arXiv subjects

Wenxuan Li

Publications and source records attributed to Wenxuan Li.

At least 37 records · Page 2Linked to original sources

arXiv2025

Auditing Significance, Metric Choice, and Demographic Fairness in Medical AI Challenges

Open challenges have become the de facto standard for comparative ranking of medical AI methods. Despite their importance, medical AI leaderboards exhibit three persistent limitations: (1) score gaps are rarely tested for statistical significance, so rank stability is unknown; (2) single averaged metrics are applied to every organ, hiding clinically important boundary errors; (3) performance across intersecting demographics is seldom reported, masking fairness and equity gaps. We introduce RankInsight, an open-source toolkit that seeks to address these limitations. RankInsight (1) computes pair-wise significance maps that show the nnU-Net family outperforms Vision-Language and MONAI submissions with high statistical certainty; (2) recomputes leaderboards with organ-appropriate metrics, reversing the order of the top four models when Dice is replaced by NSD for tubular structures; and (3) audits intersectional fairness, revealing that more than half of the MONAI-based entries have the largest gender-race discrepancy on our proprietary Johns Hopkins Hospital dataset. The RankInsight toolkit is publicly released and can be directly applied to past, ongoing, and future challenges. It enables organizers and participants to publish rankings that are statistically sound, clinically meaningful, and demographically fair.

cs.CV↗

arXiv2025

Expectation-Maximization as the Engine of Scalable Medical Intelligence

Large, high-quality, annotated datasets are the foundation of medical AI research, but constructing even a small, moderate-quality, annotated dataset can take years of effort from multidisciplinary teams. Although active learning can prioritize what to annotate, scaling up still requires extensive manual efforts to revise the noisy annotations. We formulate this as a missing-data problem and develop ScaleMAI, a framework that unifies data annotation and model development co-evolution through an Expectation-Maximization (EM) process. In this iterative process, the AI model automatically identifies and corrects the mistakes in annotations (Expectation), while the refined annotated data retrain the model to improve accuracy (Maximization). In addition to the classical EM algorithm, ScaleMAI brings human experts into the loop to review annotations that cannot be adequately addressed by either Expectation or Maximization step (<5%). As a result, ScaleMAI progressively creates an annotated dataset of 47,315 CT scans (4.8x larger than the largest public dataset, PanTS) including 4,163,720 per-voxel annotations for benign/malignant tumors and 88 anatomical structures. ScaleMAI iteratively trains a model that exceeds human expert performance in tumor diagnosis (+7%), and outperforms models developed from smaller, moderate-quality datasets, with statistically significant gains in tumor detection (+10%) and segmentation (+14%) on two prestigious benchmarks.

cs.CV↗

arXiv2025

3D-ANC: Adaptive Neural Collapse for Robust 3D Point Cloud Recognition

Deep neural networks have recently achieved notable progress in 3D point cloud recognition, yet their vulnerability to adversarial perturbations poses critical security challenges in practical deployments. Conventional defense mechanisms struggle to address the evolving landscape of multifaceted attack patterns. Through systematic analysis of existing defenses, we identify that their unsatisfactory performance primarily originates from an entangled feature space, where adversarial attacks can be performed easily. To this end, we present 3D-ANC, a novel approach that capitalizes on the Neural Collapse (NC) mechanism to orchestrate discriminative feature learning. In particular, NC depicts where last-layer features and classifier weights jointly evolve into a simplex equiangular tight frame (ETF) arrangement, establishing maximally separable class prototypes. However, leveraging this advantage in 3D recognition confronts two substantial challenges: (1) prevalent class imbalance in point cloud datasets, and (2) complex geometric similarities between object categories. To tackle these obstacles, our solution combines an ETF-aligned classification module with an adaptive training framework consisting of representation-balanced learning (RBL) and dynamic feature direction loss (FDL). 3D-ANC seamlessly empowers existing models to develop disentangled feature spaces despite the complexity in 3D data distribution. Comprehensive evaluations state that 3D-ANC significantly improves the robustness of models with various structures on two datasets. For instance, DGCNN's classification accuracy is elevated from 27.2% to 80.9% on ModelNet40 -- a 53.7% absolute gain that surpasses leading baselines by 34.0%.

