arXiv subjects

Yi Guo

Publications and source records attributed to Yi Guo.

At least 37 records · Page 2Linked to original sources

arXiv2026

Studying Competing Events with Federated Cumulative Incidence Curves

Combining electronic health record (EHR) data from multiple institutions is a valuable strategy for conducting post-market safety surveillance of medical products, but privacy concerns limit sharing individual-level data. We develop a novel federated learning (FL) method for multi-site post-market safety surveillance of medical products using competing risks data. We apply this method to study immune-related adverse events (irAEs) following treatment with immune checkpoint inhibitors (ICIs) in patients with auto-immune disease (AID). We provide an algorithm for constructing non-parametric cumulative incidence curves for competing event types, which can be used to compare exposure groups (e.g. treated and untreated) with no sharing of patient-level data across institutions. We incorporate covariate adjustment via inverse propensity weighting, and informative causal comparison using the area under cumulative incidence curves, known as restricted mean time lost. We apply our method to $N=10,281$ cancer patients with no pre-existing endocrine-related AID receiving ICIs across $K=10$ sites from the OneFlorida+ network, comparing patients with a pre-existing non-endocrine AID to those with no pre-existing AID. After covariate adjustment, we found that patients with a pre-existing non-endocrine AID lost 4.8 [95% CI: 4.3,5.2] months of event-free survival time to endocrine irAEs in the first 18 months following treatment, compared to 3.2 [95% CI: 3.1,3.3] months in the group without prior AID. As patients with prior AID were initially excluded from clinical trials of ICIs, our findings provide important new information to clinicians and patients receiving or considering ICI treatment. Our proposed non-parametric federated algorithm is the first to allow investigators to use some of the most crucial non-parametric tools for conducting postmarket safety surveillance across multiple institutions.

stat.ME↗

arXiv2026

Exploring Post-Training Alignment of Small Language Models for Biomedical Data-to-Text Generation: A Case Study of Medication Leaflet

Translating complex biomedical data into patient-friendly narratives is central to modern biomedical informatics. This study presents a comparative analysis of training small language models (SLMs) in specialized biomedical datato-text generation tasks. We explore widely adopted post-training methods including supervised fine-tuning (SFT), direct preference optimization (DPO), odds ratio preference optimization (ORPO), and group relative policy optimization (GRPO) with Qwen-based SLMs on a medicine package leaflets dataset. To assess cross-dataset generalizability, we also curated drug label data from openFDA. We evaluate models using both standard lexical overlap metrics like ROUGE as well as semantic similarity measures. Across our experiments, the results show that (1) the aligned SLMs outperform proprietary models like GPT-5; (2) ORPO outperforms the SFTbaselines; (3) GRPO yields the most robust cross-dataset performance among the alignment methods tested as well as GPT-5.

cs.CL↗

arXiv2026

GenVid2Robot: From Video Generation to Robot Manipulation via Rigid-Geometric Consistency

Generated videos provide useful visual motion priors for robot manipulation, but their visual plausibility does not imply physical executability. A generated video usually lacks metric geometry, grasp grounding, robot kinematic feasibility, and execution-time feedback, which makes direct trajectory replay unreliable in real-world manipulation. This paper presents GenVid2Robot, a rigid-geometric consistency framework that converts generated video motion into executable real-robot manipulation trajectories. Given an initial RGB-D observation and a task instruction, GenVid2Robot samples task-relevant semantic anchors from the real first frame, tracks these anchors through generated video candidates, and verifies whether the resulting 2D motion can be explained by first-frame RGB-D anchors under a sparse relative $SE(3)$ model. In this way, generated videos are treated as uncertain visual motion hypotheses rather than direct robot demonstrations. Only geometrically consistent motion is transferred to the robot. The accepted relative motion is then applied to the real grasp-time TCP pose selected by mask-constrained grasping, producing a grasp-conditioned execution trajectory that is consistent with both the visual motion prior and the physical grasp configuration. To reduce execution mismatch caused by RGB-D noise, calibration residuals, and small contact-induced displacement, a bounded depth-compensation module corrects local depth-direction errors without assuming full online replanning. Real-robot experiments demonstrate that GenVid2Robot improves the reliability of generated-video-guided manipulation by grounding visual motion priors with sparse metric geometry, grasp constraints, robot feasibility checking, and bounded execution feedback.

