Yu Cai

Yu Cai, Hao Chen, Xin Yang et al.

Chest X-ray (CXR) is the most typical radiological exam for diagnosis of various diseases. Due to the expensive and time-consuming annotations, detecting anomalies in CXRs in an unsupervised fashion is very promising. However, almost all of the existing methods consider anomaly detection as a one-class classification (OCC) problem. They model the distribution of only known normal images during training and identify the samples not conforming to normal profile as anomalies in the testing phase. A large number of unlabeled images containing anomalies are thus ignored in the training phase, although they are easy to obtain in clinical practice. In this paper, we propose a novel strategy, Dual-distribution Discrepancy for Anomaly Detection (DDAD), utilizing both known normal images and unlabeled images. The proposed method consists of two modules. During training, one module takes both known normal and unlabeled images as inputs, capturing anomalous features from unlabeled images in some way, while the other one models the distribution of only known normal images. Subsequently, inter-discrepancy between the two modules, and intra-discrepancy inside the module that is trained on only normal images are designed as anomaly scores to indicate anomalies. Experiments on three CXR datasets demonstrate that the proposed DDAD achieves consistent, significant gains and outperforms state-of-the-art methods. Code is available at https://github.com/caiyu6666/DDAD.

Ling Liang, Jiabo Ma, Zhengyu Zhang et al.

Gastric cancer remains a major cause of cancer mortality, yet its histological and molecular heterogeneity complicates diagnosis and risk stratification. General-purpose pathology foundation models (PFMs) often plateau on fine-grained endpoints central to gastric cancer care, and few have undergone rigorous prospective validation or clinical reader studies. We present GRACE, a Gastric-specific foundation model for Real-world Assessment and Clinical dEcision support. GRACE was developed from multicenter gastric pathology datasets totaling 48,364 primarily HE-stained whole-slide images from 37,493 patients. When evaluated on 28 clinically relevant tasks, GRACE consistently outperformed representative pancancer PFMs, achieving a macro-AUC of 0.9188, with strong performance for precancerous lesion diagnosis (macro-AUC 0.9322), tumor histopathological assessment (macro-AUC 0.9119), molecular profiling (macro-AUC 0.8682), and prognostic prediction. Beyond benchmarking, GRACE's translational value was substantiated through a rigorous evidence chain. Under safety-gated criteria requiring 100% NPV for rule-out and 100% PPV for rule-in, GRACE streamlined review for up to 69.6% of malignancy-diagnosis cases and triaged 46.8% of MMR-IHC follow-up requests. This translational feasibility was further strengthened by a randomized crossover reader study of pathologist-AI collaboration. With GRACE assistance, diagnostic accuracy improved from 82.0% to 89.9%, yielding nearly twofold higher adjusted odds of a correct diagnosis (OR 1.987) alongside concurrent gains in sensitivity and specificity. AI assistance also reduced diagnostic time by 14.9%, elevated diagnostic confidence by 9.0%, and markedly improved inter-rater agreement. When calibrated to maintain non-inferior performance to senior pathologists, the AI-assisted workflow could triage 60.7% of atrophy and 82.7% of intestinal metaplasia cases.

Yu Cai, Hao Chen, Xin Yang et al.

Medical anomaly detection is a crucial yet challenging task aimed at recognizing abnormal images to assist in diagnosis. Due to the high-cost annotations of abnormal images, most methods utilize only known normal images during training and identify samples deviating from the normal profile as anomalies in the testing phase. Many readily available unlabeled images containing anomalies are thus ignored in the training phase, restricting the performance. To solve this problem, we introduce one-class semi-supervised learning (OC-SSL) to utilize known normal and unlabeled images for training, and propose Dual-distribution Discrepancy for Anomaly Detection (DDAD) based on this setting. Ensembles of reconstruction networks are designed to model the distribution of normal images and the distribution of both normal and unlabeled images, deriving the normative distribution module (NDM) and unknown distribution module (UDM). Subsequently, the intra-discrepancy of NDM and inter-discrepancy between the two modules are designed as anomaly scores. Furthermore, we propose a new perspective on self-supervised learning, which is designed to refine the anomaly scores rather than detect anomalies directly. Five medical datasets, including chest X-rays, brain MRIs and retinal fundus images, are organized as benchmarks for evaluation. Experiments on these benchmarks comprehensively compare a wide range of anomaly detection methods and demonstrate that our method achieves significant gains and outperforms the state-of-the-art. Code and organized benchmarks are available at https://github.com/caiyu6666/DDAD-ASR.