cs.CV↗

arXiv2025

See More, Change Less: Anatomy-Aware Diffusion for Contrast Enhancement

Image enhancement improves visual quality and helps reveal details that are hard to see in the original image. In medical imaging, it can support clinical decision-making, but current models often over-edit. This can distort organs, create false findings, and miss small tumors because these models do not understand anatomy or contrast dynamics. We propose SMILE, an anatomy-aware diffusion model that learns how organs are shaped and how they take up contrast. It enhances only clinically relevant regions while leaving all other areas unchanged. SMILE introduces three key ideas: (1) structure-aware supervision that follows true organ boundaries and contrast patterns; (2) registration-free learning that works directly with unaligned multi-phase CT scans; (3) unified inference that provides fast and consistent enhancement across all contrast phases. Across six external datasets, SMILE outperforms existing methods in image quality (14.2% higher SSIM, 20.6% higher PSNR, 50% better FID) and in clinical usefulness by producing anatomically accurate and diagnostically meaningful images. SMILE also improves cancer detection from non-contrast CT, raising the F1 score by up to 10 percent.

cs.CV↗

arXiv2025

Scaling Tumor Segmentation: Best Lessons from Real and Synthetic Data

AI for tumor segmentation is limited by the lack of large, voxel-wise annotated datasets, which are hard to create and require medical experts. In our proprietary JHH dataset of 3,000 annotated pancreatic tumor scans, we found that AI performance stopped improving after 1,500 scans. With synthetic data, we reached the same performance using only 500 real scans. This finding suggests that synthetic data can steepen data scaling laws, enabling more efficient model training than real data alone. Motivated by these lessons, we created AbdomenAtlas 2.0--a dataset of 10,135 CT scans with a total of 15,130 tumor instances per-voxel manually annotated in six organs (pancreas, liver, kidney, colon, esophagus, and uterus) and 5,893 control scans. Annotated by 23 expert radiologists, it is several orders of magnitude larger than existing public tumor datasets. While we continue expanding the dataset, the current version of AbdomenAtlas 2.0 already provides a strong foundation--based on lessons from the JHH dataset--for training AI to segment tumors in six organs. It achieves notable improvements over public datasets, with a +7% DSC gain on in-distribution tests and +16% on out-of-distribution tests.

cs.CV↗

arXiv2025

Scaling Artificial Intelligence for Multi-Tumor Early Detection with More Reports, Fewer Masks

Early tumor detection save lives. Each year, more than 300 million computed tomography (CT) scans are performed worldwide, offering a vast opportunity for effective cancer screening. However, detecting small or early-stage tumors on these CT scans remains challenging, even for experts. Artificial intelligence (AI) models can assist by highlighting suspicious regions, but training such models typically requires extensive tumor masks--detailed, voxel-wise outlines of tumors manually drawn by radiologists. Drawing these masks is costly, requiring years of effort and millions of dollars. In contrast, nearly every CT scan in clinical practice is already accompanied by medical reports describing the tumor's size, number, appearance, and sometimes, pathology results--information that is rich, abundant, and often underutilized for AI training. We introduce R-Super, which trains AI to segment tumors that match their descriptions in medical reports. This approach scales AI training with large collections of readily available medical reports, substantially reducing the need for manually drawn tumor masks. When trained on 101,654 reports, AI models achieved performance comparable to those trained on 723 masks. Combining reports and masks further improved sensitivity by +13% and specificity by +8%, surpassing radiologists in detecting five of the seven tumor types. Notably, R-Super enabled segmentation of tumors in the spleen, gallbladder, prostate, bladder, uterus, and esophagus, for which no public masks or AI models previously existed. This study challenges the long-held belief that large-scale, labor-intensive tumor mask creation is indispensable, establishing a scalable and accessible path toward early detection across diverse tumor types. We plan to release our trained models, code, and dataset at https://github.com/MrGiovanni/R-Super

cs.CV↗

arXiv2025

Multicycle dynamics and high-codimension bifurcations in SIRS epidemic models with cubic psychological saturated incidence

