Yi Qin

Yi Qin, Xiaomeng Li

Unsupervised deformable image registration is one of the challenging tasks in medical imaging. Obtaining a high-quality deformation field while preserving deformation topology remains demanding amid a series of deep-learning-based solutions. Meanwhile, the diffusion model's latent feature space shows potential in modeling the deformation semantics. To fully exploit the diffusion model's ability to guide the registration task, we present two modules: Feature-wise Diffusion-Guided Module (FDG) and Score-wise Diffusion-Guided Module (SDG). Specifically, FDG uses the diffusion model's multi-scale semantic features to guide the generation of the deformation field. SDG uses the diffusion score to guide the optimization process for preserving deformation topology with barely any additional computation. Experiment results on the 3D medical cardiac image registration task validate our model's ability to provide refined deformation fields with preserved topology effectively. Code is available at: https://github.com/xmed-lab/FSDiffReg.git.

Lei Wang, Ziyi Zhao, Hanwei Liu et al.

With the introduction of ChatGPT, the public's perception of AI-generated content (AIGC) has begun to reshape. Artificial intelligence has significantly reduced the barrier to entry for non-professionals in creative endeavors, enhancing the efficiency of content creation. Recent advancements have seen significant improvements in the quality of symbolic music generation, which is enabled by the use of modern generative algorithms to extract patterns implicit in a piece of music based on rule constraints or a musical corpus. Nevertheless, existing literature reviews tend to present a conventional and conservative perspective on future development trajectories, with a notable absence of thorough benchmarking of generative models. This paper provides a survey and analysis of recent intelligent music generation techniques, outlining their respective characteristics and discussing existing methods for evaluation. Additionally, the paper compares the different characteristics of music generation techniques in the East and West as well as analysing the field's development prospects.

Marawan Elbatel, Mohamed Ghonim, Jiaji Mao et al.

Automated segmentation of liver lesions on non-contrast computed tomography (NCCT) is clinically important but fundamentally challenging, particularly in low-resource settings across Africa and Asia where contrast agents are frequently unavailable. Progress has been limited by the absence of annotated NCCT benchmarks. Here we describe the TriALS challenge for automated liver lesion segmentation under contrast-limited conditions, supported by a multi-centre dataset of 150 cases with four-phase CT acquisitions (600 volumes) from Egyptian and Chinese institutions. Algorithms were evaluated on 70 cases from three institutions, including an independent external cohort. The top-performing method achieved a mean venous-phase Dice of 0.754, consistent with human-level performance, yet dropped to 0.57 on NCCT. On external validation, the leading method outperformed off-the-shelf models by up to 28% in Dice on NCCT. Algorithm performance was most strongly predicted by training data scale and pre-training strategy. A cross-year comparison exposed a persistent perceptual barrier on NCCT that scaling pre-training alone cannot overcome. Data, annotations, and code are available at https://github.com/xmed-lab/TriALS.

Tao Huang, Rui Wang, Xiaofei Liu et al.

%Large vision-language models (LVLMs) have shown substantial advances in multimodal understanding and generation. However, when presented with incompetent or adversarial inputs, they frequently produce unreliable or even harmful content, such as fact hallucinations or dangerous instructions. This misalignment with human expectations, referred to as \emph{misbehaviors} of LVLMs, raises serious concerns for deployment in critical applications. These misbehaviors are found to stem from epistemic uncertainty, specifically either conflicting internal knowledge or the absence of supporting information. However, existing uncertainty quantification methods, which typically capture only overall epistemic uncertainty, have shown limited effectiveness in identifying such issues. To address this gap, we propose Evidential Uncertainty Quantification (EUQ), a fine-grained method that captures both information conflict and ignorance for effective detection of LVLM misbehaviors. In particular, we interpret features from the model output head as either supporting (positive) or opposing (negative) evidence. Leveraging Evidence Theory, we model and aggregate this evidence to quantify internal conflict and knowledge gaps within a single forward pass. %We extensively evaluate our method across four categories of misbehavior, including hallucinations, jailbreaks, adversarial vulnerabilities, and out-of-distribution (OOD) failures, using state-of-the-art LVLMs, and find that EUQ consistently outperforms strong baselines, showing that hallucinations correspond to high internal conflict and OOD failures to high ignorance. Furthermore, layer-wise evidential uncertainty dynamics analysis helps interpret the evolution of internal representations from a new perspective. The source code is available at https://github.com/HT86159/EUQ.