Jiabo Ma, Zhengrui Guo, Fengtao Zhou et al.

Foundation models pretrained on large-scale datasets are revolutionizing the field of computational pathology (CPath). The generalization ability of foundation models is crucial for the success in various downstream clinical tasks. However, current foundation models have only been evaluated on a limited type and number of tasks, leaving their generalization ability and overall performance unclear. To address this gap, we established a most comprehensive benchmark to evaluate the performance of off-the-shelf foundation models across six distinct clinical task types, encompassing a total of 72 specific tasks, including slide-level classification, survival prediction, ROI-tissue classification, ROI retrieval, visual question answering, and report generation. Our findings reveal that existing foundation models excel at certain task types but struggle to effectively handle the full breadth of clinical tasks. To improve the generalization of pathology foundation models, we propose a unified knowledge distillation framework consisting of both expert and self-knowledge distillation, where the former allows the model to learn from the knowledge of multiple expert models, while the latter leverages self-distillation to enable image representation learning via local-global alignment. Based on this framework, we curated a dataset of 96,000 whole slide images (WSIs) and developed a Generalizable Pathology Foundation Model (GPFM). This advanced model was trained on a substantial dataset comprising 190 million images extracted from approximately 72,000 publicly available slides, encompassing 34 major tissue types. Evaluated on the established benchmark, GPFM achieves an impressive average rank of 1.6, with 42 tasks ranked 1st, while the second-best model, UNI, attains an average rank of 3.7, with only 6 tasks ranked 1st.

Zhengrui Guo, Zhengyu Zhang, Jiabo Ma et al.

Pathological assessment guides lung cancer diagnosis, treatment selection, and prognostic evaluation, yet current CPath approaches rely on task-specific models for isolated objectives. Although pan-cancer foundation models offer versatility, they lack subspecialty-level depth and have not been evaluated across clinical workflows or prospectively validated in real-world settings. We introduce PulmoFoundation, a multi-center, prospectively validated, randomized controlled trial (RCT)-evaluated foundation model for comprehensive lung pathology assessment across pre-operative, intra-operative, and post-operative care. Built upon Virchow2 via subspecialty-specific pretraining using ~40,000 diagnostic H&E-stained whole-slide images (WSIs), PulmoFoundation was systematically evaluated on ~26,000 WSIs across 32 clinically relevant tasks. In addition to accurately predicting molecular markers and patient survival, our model achieves clinical-grade performance in core diagnostic tasks across biopsy, frozen section, and surgical resection slides. In a registered prospective study of 1,357 patients across 11 diagnostic tasks, our model achieved an average AUC of 92.3%. Using pre-specified triage thresholds, PulmoFoundation could reduce additional second-review burden for 68.8% of biopsies and 83.0% of frozen sections, and defer 44.5% of IHC stain orders, with PPVs of 1.0, 0.991, and 0.966. Beyond prospective validation, we conducted a crossover RCT with eight pathologists, in which AI assistance improved diagnostic accuracy across 4,928 case-reader pairs (91.7% w/ AI vs. 83.8% w/o AI). AI assistance also reduced median diagnostic time by 19.6%, increased diagnostic confidence by 8.7%, and improved inter-rater agreement from moderate (kappa = 0.56) to substantial (kappa = 0.76). Together, these evaluations support PulmoFoundation as a clinically validated decision-support system for lung pathology.

Rui Xu, Shu Yang, Yihui Wang et al.

Mamba, a recent selective structured state space model, excels in long sequence modeling, which is vital in the large model era. Long sequence modeling poses significant challenges, including capturing long-range dependencies within the data and handling the computational demands caused by their extensive length. Mamba addresses these challenges by overcoming the local perception limitations of convolutional neural networks and the quadratic computational complexity of Transformers. Given its advantages over these mainstream foundation architectures, Mamba exhibits great potential to be a visual foundation architecture. Since January 2024, Mamba has been actively applied to diverse computer vision tasks, yielding numerous contributions. To help keep pace with the rapid advancements, this paper reviews visual Mamba approaches, analyzing over 200 papers. This paper begins by delineating the formulation of the original Mamba model. Subsequently, it delves into representative backbone networks, and applications categorized using different modalities, including image, video, point cloud, and multi-modal data. Particularly, we identify scanning techniques as critical for adapting Mamba to vision tasks, and decouple these scanning techniques to clarify their functionality and enhance their flexibility across various applications. Finally, we discuss the challenges and future directions, providing insights into new outlooks in this fast evolving area. A comprehensive list of visual Mamba models reviewed in this work is available at https://github.com/Ruixxxx/Awesome-Vision-Mamba-Models.

