Ke Yan

Jiaming Han, Yuqiang Ren, Jian Ding et al.

As few-shot object detectors are often trained with abundant base samples and fine-tuned on few-shot novel examples,the learned models are usually biased to base classes and sensitive to the variance of novel examples. To address this issue, we propose a meta-learning framework with two novel feature aggregation schemes. More precisely, we first present a Class-Agnostic Aggregation (CAA) method, where the query and support features can be aggregated regardless of their categories. The interactions between different classes encourage class-agnostic representations and reduce confusion between base and novel classes. Based on the CAA, we then propose a Variational Feature Aggregation (VFA) method, which encodes support examples into class-level support features for robust feature aggregation. We use a variational autoencoder to estimate class distributions and sample variational features from distributions that are more robust to the variance of support examples. Besides, we decouple classification and regression tasks so that VFA is performed on the classification branch without affecting object localization. Extensive experiments on PASCAL VOC and COCO demonstrate that our method significantly outperforms a strong baseline (up to 16\%) and previous state-of-the-art methods (4\% in average). Code will be available at: \url{https://github.com/csuhan/VFA}

Jiaming Han, Yuqiang Ren, Jian Ding et al.

Modern object detectors have achieved impressive progress under the close-set setup. However, open-set object detection (OSOD) remains challenging since objects of unknown categories are often misclassified to existing known classes. In this work, we propose to identify unknown objects by separating high/low-density regions in the latent space, based on the consensus that unknown objects are usually distributed in low-density latent regions. As traditional threshold-based methods only maintain limited low-density regions, which cannot cover all unknown objects, we present a novel Open-set Detector (OpenDet) with expanded low-density regions. To this aim, we equip OpenDet with two learners, Contrastive Feature Learner (CFL) and Unknown Probability Learner (UPL). CFL performs instance-level contrastive learning to encourage compact features of known classes, leaving more low-density regions for unknown classes; UPL optimizes unknown probability based on the uncertainty of predictions, which further divides more low-density regions around the cluster of known classes. Thus, unknown objects in low-density regions can be easily identified with the learned unknown probability. Extensive experiments demonstrate that our method can significantly improve the OSOD performance, e.g., OpenDet reduces the Absolute Open-Set Errors by 25%-35% on six OSOD benchmarks. Code is available at: https://github.com/csuhan/opendet2.

Lin Tian, Zi Li, Fengze Liu et al. · harvard

Image registration is a fundamental medical image analysis task. Ideally, registration should focus on aligning semantically corresponding voxels, i.e., the same anatomical locations. However, existing methods often optimize similarity measures computed directly on intensities or on hand-crafted features, which lack anatomical semantic information. These similarity measures may lead to sub-optimal solutions where large deformations, complex anatomical differences, or cross-modality imagery exist. In this work, we introduce a fast and accurate method for unsupervised 3D medical image registration building on top of a Self-supervised Anatomical eMbedding (SAM) algorithm, which is capable of computing dense anatomical correspondences between two images at the voxel level. We name our approach SAM-Enhanced registration (SAME++), which decomposes image registration into four steps: affine transformation, coarse deformation, deep non-parametric transformation, and instance optimization. Using SAM embeddings, we enhance these steps by finding more coherent correspondence and providing features with better semantic guidance. We extensively evaluated SAME++ using more than 50 labeled organs on three challenging inter-subject registration tasks of different body parts. As a complete registration framework, SAME++ markedly outperforms leading methods by $4.2\%$ - $8.2\%$ in terms of Dice score while being orders of magnitude faster than numerical optimization-based methods. Code is available at \url{https://github.com/alibaba-damo-academy/same}.