cs.RO↗

arXiv2026

Cryogenic shock exfoliation for ultrahigh mobility rhombohedral graphite nanoelectronics

Rhombohedral multilayer graphene (RMG) offers a highly tunable platform for correlated electron physics, featuring field-effect control of magnetic, superconducting, and topological phases[1-24]. The promise of these materials has been held back by the limited abundance of rhombohedral stacking in natural graphite, which constrains both sample yield and useful area. Here we introduce 'cryogenic shock exfoliation' to produce large area rhombohedral graphene flakes which, combined with a low-pressure van der Waals assembly technique that preserves stacking order, enable highly uniform devices exceeding 1300 $μm^2$ with fabrication yields of 90%. Using scanning nanoSQUID-on-tip imaging, we demonstrate uniform spin magnetism over the full central 10 times 10 $μm^2$ area of our devices. Transverse magnetic focusing reveals a disorder mean free path exceeding 200 $μm$ at low temperatures. Within the flat surface bands of RMG[20], we observe a size-driven crossover from Poiseuille to porous electron flow in the intermediate-temperature regime of strong electron-electron hydrodynamics[16, 25], providing a further signature of ultrahigh device quality. Our approach overcomes a key materials bottleneck in the fabrication of mesoscopic rhombohedral graphene devices, paving the way for incorporating strongly correlated phases into two-dimensional nanoelectronics.

cond-mat.mes-hall↗

arXiv2026

An Interpretable Deep Learning Framework for Discovery and Clinical Validation of Deep Radiomic Signatures in Tumor Classification

Imaging signatures are quantitative features extracted from medical images that provide clinically meaningful information for tumor diagnosis, characterization, prognosis, and treatment planning. Although deep learning has shown great potential for imaging signature discovery, its limited interpretability remains a major barrier to clinical adoption. Existing approaches often achieve high predictive performance but provide little biological insight into the identified signatures. We propose a unified framework for interpretable imaging signature discovery by integrating deep learning based segmentation, explainable classification, and radiomic analysis. A robust segmentation model is first used to accurately delineate tumors, followed by a Grad-CAM guided pipeline that identifies diagnostically important regions as candidate imaging signatures. A mutual information based adaptive thresholding strategy enables patient-specific signature extraction. The resulting signatures are validated using a downstream deep learning classification model, while radiomic features extracted from the signature regions are evaluated with traditional machine learning models and interpreted using SHAP to identify the most discriminative biomarkers. The proposed framework is evaluated on the public BUSI breast ultrasound, KiTS renal CT, and BraTS brain tumor datasets, as well as a private UF Health renal CT cohort. Compared with conventional whole-tumor radiomics, the proposed signature-based approach achieves improved discriminative performance while providing greater biological interpretability. By converting deep learning attention into reproducible quantitative imaging biomarkers, this framework offers an interpretable and reproducible solution for non-invasive tumor characterization and imaging biomarker discovery.

eess.IV↗

arXiv2026

CIPHER: Causal Intervention Pathways for Healthcare Equity and Robustness

Deep learning models for medical diagnosis frequently exhibit substantial performance disparities across sensitive subgroups (e.g., race, sex), even when average accuracy is high. While generative data augmentation offers a route to mitigate this, existing strategies are suboptimal; they typically address only one or two dependency channels between sensitive attributes and image features. We formalize the medical image formation process via a structural causal model, revealing that sensitive attributes actually influence image content through four distinct pathways-a structural complexity neglected by prior works. Based on this insight, we introduce CIPHER (Causal Intervention Pathways for Healthcare Equity and Robustness), a framework designed to systematically intervene on all four causal paths. To achieve this, CIPHER utilizes a diffusion backbone equipped with classifier-free guidance and null-text inversion. This technical design enables the faithful reconstruction of patient-specific anatomy while allowing for the precise, editable synthesis of counterfactuals required to break sensitive dependency chains. We tested CIPHER using chest X-ray and dermoscopy benchmarks across both standard and shifted data distributions. By employing a multi-pathway intervention strategy, our model reduced worst-group disparities by an average of 35.8% compared to disease-conditioned synthesis baselines, while also improving total diagnostic accuracy

cs.CV↗

arXiv2026

X-Mind: Efficient Visual Chain-of-Thought via Predictive World Model for End-to-End Driving