Yijia Guo, Yuanxi Bai, Liwen Hu et al.

We proposed Precomputed RadianceTransfer of GaussianSplats (PRTGS), a real-time high-quality relighting method for Gaussian splats in low-frequency lighting environments that captures soft shadows and interreflections by precomputing 3D Gaussian splats' radiance transfer. Existing studies have demonstrated that 3D Gaussian splatting (3DGS) outperforms neural fields' efficiency for dynamic lighting scenarios. However, the current relighting method based on 3DGS still struggles to compute high-quality shadow and indirect illumination in real time for dynamic light, leading to unrealistic rendering results. We solve this problem by precomputing the expensive transport simulations required for complex transfer functions like shadowing, the resulting transfer functions are represented as dense sets of vectors or matrices for every Gaussian splat. We introduce distinct precomputing methods tailored for training and rendering stages, along with unique ray tracing and indirect lighting precomputation techniques for 3D Gaussian splats to accelerate training speed and compute accurate indirect lighting related to environment light. Experimental analyses demonstrate that our approach achieves state-of-the-art visual quality while maintaining competitive training times and allows high-quality real-time (30+ fps) relighting for dynamic light and relatively complex scenes at 1080p resolution.

Yu Cai, Weiwen Zhang, Hao Chen et al.

Anomaly detection (AD) aims at detecting abnormal samples that deviate from the expected normal patterns. Generally, it can be trained merely on normal data, without a requirement for abnormal samples, and thereby plays an important role in rare disease recognition and health screening in the medical domain. Despite the emergence of numerous methods for medical AD, the lack of a fair and comprehensive evaluation causes ambiguous conclusions and hinders the development of this field. To address this problem, this paper builds a benchmark with unified comparison. Seven medical datasets with five image modalities, including chest X-rays, brain MRIs, retinal fundus images, dermatoscopic images, and histopathology images, are curated for extensive evaluation. Thirty typical AD methods, including reconstruction and self-supervised learning-based methods, are involved in comparison of image-level anomaly classification and pixel-level anomaly segmentation. Furthermore, for the first time, we systematically investigate the effect of key components in existing methods, revealing unresolved challenges and potential future directions. The datasets and code are available at https://github.com/caiyu6666/MedIAnomaly.

Yu Cai, Canxi Huang, Xiaoyu He

Continuous prompt search offers a computationally efficient alternative to conventional parameter tuning in natural language processing tasks. Nevertheless, its practical effectiveness can be significantly hindered by the black-box nature and the inherent high-dimensionality of the objective landscapes. Existing methods typically mitigate these challenges by restricting the search to a randomly projected low-dimensional subspace. However, the effectiveness and underlying motivation of the projection mechanism remain ambiguous. In this paper, we first empirically demonstrate that despite the prompt space possessing a low-dimensional structure, random projections fail to adequately capture this essential structure. Motivated by this finding, we propose a projection-free prompt search method based on evolutionary strategies. By directly optimizing in the full prompt space with an adaptation mechanism calibrated to the intrinsic dimension, our method achieves competitive search capabilities without additional computational overhead. Furthermore, to bridge the generalization gap in few-shot scenarios, we introduce a confidence-based regularization mechanism that systematically enhances the model's confidence in the target verbalizers. Experimental results on seven natural language understanding tasks from the GLUE benchmark demonstrate that our proposed approach significantly outperforms existing baselines.