Zi Li, Lin Tian, Tony C. W. Mok et al. · harvard

Estimating displacement vector field via a cost volume computed in the feature space has shown great success in image registration, but it suffers excessive computation burdens. Moreover, existing feature descriptors only extract local features incapable of representing the global semantic information, which is especially important for solving large transformations. To address the discussed issues, we propose SAMConvex, a fast coarse-to-fine discrete optimization method for CT registration that includes a decoupled convex optimization procedure to obtain deformation fields based on a self-supervised anatomical embedding (SAM) feature extractor that captures both local and global information. To be specific, SAMConvex extracts per-voxel features and builds 6D correlation volumes based on SAM features, and iteratively updates a flow field by performing lookups on the correlation volumes with a coarse-to-fine scheme. SAMConvex outperforms the state-of-the-art learning-based methods and optimization-based methods over two inter-patient registration datasets (Abdomen CT and HeadNeck CT) and one intra-patient registration dataset (Lung CT). Moreover, as an optimization-based method, SAMConvex only takes $\sim2$s ($\sim5s$ with instance optimization) for one paired images.

Heng Guo, Jianfeng Zhang, Ke Yan et al.

Automatic parsing of human anatomies at the instance-level from 3D computed tomography (CT) is a prerequisite step for many clinical applications. The presence of pathologies, broken structures or limited field-of-view (FOV) can all make anatomy parsing algorithms vulnerable. In this work, we explore how to leverage and implement the successful detection-then-segmentation paradigm for 3D medical data, and propose a steerable, robust, and efficient computing framework for detection, identification, and segmentation of anatomies in CT scans. Considering the complicated shapes, sizes, and orientations of anatomies, without loss of generality, we present a nine degrees of freedom (9-DoF) pose estimation solution in full 3D space using a novel single-stage, non-hierarchical representation. Our whole framework is executed in a steerable manner where any anatomy of interest can be directly retrieved to further boost inference efficiency. We have validated our method on three medical imaging parsing tasks: ribs, spine, and abdominal organs. For rib parsing, CT scans have been annotated at the rib instance-level for quantitative evaluation, similarly for spine vertebrae and abdominal organs. Extensive experiments on 9-DoF box detection and rib instance segmentation demonstrate the high efficiency and effectiveness of our framework (with the identification rate of 97.0% and the segmentation Dice score of 90.9%), compared favorably against several strong baselines (e.g., CenterNet, FCOS, and nnU-Net). For spine parsing and abdominal multi-organ segmentation, our method achieves competitive results on par with state-of-the-art methods on the public CTSpine1K dataset and FLARE22 competition, respectively. Our annotations, code, and models are available at: https://github.com/alibaba-damo-academy/Med_Query.

Yankai Jiang, Mingze Sun, Heng Guo et al.

Self-supervised learning (SSL) has recently achieved promising performance for 3D medical image analysis tasks. Most current methods follow existing SSL paradigm originally designed for photographic or natural images, which cannot explicitly and thoroughly exploit the intrinsic similar anatomical structures across varying medical images. This may in fact degrade the quality of learned deep representations by maximizing the similarity among features containing spatial misalignment information and different anatomical semantics. In this work, we propose a new self-supervised learning framework, namely Alice, that explicitly fulfills Anatomical invariance modeling and semantic alignment via elaborately combining discriminative and generative objectives. Alice introduces a new contrastive learning strategy which encourages the similarity between views that are diversely mined but with consistent high-level semantics, in order to learn invariant anatomical features. Moreover, we design a conditional anatomical feature alignment module to complement corrupted embeddings with globally matched semantics and inter-patch topology information, conditioned by the distribution of local image content, which permits to create better contrastive pairs. Our extensive quantitative experiments on three 3D medical image analysis tasks demonstrate and validate the performance superiority of Alice, surpassing the previous best SSL counterpart methods and showing promising ability for united representation learning. Codes are available at https://github.com/alibaba-damo-academy/alice.

Jieneng Chen, Yingda Xia, Jiawen Yao et al.

Human readers or radiologists routinely perform full-body multi-organ multi-disease detection and diagnosis in clinical practice, while most medical AI systems are built to focus on single organs with a narrow list of a few diseases. This might severely limit AI's clinical adoption. A certain number of AI models need to be assembled non-trivially to match the diagnostic process of a human reading a CT scan. In this paper, we construct a Unified Tumor Transformer (CancerUniT) model to jointly detect tumor existence & location and diagnose tumor characteristics for eight major cancers in CT scans. CancerUniT is a query-based Mask Transformer model with the output of multi-tumor prediction. We decouple the object queries into organ queries, tumor detection queries and tumor diagnosis queries, and further establish hierarchical relationships among the three groups. This clinically-inspired architecture effectively assists inter- and intra-organ representation learning of tumors and facilitates the resolution of these complex, anatomically related multi-organ cancer image reading tasks. CancerUniT is trained end-to-end using a curated large-scale CT images of 10,042 patients including eight major types of cancers and occurring non-cancer tumors (all are pathology-confirmed with 3D tumor masks annotated by radiologists). On the test set of 631 patients, CancerUniT has demonstrated strong performance under a set of clinically relevant evaluation metrics, substantially outperforming both multi-disease methods and an assembly of eight single-organ expert models in tumor detection, segmentation, and diagnosis. This moves one step closer towards a universal high performance cancer screening tool.