Lehan Wang, Yi Qin, Honglong Yang et al.

Incentivizing the reasoning ability of Multimodal Large Language Models (MLLMs) is essential for medical applications to transparently analyze medical scans and provide reliable diagnosis. However, existing medical MLLMs rely solely on internal knowledge during reasoning, leading to hallucinated reasoning and factual inaccuracies when encountering cases beyond their training scope. Although recent Agentic Retrieval-Augmented Generation (RAG) methods elicit the medical model's proactive retrieval ability during reasoning, they are confined to unimodal LLMs, neglecting the crucial visual information during reasoning and retrieval. Consequently, we propose the first Multimodal Medical Reasoning-with-Retrieval framework, Med-RwR, which actively retrieves external knowledge by querying observed symptoms or domain-specific medical concepts during reasoning. Specifically, we design a two-stage reinforcement learning strategy with tailored rewards that stimulate the model to leverage both visual diagnostic findings and textual clinical information for effective retrieval. Building on this foundation, we further propose a Confidence-Driven Image Re-retrieval (CDIR) method for test-time scaling when low prediction confidence is detected. Evaluation on various public medical benchmarks demonstrates Med-RwR's significant improvements over baseline models, proving the effectiveness of enhancing reasoning capabilities with external knowledge integration. Furthermore, Med-RwR demonstrates remarkable generalizability to unfamiliar domains, evidenced by 8.8% performance gain on our proposed EchoCardiography Benchmark (ECBench), despite the scarcity of echocardiography data in the training corpus. Our data, model, and codes will be made publicly available at https://github.com/xmed-lab/Med-RwR.

Kabir Hamzah Muhammad, Marawan Elbatel, Yi Qin et al.

Cardiovascular diseases (CVDs) remain the leading cause of mortality globally, and echocardiography is critical for diagnosis of both common and congenital cardiac conditions. However, echocardiographic data for certain pathologies are scarce, hindering the development of robust automated diagnosis models. In this work, we propose Echo-Path, a novel generative framework to produce echocardiogram videos conditioned on specific cardiac pathologies. Echo-Path can synthesize realistic ultrasound video sequences that exhibit targeted abnormalities, focusing here on atrial septal defect (ASD) and pulmonary arterial hypertension (PAH). Our approach introduces a pathology-conditioning mechanism into a state-of-the-art echo video generator, allowing the model to learn and control disease-specific structural and motion patterns in the heart. Quantitative evaluation demonstrates that the synthetic videos achieve low distribution distances, indicating high visual fidelity. Clinically, the generated echoes exhibit plausible pathology markers. Furthermore, classifiers trained on our synthetic data generalize well to real data and, when used to augment real training sets, it improves downstream diagnosis of ASD and PAH by 7\% and 8\% respectively. Code, weights and dataset are available here https://github.com/Marshall-mk/EchoPathv1

Yi Qin, Lehan Wang, Chenxu Zhao et al.

Echocardiographic diagnosis is vital for cardiac screening yet remains challenging. Existing echocardiography foundation models do not effectively capture the relationships between quantitative measurements and clinical manifestations, whereas medical reasoning multimodal large language models (MLLMs) require costly construction of detailed reasoning paths and remain ineffective at directly incorporating such echocardiographic priors into their reasoning. To address these limitations, we propose a novel approach comprising Cardiac Reasoning Template (CRT) and CardiacMind to enhance MLLM's echocardiographic reasoning by introducing cardiologist-like mindset. Specifically, CRT provides stepwise canonical diagnostic procedures for complex cardiac diseases to streamline reasoning path construction without the need for costly case-by-case verification. To incentivize reasoning MLLM under CRT, we develop CardiacMind, a new reinforcement learning scheme with three novel rewards: Procedural Quantity Reward (PQtR), Procedural Quality Reward (PQlR), and Echocardiographic Semantic Reward (ESR). PQtR promotes detailed reasoning; PQlR promotes integration of evidence across views and modalities, while ESR grounds stepwise descriptions in visual content. Our methods show a 48% improvement in multiview echocardiographic diagnosis for 15 complex cardiac diseases and a 5% improvement on CardiacNet-PAH over prior methods. The user study on our method's reasoning outputs shows 93.33% clinician agreement with cardiologist-like reasoning logic. Our code will be available.