Predicting future states is essential for autonomous agents, yet current Vision-Language-Action (VLA) models fundamentally lack this capability, relying instead on reactive perception-action mapping. While integrating Predictive World Models (PWMs) addresses this gap, existing approaches either incur prohibitive cascaded latency or act as shallow terminal tasks that fail to deeply embed forward-looking reasoning. To endow VLA models with this reasoning capability, we propose X-Mind. Rather than treating PWMs as an external auxiliary module, this framework internalizes them as the Visual Chain-of-Thought (Visual CoT). By enforcing a world rollout prior to action, the model is constrained to imagine future evolution first, yielding a driving policy that is robustly grounded in environmental dynamics and aware of the future consequences its actions will unfold. The challenge here is efficiency, and we tackle it on two fronts. First, we introduce a compact representation of visual thinking: an abstract sketch that fuses a Bird's-Eye-View (BEV) layout with abstract driving priors (e.g., navigation intents and traffic rules). Rather than rolling out dense future frames, the model reasons over this sketch as a mental canvas; aided by a Deep Compression Autoencoder (DC-AE), a 12-frame future rollout is reduced to merely 96 tokens, alleviating the long-context computational bottleneck. Second, to accelerate generation further, we propose a recurrent block diffusion scheme that unrolls the denoising steps across the layers of the large drive model, folding iterative refinement into the backbone's one forward pass. Trained and validated on large-scale real-world data, X-Mind achieves competitive end-to-end driving performance, which makes it a highly practical, low-latency solution that successfully deploys large-scale cognitive reasoning directly onto resource-constrained vehicle platforms.

cs.CV↗

arXiv2026

Prompt, Plan, Extract: Zero-Shot Agentic LLMs Workflows for Lung Pathology Extraction from Clinical Narratives

Information extraction from pathology reports is essential for cancer staging, tumor registry population. Yet key data remains embedded in narrative reports, making manual extraction labor-intensive and error-prone. Traditional supervised Natural Language Processing pipelines address this through fully supervised Named Entity Recognition and Relation Extraction, but require expensive manual annotation and suffer cascading failures when upstream entities are missed. In this study, we developed a zero-shot, agentic workflow, and evaluated five open-source generative Large Language Models (LLMs) to populate 13 College of American Pathologists synoptic fields from lung resection pathology reports. We compared them against a state-of-the-art supervised GatorTron NER-RE baseline using a novel, registry-aligned evaluation framework. The baseline achieved Micro-F1of 0.960, while the best zero-shot model (GPT-OSS-20B) achieved Micro-F1 of 0.893 (recall: 0.949), accurately extracting complex relations like Pathologic Stage without task-specific training. These results suggest that open-source, zero-shot agentic LLMs show great potential as a low-cost solution for extracting lung pathology information.

cs.CL↗

arXiv2026

Narrative Feature or Structured Feature? A Study of Large Language Models to Identify Cancer Patients at Risk of Heart Failure

Cancer treatments are known to introduce cardiotoxicity, negatively impacting outcomes and survivorship. Identifying cancer patients at risk of heart failure (HF) is critical to improving cancer treatment outcomes and safety. This study examined machine learning (ML) models to identify cancer patients at risk of HF using electronic health records (EHRs), including traditional ML, Time-Aware long short-term memory (T-LSTM), and large language models (LLMs) using novel narrative features derived from the structured medical codes. We identified a cancer cohort of 12,806 patients from the University of Florida Health, diagnosed with lung, breast, and colorectal cancers, among which 1,602 individuals developed HF after cancer. The LLM, GatorTron-3.9B, achieved the best F1 scores, outperforming the traditional support vector machines by 39%, the T-LSTM deep learning model by 7%, and a widely used transformer model, BERT, by 5.6%. The analysis shows that the proposed narrative features remarkably increased feature density and improved performance.

cs.LG↗

arXiv2026

Enhancing Brain MRI Anomaly Detection and Reasoning with ROI Rethink and Synthetic Data