This study investigates bifurcation dynamics in an SIRS epidemic model with cubic saturated incidence, extending the quadratic saturation framework established by Lu, Huang, Ruan, and Yu (Journal of Differential Equations, 267, 2019). We rigorously prove the existence of codimension-three Bogdanov-Takens bifurcations and degenerate Hopf bifurcations, demonstrating the coexistence of three limit cycles within a single epidemiological model, a phenomenon that is rarely documented and exhibits significant dynamical complexity. Our analysis reveals that both the infection rate $κ$ (through specific inequality conditions) and psychological effect thresholds critically govern disease dynamics: from complete eradication to various persistence patterns, including multiple periodic oscillations and coexistent steady states. By innovatively applying singularity theory, we characterize the topology of the bifurcation set through the local unfolding of singularities and the identification of nondegenerate singularities for fronts. Numerical simulations verify the emergence of three limit cycles in monotonic parameter regimes and two limit cycles in nonmonotonic regimes. This work advances existing bifurcation research by incorporating higher-order interactions and comprehensive singularity analysis, thereby providing a mathematical foundation for decoding complex transmission mechanisms critical to the design of public health strategies.

math.DS↗

arXiv2025

Express Diagnostic of Intense Laser-driven MeV Radiation Source using Copper Isotopes

We explored the generation and diagnosis of high-brightness MeV bremsstrahlung radiation caused by intense beam of relativistic electrons propagating in a tantalum converter. The intense electron beam was produced through direct laser acceleration mechanism in the interaction of relativistic high-power sub-ps laser pulse with near critical density plasma. We propose to detect the divergence angle and photon fluence of high-brightness and high-energy gamma radiation source based on the nuclear activation method. The radioactive 62^Cu was generated through photonuclear reactions 63^Cu(gamma,n) 62^Cu and the subsequent beta^+ decay of 62^Cu was measured to derive characteristics of the gamma radiation source. This method provides an express approach to diagnose the laser-driven MeV radiation source and a potential efficient way to produce 62^Cu isotopes.

physics.acc-ph↗

arXiv2025

RadGPT: Constructing 3D Image-Text Tumor Datasets

Cancers identified in CT scans are usually accompanied by detailed radiology reports, but publicly available CT datasets often lack these essential reports. This absence limits their usefulness for developing accurate report generation AI. To address this gap, we present AbdomenAtlas 3.0, the first public, high-quality abdominal CT dataset with detailed, expert-reviewed radiology reports. All reports are paired with per-voxel masks and they describe liver, kidney and pancreatic tumors. AbdomenAtlas 3.0 has 9,262 triplets of CT, mask and report--3,955 with tumors. These CT scans come from 17 public datasets. Besides creating the reports for these datasets, we expanded their number of tumor masks by 4.2x, identifying 3,011 new tumor cases. Notably, the reports in AbdomenAtlas 3.0 are more standardized, and generated faster than traditional human-made reports. They provide details like tumor size, location, attenuation and surgical resectability. These reports were created by 12 board-certified radiologists using our proposed RadGPT, a novel framework that converted radiologist-revised tumor segmentation masks into structured and narrative reports. Besides being a dataset creation tool, RadGPT can also become a fully-automatic, segmentation-assisted report generation method. We benchmarked this method and 5 state-of-the-art report generation vision-language models. Our results show that segmentation strongly improves tumor detection in AI-made reports.

eess.IV↗

arXiv2025

Modeling the Temperature-Humidity Coupling Dynamics of Soybean Pod Borer Population and Assessing the Predictive Performance of the PCM-NN Algorithm

Against the backdrop of global climate change and agricultural globalization, soybean production is increasingly threatened by pest outbreaks, with Leguminivora glycinivorella (commonly known as the soybean pod borer) being a major pest species. This pest is widely distributed, particularly in northeastern China, the country's primary soybean-producing region, where its outbreaks have significantly affected both yield and quality. Although statistical and mechanistic models have been applied to pest forecasting, existing approaches often fail to effectively integrate climatic factors with pest dynamics and lack sufficient expressive power. To address these limitations, this study proposes a novel pest prediction method based on Physics-Informed Neural Networks (PINNs). Specifically, we formulate a logistic-type ordinary differential equation (ODE) that incorporates microclimate factors, temperature, humidity, and time, to describe the temporal dynamics of the soybean pod borer population. This ODE model is embedded into the PINN framework to develop the Pest Correlation Model Neural Network (PCM-NN), which is used to jointly infer the microclimate-driven parameter function alpha(T, H, t) and fit the pest population dynamics. We evaluate PCM-NN using daily monitoring data of soybean pod borer collected in Changchun, Jilin Province, from July to September during 2020-2023. Experimental results demonstrate that PCM-NN preserves biological interpretability while exhibiting strong nonlinear representational capacity, offering a feasible pathway for pest modeling and forecasting under multi-factor climatic conditions. This approach provides valuable support for agricultural pest monitoring, prevention, and control strategies.