Ethan Li, Anders Boesen Lindbo Larsen, Chen Zhang et al. · apple-ml, cmu

We introduce two multilingual, multimodal foundation language models that power Apple Intelligence features across Apple devices and services: i a 3B-parameter on-device model optimized for Apple silicon through architectural innovations such as KV-cache sharing and 2-bit quantization-aware training; and ii a scalable server model built on a novel Parallel-Track Mixture-of-Experts PT-MoE transformer that combines track parallelism, mixture-of-experts sparse computation, and interleaved global-local attention to deliver high quality with competitive cost on Apple's Private Cloud Compute platform. Both models are trained on large-scale multilingual and multimodal datasets sourced via responsible web crawling, licensed corpora, and high-quality synthetic data, then further refined with supervised fine-tuning and reinforcement learning on a new asynchronous platform. The resulting models support several additional languages while understanding images and executing tool calls. In public benchmarks and human evaluations, both the server model and the on-device model match or surpass comparably sized open baselines. A new Swift-centric Foundation Models framework exposes guided generation, constrained tool calling, and LoRA adapter fine-tuning, allowing developers to integrate these capabilities with a few lines of code. The latest advancements in Apple Intelligence models are grounded in our Responsible AI approach with safeguards like content filtering and locale-specific evaluation, as well as our commitment to protecting our users' privacy with innovations like Private Cloud Compute.

Honglong Yang, Shanshan Song, Yi Qin et al.

Generalist Medical AI (GMAI) systems have demonstrated expert-level performance in biomedical perception tasks, yet their clinical utility remains limited by inadequate multi-modal explainability and suboptimal prognostic capabilities. Here, we present XMedGPT, a clinician-centric, multi-modal AI assistant that integrates textual and visual interpretability to support transparent and trustworthy medical decision-making. XMedGPT not only produces accurate diagnostic and descriptive outputs, but also grounds referenced anatomical sites within medical images, bridging critical gaps in interpretability and enhancing clinician usability. To support real-world deployment, we introduce a reliability indexing mechanism that quantifies uncertainty through consistency-based assessment via interactive question-answering. We validate XMedGPT across four pillars: multi-modal interpretability, uncertainty quantification, and prognostic modeling, and rigorous benchmarking. The model achieves an IoU of 0.703 across 141 anatomical regions, and a Kendall's tau-b of 0.479, demonstrating strong alignment between visual rationales and clinical outcomes. For uncertainty estimation, it attains an AUC of 0.862 on visual question answering and 0.764 on radiology report generation. In survival and recurrence prediction for lung and glioma cancers, it surpasses prior leading models by 26.9%, and outperforms GPT-4o by 25.0%. Rigorous benchmarking across 347 datasets covers 40 imaging modalities and external validation spans 4 anatomical systems confirming exceptional generalizability, with performance gains surpassing existing GMAI by 20.7% for in-domain evaluation and 16.7% on 11,530 in-house data evaluation. Together, XMedGPT represents a significant leap forward in clinician-centric AI integration, offering trustworthy and scalable support for diverse healthcare applications.

Yi Qin, Rui Wang, Tao Huang et al.