Medical vision-language models typically generate diagnoses through single-pass inference without indicating which image regions support their conclusions. This lack of spatial grounding limits clinical utility: outputs cannot be audited, and models may hallucinate findings on normal scans. We present BrReMark (Brain Rethink via ROI Marking), a framework that introduces explicit region marking into brain MRI diagnosis. The model first generates hypotheses about potential abnormalities and grounds them through explicit bounding box marking, then verifies conclusions by re-examining the marked evidence. Training combines supervised fine-tuning on structured reasoning trajectories with reinforcement learning using a composite reward over localization accuracy and diagnostic reasoning. Furthermore, we integrate a domain randomization-based pathology synthesis augmentation strategy to improve the model's generalizability to out-of-distribution (OOD) data. On internal benchmark, BrReMark improves mAP50 from 0.74% to 37.54% compared to the base model, while achieving 21.57% Clinical F1 and 45.26% diagnostic accuracy. On NOVA OOD benchmark, it also achieves competitive overall performance with a 45.7% reduction in false positives compared to the state-of-the-art, indicating reduced hallucination on rare pathologies. These findings suggest that explicit hypothesis-verification grounding is a practical path toward trustworthy open-ended brain MRI diagnosis across both in-distribution and OOD settings.

cs.CV↗

arXiv2026

Propagating Collective Spin-valley Modes in Twisted WSe2

The emergence of neutral collective modes is a hallmark of correlated quantum phases but is often challenging to probe experimentally. In two-dimensional flatband systems, charge responses have been intensively investigated yet neutral excitations remain largely unexplored. In particular, intervalley coherent state (IVC) features a neutral Goldstone mode due to spontaneously broken valley U(1) symmetry. While IVC state has been proposed as a unifying theme across graphene and semiconductor based systems, its defining feature, the neutral Goldstone mode, remains elusive in experiment. Here we investigate space and time resolved transport of neutral modes in twisted WSe2 moire superlattices through a novel ultrafast imaging technique. We uncover two new propagating collective modes with very different velocities, which emerge near the van Hove singularity (VHS) in both intermediate (3.5 to 4 degree) and large (around 5 degree) angle twisted WSe2. The fast-propagating mode has a large speed of about 3 km/s and is consistent with a Goldstone mode for an IVC state, while the slow-moving mode is likely a gapped amplitude mode. They can be understood as the spin-valley analogues of collective modes of a superfluid, whose propagation is imaged for the first time in a condensed matter system. Our study demonstrates a powerful new approach for probing charge-neutral modes in quantum materials and offers key insights into the interplay between charge and spin-valley physics in moire superlattices.

cond-mat.mes-hall↗

arXiv2026

Wasserstein Geometry of Information Loss in Nonlinear Dynamical Systems

Time-delay embedding is a powerful technique for reconstructing the dynamics of nonlinear systems. However, the reconstruction map is not always an embedding, a condition rarely verified in practice. When the reconstruction map is non-injective, multiple latent states may map to the same reconstructed state, leading to multi-valued $n$-step evolution. Consequently, the induced system no longer admits a deterministic closure, and the dispersion of future trajectories leads to ambiguity. In this work, we establish a measure-theoretic framework to quantify the ambiguity induced by multi-valued evolution and introduce intrinsic stochasticity to quantify the ambiguity over a finite horizon. For numerical implementation, we use the $k$-nearest-neighbor estimator to approximate intrinsic stochasticity under finite-resolution and finite-sampling settings. Numerical experiments on the synthetic and real-world datasets are consistent with the expectation: reconstructions closer to deterministic closure tend to produce lower scores, and deterministic predictors that take reconstructions with lower empirical closure scores as input are associated with lower rollout errors, suggesting that intrinsic stochasticity provides a new perspective for understanding failures of reconstruction and serves as a diagnostic for selecting reconstruction maps.