math.DS↗

arXiv2025

AbdomenAtlas: A Large-Scale, Detailed-Annotated, & Multi-Center Dataset for Efficient Transfer Learning and Open Algorithmic Benchmarking

We introduce the largest abdominal CT dataset (termed AbdomenAtlas) of 20,460 three-dimensional CT volumes sourced from 112 hospitals across diverse populations, geographies, and facilities. AbdomenAtlas provides 673K high-quality masks of anatomical structures in the abdominal region annotated by a team of 10 radiologists with the help of AI algorithms. We start by having expert radiologists manually annotate 22 anatomical structures in 5,246 CT volumes. Following this, a semi-automatic annotation procedure is performed for the remaining CT volumes, where radiologists revise the annotations predicted by AI, and in turn, AI improves its predictions by learning from revised annotations. Such a large-scale, detailed-annotated, and multi-center dataset is needed for two reasons. Firstly, AbdomenAtlas provides important resources for AI development at scale, branded as large pre-trained models, which can alleviate the annotation workload of expert radiologists to transfer to broader clinical applications. Secondly, AbdomenAtlas establishes a large-scale benchmark for evaluating AI algorithms -- the more data we use to test the algorithms, the better we can guarantee reliable performance in complex clinical scenarios. An ISBI & MICCAI challenge named BodyMaps: Towards 3D Atlas of Human Body was launched using a subset of our AbdomenAtlas, aiming to stimulate AI innovation and to benchmark segmentation accuracy, inference efficiency, and domain generalizability. We hope our AbdomenAtlas can set the stage for larger-scale clinical trials and offer exceptional opportunities to practitioners in the medical imaging community. Codes, models, and datasets are available at https://www.zongweiz.com/dataset

cs.CV↗

arXiv2025

Learning Segmentation from Radiology Reports

Tumor segmentation in CT scans is key for diagnosis, surgery, and prognosis, yet segmentation masks are scarce because their creation requires time and expertise. Public abdominal CT datasets have from dozens to a couple thousand tumor masks, but hospitals have hundreds of thousands of tumor CTs with radiology reports. Thus, leveraging reports to improve segmentation is key for scaling. In this paper, we propose a report-supervision loss (R-Super) that converts radiology reports into voxel-wise supervision for tumor segmentation AI. We created a dataset with 6,718 CT-Report pairs (from the UCSF Hospital), and merged it with public CT-Mask datasets (from AbdomenAtlas 2.0). We used our R-Super to train with these masks and reports, and strongly improved tumor segmentation in internal and external validation--F1 Score increased by up to 16% with respect to training with masks only. By leveraging readily available radiology reports to supplement scarce segmentation masks, R-Super strongly improves AI performance both when very few training masks are available (e.g., 50), and when many masks were available (e.g., 1.7K). Project: https://github.com/MrGiovanni/R-Super

eess.IV↗

arXiv2025

Vibration-aware Lidar-Inertial Odometry based on Point-wise Post-Undistortion Uncertainty

High-speed ground robots moving on unstructured terrains generate intense high-frequency vibrations, leading to LiDAR scan distortions in Lidar-inertial odometry (LIO). Accurate and efficient undistortion is extremely challenging due to (1) rapid and non-smooth state changes during intense vibrations and (2) unpredictable IMU noise coupled with a limited IMU sampling frequency. To address this issue, this paper introduces post-undistortion uncertainty. First, we model the undistortion errors caused by linear and angular vibrations and assign post-undistortion uncertainty to each point. We then leverage this uncertainty to guide point-to-map matching, compute uncertainty-aware residuals, and update the odometry states using an iterated Kalman filter. We conduct vibration-platform and mobile-platform experiments on multiple public datasets as well as our own recordings, demonstrating that our method achieves better performance than other methods when LiDAR undergoes intense vibration.

cs.RO↗

arXiv2025

Hardware-Free Event Cameras Temporal Synchronization Based on Event Density Alignment

Event cameras are a novel type of sensor designed for capturing the dynamic changes of a scene. Due to factors such as trigger and transmission delays, a time offset exists in the data collected by multiple event cameras, leading to inaccurate information fusion. Thus, the collected data needs to be synchronized to overcome any potential time offset issue. Hardware synchronization methods require additional circuits, while certain models of event cameras (e.g., CeleX5) do not support hardware synchronization. Therefore, this paper proposes a hardware-free event camera synchronization method. This method determines differences between start times by minimizing the dissimilarity of the event density distributions of different event cameras and synchronizes the data by adjusting timestamps. The experiments demonstrate that the method's synchronization error is less than 10ms under various senses with multiple models of event cameras.