While the Segment Anything Model (SAM) transforms interactive segmentation with zero-shot abilities, its inherent vulnerabilities present a single-point risk, potentially leading to the failure of numerous downstream applications. Proactively evaluating these transferable vulnerabilities is thus imperative. Prior adversarial attacks on SAM often present limited transferability due to insufficient exploration of common weakness across domains. To address this, we propose Vertex-Refining Simplicial Complex Attack (VeSCA), a novel method that leverages only the encoder of SAM for generating transferable adversarial examples. Specifically, it achieves this by explicitly characterizing the shared vulnerable regions between SAM and downstream models through a parametric simplicial complex. Our goal is to identify such complexes within adversarially potent regions by iterative vertex-wise refinement. A lightweight domain re-adaptation strategy is introduced to bridge domain divergence using minimal reference data during the initialization of simplicial complex. Ultimately, VeSCA generates consistently transferable adversarial examples through random simplicial complex sampling. Extensive experiments demonstrate that VeSCA achieves performance improved by 12.7% compared to state-of-the-art methods across three downstream model categories across five domain-specific datasets. Our findings further highlight the downstream model risks posed by SAM's vulnerabilities and emphasize the urgency of developing more robust foundation models.

Xinyue Xu, Yueying Hu, Hui Tang et al.

Concept Bottleneck Models (CBMs) enhance interpretability by explaining predictions through human-understandable concepts but typically assume that training and test data share the same distribution. This assumption often fails under domain shifts, leading to degraded performance and poor generalization. To address these limitations and improve the robustness of CBMs, we propose the Concept-based Unsupervised Domain Adaptation (CUDA) framework. CUDA is designed to: (1) align concept representations across domains using adversarial training, (2) introduce a relaxation threshold to allow minor domain-specific differences in concept distributions, thereby preventing performance drop due to over-constraints of these distributions, (3) infer concepts directly in the target domain without requiring labeled concept data, enabling CBMs to adapt to diverse domains, and (4) integrate concept learning into conventional domain adaptation (DA) with theoretical guarantees, improving interpretability and establishing new benchmarks for DA. Experiments demonstrate that our approach significantly outperforms the state-of-the-art CBM and DA methods on real-world datasets.

Haonan Wang, Jiaji Mao, Lehan Wang et al.

Medical AI assistants support doctors in disease diagnosis, medical image analysis, and report generation. However, they still face significant challenges in clinical use, including limited accuracy with multimodal content and insufficient validation in real-world settings. We propose RCMed, a full-stack AI assistant that improves multimodal alignment in both input and output, enabling precise anatomical delineation, accurate localization, and reliable diagnosis through hierarchical vision-language grounding. A self-reinforcing correlation mechanism allows visual features to inform language context, while language semantics guide pixel-wise attention, forming a closed loop that refines both modalities. This correlation is enhanced by a color region description strategy, translating anatomical structures into semantically rich text to learn shape-location-text relationships across scales. Trained on 20 million image-mask-description triplets, RCMed achieves state-of-the-art precision in contextualizing irregular lesions and subtle anatomical boundaries, excelling in 165 clinical tasks across 9 modalities. It achieved a 23.5% relative improvement in cell segmentation from microscopy images over prior methods. RCMed's strong vision-language alignment enables exceptional generalization, with state-of-the-art performance in external validation across 20 clinically significant cancer types, including novel tasks. This work demonstrates how integrated multimodal models capture fine-grained patterns, enabling human-level interpretation in complex scenarios and advancing human-centric AI healthcare.

Kendall Schmidt, Benjamin Bearce, Ken Chang et al.

The correct interpretation of breast density is important in the assessment of breast cancer risk. AI has been shown capable of accurately predicting breast density, however, due to the differences in imaging characteristics across mammography systems, models built using data from one system do not generalize well to other systems. Though federated learning (FL) has emerged as a way to improve the generalizability of AI without the need to share data, the best way to preserve features from all training data during FL is an active area of research. To explore FL methodology, the breast density classification FL challenge was hosted in partnership with the American College of Radiology, Harvard Medical School's Mass General Brigham, University of Colorado, NVIDIA, and the National Institutes of Health National Cancer Institute. Challenge participants were able to submit docker containers capable of implementing FL on three simulated medical facilities, each containing a unique large mammography dataset. The breast density FL challenge ran from June 15 to September 5, 2022, attracting seven finalists from around the world. The winning FL submission reached a linear kappa score of 0.653 on the challenge test data and 0.413 on an external testing dataset, scoring comparably to a model trained on the same data in a central location.

Xinyue Xu, Yi Qin, Lu Mi et al.