stat.CO↗

arXiv2026

Defining Robust Ultrasound Quality Metrics via an Ultrasound Foundation Model

Clinicians lack a principled framework to quantify diagnostic utility in ultrasound reconstructions. Existing standards like PSNR and VGG-LPIPS are inadequate, failing to account for modality-specific physics or the structural nuances of acoustic imaging. We close this gap with a TinyUSFM-based evaluation framework featuring two distinct metrics: TinyUSFM-uLPIPS, a full-reference perceptual distance based on multi-layer token relations, and TinyUSFM-NRQ, a deployable no-reference quality score utilizing clean-manifold modeling and worst-region aggregation to detect localized harmful artifacts. We demonstrate that the presented metrics have four unique advantages: 1) Task-linked quality, where TinyUSFM-uLPIPS achieves superior calibration with semantic task damage, accurately reflecting Dice-score drops in segmentation where VGG-based metrics fail; 2) Cross-organ comparability, maintaining stable scoring scales and consistent severity rankings across diverse anatomical sites and domain-shifted data; 3) PSNR-consistent sensitivity, with TinyUSFM-NRQ providing a reliable quality score without ground-truth images that remains consistent with traditional fidelity benchmarks (i.e. PSNR); and 4) Clinical utility, improving the prediction of expert preference from 47.2$\%$ to 72.8$\%$ accuracy and producing super-resolution reconstructions preferred by sonographers. By integrating these advantages into a unified assessment and optimization loop, this work establishes a modality-aligned standard that finally bridges the gap between algorithmic performance and diagnostic utility. Our code is available at https://github.com/sextant-fable/US-Metrics.

eess.IV↗

arXiv2026

DepthPilot: From Controllability to Interpretability in Colonoscopy Video Generation

Controllable medical video generation has achieved remarkable progress, but it still lacks interpretability, which requires the alignment of generated contents with physical priors and faithful clinical manifestations. To push the boundaries from mere controllability to interpretability, we propose DepthPilot, the first interpretable framework for colonoscopy video generation. This work takes a step toward trustworthy generation through two synergistic paradigms. To achieve explicit geometric grounding, DepthPilot devises a prior distribution alignment strategy, injecting depth constraints into the diffusion backbone via parameter-efficient fine-tuning to ensure anatomical fidelity. To enhance intrinsic nonlinear modeling under these geometric constraints, DepthPilot employs an adaptive spline denoising module, replacing fixed linear weights with learnable spline functions to capture complex spatio-temporal dynamics. Extensive evaluations across three public datasets and in-house clinical data confirm DepthPilot's robust ability to produce physically consistent videos. It achieves FID scores below 15 across all benchmarks and ranks first in clinician assessments, bridging the gap between "visually realistic" and "clinically interpretable". Moreover, DepthPilot-generated videos are expected to enable reliable 3D reconstruction, facilitating surgical navigation and blind region identification, and serve as a foundation toward the colorectal world model.

cs.CV↗

arXiv2026

Unified Ultrasound Intelligence Toward an End-to-End Agentic System

Clinical ultrasound analysis demands models that generalize across heterogeneous organs, views, and devices, while supporting interpretable workflow-level analysis. Existing methods often rely on task-wise adaptation, and joint learning may be unstable due to cross-task interference, making it hard to deliver workflow-level outputs in practice. To address these challenges, we present USTri, a tri-stage ultrasound intelligence pipeline for unified multi-organ, multi-task analysis. Stage I trains a universal generalist USGen on different domains to learn broad, transferable priors that are robust to device and protocol variability. To better handle domain shifts and reach task-aligned performance while preserving ultrasound shared knowledge, Stage II builds USpec by keeping USGen frozen and finetuning dataset-specific heads. Stage III introduces USAgent, which mimics clinician workflows by orchestrating USpec specialists for multi-step inference and deterministic structured reports. On the FMC\_UIA validation set, our model achieves the best overall performance across 4 task types and 27 datasets, outperforming state-of-the-art methods. Moreover, qualitative results show that USAgent produces clinically structured reports with high accuracy and interpretability. Our study suggests a scalable path to ultrasound intelligence that generalizes across heterogeneous ultrasound tasks and supports consistent end-to-end clinical workflows. The code is publicly available at: https://github.com/MacDunno/USTri.

cs.CV↗

arXiv2026

Safe Deep Reinforcement Learning for Building Heating Control and Demand-side Flexibility