cs.RO↗

arXiv2025

PanTS: The Pancreatic Tumor Segmentation Dataset

PanTS is a large-scale, multi-institutional dataset curated to advance research in pancreatic CT analysis. It contains 36,390 CT scans from 145 medical centers, with expert-validated, voxel-wise annotations of over 993,000 anatomical structures, covering pancreatic tumors, pancreas head, body, and tail, and 24 surrounding anatomical structures such as vascular/skeletal structures and abdominal/thoracic organs. Each scan includes metadata such as patient age, sex, diagnosis, contrast phase, in-plane spacing, slice thickness, etc. AI models trained on PanTS achieve significantly better performance in pancreatic tumor detection, localization, and segmentation compared to those trained on existing public datasets. Our analysis indicates that these gains are directly attributable to the 16x larger-scale tumor annotations and indirectly supported by the 24 additional surrounding anatomical structures. As the largest and most comprehensive resource of its kind, PanTS offers a new benchmark for developing and evaluating AI models in pancreatic CT analysis.

eess.IV↗

arXiv2025

ShapeKit

In this paper, we present a practical approach to improve anatomical shape accuracy in whole-body medical segmentation. Our analysis shows that a shape-focused toolkit can enhance segmentation performance by over 8%, without the need for model re-training or fine-tuning. In comparison, modifications to model architecture typically lead to marginal gains of less than 3%. Motivated by this observation, we introduce ShapeKit, a flexible and easy-to-integrate toolkit designed to refine anatomical shapes. This work highlights the underappreciated value of shape-based tools and calls attention to their potential impact within the medical segmentation community.

eess.IV↗

arXiv2025

Revisiting Backdoor Attacks on Time Series Classification in the Frequency Domain

Time series classification (TSC) is a cornerstone of modern web applications, powering tasks such as financial data analysis, network traffic monitoring, and user behavior analysis. In recent years, deep neural networks (DNNs) have greatly enhanced the performance of TSC models in these critical domains. However, DNNs are vulnerable to backdoor attacks, where attackers can covertly implant triggers into models to induce malicious outcomes. Existing backdoor attacks targeting DNN-based TSC models remain elementary. In particular, early methods borrow trigger designs from computer vision, which are ineffective for time series data. More recent approaches utilize generative models for trigger generation, but at the cost of significant computational complexity. In this work, we analyze the limitations of existing attacks and introduce an enhanced method, FreqBack. Drawing inspiration from the fact that DNN models inherently capture frequency domain features in time series data, we identify that improper perturbations in the frequency domain are the root cause of ineffective attacks. To address this, we propose to generate triggers both effectively and efficiently, guided by frequency analysis. FreqBack exhibits substantial performance across five models and eight datasets, achieving an impressive attack success rate of over 90%, while maintaining less than a 3% drop in model accuracy on clean data.

cs.LG↗

arXiv2025

PIN-WM: Learning Physics-INformed World Models for Non-Prehensile Manipulation

While non-prehensile manipulation (e.g., controlled pushing/poking) constitutes a foundational robotic skill, its learning remains challenging due to the high sensitivity to complex physical interactions involving friction and restitution. To achieve robust policy learning and generalization, we opt to learn a world model of the 3D rigid body dynamics involved in non-prehensile manipulations and use it for model-based reinforcement learning. We propose PIN-WM, a Physics-INformed World Model that enables efficient end-to-end identification of a 3D rigid body dynamical system from visual observations. Adopting differentiable physics simulation, PIN-WM can be learned with only few-shot and task-agnostic physical interaction trajectories. Further, PIN-WM is learned with observational loss induced by Gaussian Splatting without needing state estimation. To bridge Sim2Real gaps, we turn the learned PIN-WM into a group of Digital Cousins via physics-aware randomizations which perturb physics and rendering parameters to generate diverse and meaningful variations of the PIN-WM. Extensive evaluations on both simulation and real-world tests demonstrate that PIN-WM, enhanced with physics-aware digital cousins, facilitates learning robust non-prehensile manipulation skills with Sim2Real transfer, surpassing the Real2Sim2Real state-of-the-arts.

cs.LG↗