Yu Cai, Hao Chen, Kwang-Ting Cheng

Medical anomaly detection aims to identify abnormal findings using only normal training data, playing a crucial role in health screening and recognizing rare diseases. Reconstruction-based methods, particularly those utilizing autoencoders (AEs), are dominant in this field. They work under the assumption that AEs trained on only normal data cannot reconstruct unseen abnormal regions well, thereby enabling the anomaly detection based on reconstruction errors. However, this assumption does not always hold due to the mismatch between the reconstruction training objective and the anomaly detection task objective, rendering these methods theoretically unsound. This study focuses on providing a theoretical foundation for AE-based reconstruction methods in anomaly detection. By leveraging information theory, we elucidate the principles of these methods and reveal that the key to improving AE in anomaly detection lies in minimizing the information entropy of latent vectors. Experiments on four datasets with two image modalities validate the effectiveness of our theory. To the best of our knowledge, this is the first effort to theoretically clarify the principles and design philosophy of AE for anomaly detection. The code is available at \url{https://github.com/caiyu6666/AE4AD}.

Xiaotang Jiang, Huan Wang, Yiliu Chen et al.

Deploying deep learning models on mobile devices draws more and more attention recently. However, designing an efficient inference engine on devices is under the great challenges of model compatibility, device diversity, and resource limitation. To deal with these challenges, we propose Mobile Neural Network (MNN), a universal and efficient inference engine tailored to mobile applications. In this paper, the contributions of MNN include: (1) presenting a mechanism called pre-inference that manages to conduct runtime optimization; (2)deliveringthorough kernel optimization on operators to achieve optimal computation performance; (3) introducing backend abstraction module which enables hybrid scheduling and keeps the engine lightweight. Extensive benchmark experiments demonstrate that MNN performs favorably against other popular lightweight deep learning frameworks. MNN is available to public at: https://github.com/alibaba/MNN.

Xiaoyu He, Yu Cai, Jin Jia et al.

This work proposes Alada, an adaptive momentum method for stochastic optimization over large-scale matrices. Alada employs a rank-one factorization approach to estimate the second moment of gradients, where factors are updated alternatively to minimize the estimation error. Alada achieves sublinear memory overheads and can be readily extended to optimizing tensor-shaped variables.We also equip Alada with a first moment estimation rule, which enhances the algorithm's robustness without incurring additional memory overheads. The theoretical performance of Alada aligns with that of traditional methods such as Adam. Numerical studies conducted on several natural language processing tasks demonstrate the reduction in memory overheads and the robustness in training large models relative to Adam and its variants.

Yu Cai, Cheng Jin, Jiabo Ma et al.

Pathology foundation models (PFMs) have enabled robust generalization in computational pathology through large-scale datasets and expansive architectures, but their substantial computational cost, particularly for gigapixel whole slide images, limits clinical accessibility and scalability. Here, we present LitePath, a deployment-friendly foundational framework designed to mitigate model over-parameterization and patch level redundancy. LitePath integrates LiteFM, a compact model distilled from three large PFMs (Virchow2, H-Optimus-1 and UNI2) using 190 million patches, and the Adaptive Patch Selector (APS), a lightweight component for task-specific patch selection. The framework reduces model parameters by 28x and lowers FLOPs by 403.5x relative to Virchow2, enabling deployment on low-power edge hardware such as the NVIDIA Jetson Orin Nano Super. On this device, LitePath processes 208 slides per hour, 104.5x faster than Virchow2, and consumes 0.36 kWh per 3,000 slides, 171x lower than Virchow2 on an RTX3090 GPU. We validated accuracy using 37 cohorts across four organs and 26 tasks (26 internal, 9 external, and 2 prospective), comprising 15,672 slides from 9,808 patients disjoint from the pretraining data. LitePath ranks second among 19 evaluated models and outperforms larger models including H-Optimus-1, mSTAR, UNI2 and GPFM, while retaining 99.71% of the AUC of Virchow2 on average. To quantify the balance between accuracy and efficiency, we propose the Deployability Score (D-Score), defined as the weighted geometric mean of normalized AUC and normalized FLOP, where LitePath achieves the highest value, surpassing Virchow2 by 10.64%. These results demonstrate that LitePath enables rapid, cost-effective and energy-efficient pathology image analysis on accessible hardware while maintaining accuracy comparable to state-of-the-art PFMs and reducing the carbon footprint of AI deployment.

Christian William, Patrick Remy, Jean-Daniel Bancal et al.

Inferring causal models from observed correlations is a challenging task, crucial to many areas of science. In order to alleviate the effort, it is important to know whether symmetries in the observations correspond to symmetries in the underlying realization. Via an explicit example, we answer this question in the negative. We use a tripartite probability distribution over binary events that is realized by using three (different) independent sources of classical randomness. We prove that even removing the condition that the sources distribute systems described by classical physics, the requirements that i) the sources distribute the same physical systems, ii) these physical systems respect relativistic causality, and iii) the correlations are the observed ones, are incompatible.