Existing methods, such as concept bottleneck models (CBMs), have been successful in providing concept-based interpretations for black-box deep learning models. They typically work by predicting concepts given the input and then predicting the final class label given the predicted concepts. However, (1) they often fail to capture the high-order, nonlinear interaction between concepts, e.g., correcting a predicted concept (e.g., "yellow breast") does not help correct highly correlated concepts (e.g., "yellow belly"), leading to suboptimal final accuracy; (2) they cannot naturally quantify the complex conditional dependencies between different concepts and class labels (e.g., for an image with the class label "Kentucky Warbler" and a concept "black bill", what is the probability that the model correctly predicts another concept "black crown"), therefore failing to provide deeper insight into how a black-box model works. In response to these limitations, we propose Energy-based Concept Bottleneck Models (ECBMs). Our ECBMs use a set of neural networks to define the joint energy of candidate (input, concept, class) tuples. With such a unified interface, prediction, concept correction, and conditional dependency quantification are then represented as conditional probabilities, which are generated by composing different energy functions. Our ECBMs address both limitations of existing CBMs, providing higher accuracy and richer concept interpretations. Empirical results show that our approach outperforms the state-of-the-art on real-world datasets.

Minghuang Ma, Hadi Pouransari, Daniel Chao et al.

The interest and demand for training deep neural networks have been experiencing rapid growth, spanning a wide range of applications in both academia and industry. However, training them distributed and at scale remains difficult due to the complex ecosystem of tools and hardware involved. One consequence is that the responsibility of orchestrating these complex components is often left to one-off scripts and glue code customized for specific problems. To address these restrictions, we introduce \emph{Alchemist} - an internal service built at Apple from the ground up for \emph{easy}, \emph{fast}, and \emph{scalable} distributed training. We discuss its design, implementation, and examples of running different flavors of distributed training. We also present case studies of its internal adoption in the development of autonomous systems, where training times have been reduced by 10x to keep up with the ever-growing data collection.

Yi Qin, Tao Xie, Chang Xu et al.

Cyber-physical software continually interacts with its physical environment for adaptation in order to deliver smart services. However, the interactions can be subject to various errors when the software's assumption on its environment no longer holds, thus leading to unexpected misbehavior or even failure. To address this problem, one promising way is to conduct runtime monitoring of invariants, so as to prevent cyber-physical software from entering such errors (a.k.a. abnormal states). To effectively detect abnormal states, we in this article present an approach, named Context-based Multi-Invariant Detection (CoMID), which consists of two techniques: context-based trace grouping and multi-invariant detection. The former infers contexts to distinguish different effective scopes for CoMID's derived invariants, and the latter conducts ensemble evaluation of multiple invariants to detect abnormal states. We experimentally evaluate CoMID on real-world cyber-physical software. The results show that CoMID achieves a 5.7-28.2% higher true-positive rate and a 6.8-37.6% lower false-positive rate in detecting abnormal states, as compared with state-of-the-art approaches (i.e., Daikon and ZoomIn). When deployed in field tests, CoMID's runtime monitoring improves the success rate of cyber-physical software in its task executions by 15.3-31.7%.

Xin Wang, Lejun Zou, Xiaohua Shen et al.

Conventional manual surveys of rock mass fractures usually require large amounts of time and labor; yet, they provide a relatively small set of data that cannot be considered representative of the study region. Terrestrial laser scanners are increasingly used for fracture surveys because they can efficiently acquire large area, high-resolution, three-dimensional (3D) point clouds from outcrops. However, extracting fractures and other planar surfaces from 3D outcrop point clouds is still a challenging task. No method has been reported that can be used to automatically extract the full extent of every individual fracture from a 3D outcrop point cloud. In this study, we propose a method using a region-growing approach to address this problem; the method also estimates the orientation of each fracture. In this method, criteria based on the local surface normal and curvature of the point cloud are used to initiate and control the growth of the fracture region. In tests using outcrop point cloud data, the proposed method identified and extracted the full extent of individual fractures with high accuracy. Compared with manually acquired field survey data, our method obtained better-quality fracture data, thereby demonstrating the high potential utility of the proposed method.