Buildings account for approximately 40% of global energy consumption, and with the growing share of intermittent renewable energy sources, enabling demand-side flexibility, particularly in heating, ventilation and air conditioning systems, is essential for grid stability and energy efficiency. This paper presents a safe deep reinforcement learning-based control framework to optimize building space heating while enabling demand-side flexibility provision for power system operators. A deep deterministic policy gradient algorithm is used as the core deep reinforcement learning method, enabling the controller to learn an optimal heating strategy through interaction with the building thermal model while maintaining occupant comfort, minimizing energy cost, and providing flexibility. To address safety concerns with reinforcement learning, particularly regarding compliance with flexibility requests, we propose a real-time adaptive safety-filter to ensure that the system operates within predefined constraints during demand-side flexibility provision. The proposed real-time adaptive safety filter guarantees full compliance with flexibility requests from system operators and improves energy and cost efficiency -- achieving up to 50% savings compared to a rule-based controller -- while outperforming a standalone deep reinforcement learning-based controller in energy and cost metrics, with only a slight increase in comfort temperature violations.

eess.SY↗

arXiv2026

EchoAgent: Towards Reliable Echocardiography Interpretation with "Eyes","Hands" and "Minds"

Reliable interpretation of echocardiography (Echo) is crucial for assessing cardiac function, which demands clinicians to synchronously orchestrate multiple capabilities, including visual observation (eyes), manual measurement (hands), and expert knowledge learning and reasoning (minds). While current task-specific deep-learning approaches and multimodal large language models have demonstrated promise in assisting Echo analysis through automated segmentation or reasoning, they remain focused on restricted skills, i.e., eyes-hands or eyes-minds, thereby limiting clinical reliability and utility. To address these issues, we propose EchoAgent, an agentic system tailored for end-to-end Echo interpretation, which achieves a fully coordinated eyes-hands-minds workflow that learns, observes, operates, and reasons like a cardiac sonographer. First, we introduce an expertise-driven cognition engine where our agent can automatically assimilate credible Echo guidelines into a structured knowledge base, thus constructing an Echo-customized mind. Second, we devise a hierarchical collaboration toolkit to endow EchoAgent with eyes-hands, which can automatically parse Echo video streams, identify cardiac views, perform anatomical segmentation, and quantitative measurement. Third, we integrate the perceived multimodal evidence with the exclusive knowledge base into an orchestrated reasoning hub to conduct explainable inferences. We evaluate EchoAgent on CAMUS and MIMIC-EchoQA datasets, which cover 48 distinct echocardiographic views spanning 14 cardiac anatomical regions. Experimental results show that EchoAgent achieves optimal performance across diverse structure analyses, yielding overall accuracy of up to 80.00%. Importantly, EchoAgent empowers a single system with abilities to learn, observe, operate and reason like an echocardiologist, which holds great promise for reliable Echo interpretation.

cs.CV↗

arXiv2026

TinyUSFM: Towards Compact and Efficient Ultrasound Foundation Models

Foundation models for medical imaging demonstrate superior generalization capabilities across diverse anatomical structures and clinical applications. Their outstanding performance relies on substantial computational resources, limiting deployment in resource-constrained clinical environments. This paper presents TinyUSFM, the first lightweight ultrasound foundation model that maintains superior organ versatility and task adaptability of our large-scale Ultrasound Foundation Model (USFM) through knowledge distillation with strategically curated small datasets, delivering significant computational efficiency without sacrificing performance. Considering the limited capacity and representation ability of lightweight models, we propose a feature-gradient driven coreset selection strategy to curate high-quality compact training data, avoiding training degradation from low-quality redundant images. To preserve the essential spatial and frequency domain characteristics during knowledge transfer, we develop domain-separated masked image modeling assisted consistency-driven dynamic distillation. This novel framework adaptively transfers knowledge from large foundation models by leveraging teacher model consistency across different domain masks, specifically tailored for ultrasound interpretation. For evaluation, we establish the UniUS-Bench, the largest publicly available ultrasound benchmark comprising 8 classification and 10 segmentation datasets across 15 organs. Using only 200K images in distillation, TinyUSFM matches USFM's performance with just 6.36% of parameters and 6.40% of GFLOPs. TinyUSFM significantly outperforms the vanilla model by 9.45% in classification and 7.72% in segmentation, surpassing all state-of-the-art lightweight models, and achieving 84.91% average classification accuracy and 85.78% average segmentation Dice score across diverse medical devices and centers.

eess.IV↗