems face deployment challenges including hallucinations, bias, computational demands, privacy concerns, and the need for specialized expertise across diverse domains. Here, we present SOLVE-Med, a multi-agent architecture combining domain-specialized small language models for complex medical queries. The system employs a Router Agent for dynamic specialist selection, ten specialized models (1B parameters each) fine-tuned on specific medical domains, and an Orchestrator Agent that synthesizes responses. Evaluated on Italian medical forum data across ten specialties, SOLVE-Med achieves superior performance with ROUGE-1 of 0.301 and BERTScore F1 of 0.697, outperforming standalone models up to 14B parameters while enabling local deployment. Our code is publicly available on GitHub: https://github.com/PRAISELab-PicusLab/SOLVE-Med.
Accurate medical image segmentation is fundamental to precision medicine, yet robust delineation remains challenging under heterogeneous appearances, ambiguous boundaries, and large anatomical variability. Similar intensity and texture patterns between targets and surrounding tissues often lead to blurred activations and unreliable separation. We attribute these failures to representation collapse during encoding and insufficient fine grained multi scale decoding. To address these issues, we propose Med DisSeg, a dispersion driven medical image segmentation framework that jointly improves representation learning and anatomical delineation. Med DisSeg combines a lightweight Dispersive Loss with adaptive attention for fine grained structure segmentation. The Dispersive Loss enlarges inter sample margins by treating in batch hidden representations as negative pairs, producing well dispersed and boundary aware embeddings with negligible overhead. Based on these enhanced representations, the encoder strengthens structure sensitive responses, while the decoder performs adaptive multi scale calibration to preserve complementary local texture and global shape information. Extensive experim