Yu Cai, Tianyu Shen, Shi-Sheng Huang et al.

Depth completion, aiming to predict dense depth maps from sparse depth measurements, plays a crucial role in many computer vision related applications. Deep learning approaches have demonstrated overwhelming success in this task. However, high-precision depth completion without relying on the ground-truth data, which are usually costly, still remains challenging. The reason lies on the ignorance of 3D structural information in most previous unsupervised solutions, causing inaccurate spatial propagation and mixed-depth problems. To alleviate the above challenges, this paper explores the utilization of 3D perceptual features and multi-view geometry consistency to devise a high-precision self-supervised depth completion method. Firstly, a 3D perceptual spatial propagation algorithm is constructed with a point cloud representation and an attention weighting mechanism to capture more reasonable and favorable neighboring features during the iterative depth propagation process. Secondly, the multi-view geometric constraints between adjacent views are explicitly incorporated to guide the optimization of the whole depth completion model in a self-supervised manner. Extensive experiments on benchmark datasets of NYU-Depthv2 and VOID demonstrate that the proposed model achieves the state-of-the-art depth completion performance compared with other unsupervised methods, and competitive performance compared with previous supervised methods.

Tamás Kriváchy, Yu Cai, Joseph Bowles et al.

Semidefinite programming is an important optimization task, often used in time-sensitive applications. Though they are solvable in polynomial time, in practice they can be too slow to be used in online, i.e. real-time applications. Here we propose to solve feasibility semidefinite programs using artificial neural networks. Given the optimization constraints as an input, a neural network outputs values for the optimization parameters such that the constraints are satisfied, both for the primal and the dual formulations of the task. We train the network without having to exactly solve the semidefinite program even once, thus avoiding the possibly time-consuming task of having to generate many training samples with conventional solvers. The neural network method is only inconclusive if both the primal and dual models fail to provide feasible solutions. Otherwise we always obtain a certificate, which guarantees false positives to be excluded. We examine the performance of the method on a hierarchy of quantum information tasks, the Navascués-Pironio-Acín hierarchy applied to the Bell scenario. We demonstrate that the trained neural network gives decent accuracy, while showing orders of magnitude increase in speed compared to a traditional solver.

Tamás Kriváchy, Yu Cai, Daniel Cavalcanti et al.

Characterizing quantum nonlocality in networks is a challenging, but important problem. Using quantum sources one can achieve distributions which are unattainable classically. A key point in investigations is to decide whether an observed probability distribution can be reproduced using only classical resources. This causal inference task is challenging even for simple networks, both analytically and using standard numerical techniques. We propose to use neural networks as numerical tools to overcome these challenges, by learning the classical strategies required to reproduce a distribution. As such, the neural network acts as an oracle, demonstrating that a behavior is classical if it can be learned. We apply our method to several examples in the triangle configuration. After demonstrating that the method is consistent with previously known results, we give solid evidence that the distribution presented in [N. Gisin, Entropy 21(3), 325 (2019)] is indeed nonlocal as conjectured. Finally we examine the genuinely nonlocal distribution presented in [M.-O. Renou et al., PRL 123, 140401 (2019)], and, guided by the findings of the neural network, conjecture nonlocality in a new range of parameters in these distributions. The method allows us to get an estimate on the noise robustness of all examined distributions.

Risheng Liu, Jing Wang, Yiyang Wang et al.

In this paper, we propose a novel sparse coding and counting method under Bayesian framwork for visual tracking. In contrast to existing methods, the proposed method employs the combination of L0 and L1 norm to regularize the linear coefficients of incrementally updated linear basis. The sparsity constraint enables the tracker to effectively handle difficult challenges, such as occlusion or image corruption. To achieve realtime processing, we propose a fast and efficient numerical algorithm for solving the proposed model. Although it is an NP-hard problem, the proposed accelerated proximal gradient (APG) approach is guaranteed to converge to a solution quickly. Besides, we provide a closed solution of combining L0 and L1 regularized representation to obtain better sparsity. Experimental results on challenging video sequences demonstrate that the proposed method achieves state-of-the-art results both in accuracy and speed.