Mingze Yuan, Yingda Xia, Hexin Dong et al.

Real-world medical image segmentation has tremendous long-tailed complexity of objects, among which tail conditions correlate with relatively rare diseases and are clinically significant. A trustworthy medical AI algorithm should demonstrate its effectiveness on tail conditions to avoid clinically dangerous damage in these out-of-distribution (OOD) cases. In this paper, we adopt the concept of object queries in Mask Transformers to formulate semantic segmentation as a soft cluster assignment. The queries fit the feature-level cluster centers of inliers during training. Therefore, when performing inference on a medical image in real-world scenarios, the similarity between pixels and the queries detects and localizes OOD regions. We term this OOD localization as MaxQuery. Furthermore, the foregrounds of real-world medical images, whether OOD objects or inliers, are lesions. The difference between them is less than that between the foreground and background, possibly misleading the object queries to focus redundantly on the background. Thus, we propose a query-distribution (QD) loss to enforce clear boundaries between segmentation targets and other regions at the query level, improving the inlier segmentation and OOD indication. Our proposed framework is tested on two real-world segmentation tasks, i.e., segmentation of pancreatic and liver tumors, outperforming previous state-of-the-art algorithms by an average of 7.39% on AUROC, 14.69% on AUPR, and 13.79% on FPR95 for OOD localization. On the other hand, our framework improves the performance of inlier segmentation by an average of 5.27% DSC when compared with the leading baseline nnUNet.

Qiang Wang, Junlong Du, Ke Yan et al.

The Contrastive Language-Image Pre-training (CLIP) has recently shown remarkable generalization on "zero-shot" training and has applied to many downstream tasks. We explore the adaptation of CLIP to achieve a more efficient and generalized action recognition method. We propose that the key lies in explicitly modeling the motion cues flowing in video frames. To that end, we design a two-stream motion modeling block to capture motion and spatial information at the same time. And then, the obtained motion cues are utilized to drive a dynamic prompts learner to generate motion-aware prompts, which contain much semantic information concerning human actions. In addition, we propose a multimodal communication block to achieve a collaborative learning and further improve the performance. We conduct extensive experiments on HMDB-51, UCF-101, and Kinetics-400 datasets. Our method outperforms most existing state-of-the-art methods by a significant margin on "few-shot" and "zero-shot" training. We also achieve competitive performance on "closed-set" training with extremely few trainable parameters and additional computational costs.

Ke Yan, Xiaoli Yin, Yingda Xia et al.

Liver tumor segmentation and classification are important tasks in computer aided diagnosis. We aim to address three problems: liver tumor screening and preliminary diagnosis in non-contrast computed tomography (CT), and differential diagnosis in dynamic contrast-enhanced CT. A novel framework named Pixel-Lesion-pAtient Network (PLAN) is proposed. It uses a mask transformer to jointly segment and classify each lesion with improved anchor queries and a foreground-enhanced sampling loss. It also has an image-wise classifier to effectively aggregate global information and predict patient-level diagnosis. A large-scale multi-phase dataset is collected containing 939 tumor patients and 810 normal subjects. 4010 tumor instances of eight types are extensively annotated. On the non-contrast tumor screening task, PLAN achieves 95% and 96% in patient-level sensitivity and specificity. On contrast-enhanced CT, our lesion-level detection precision, recall, and classification accuracy are 92%, 89%, and 86%, outperforming widely used CNN and transformers for lesion segmentation. We also conduct a reader study on a holdout set of 250 cases. PLAN is on par with a senior human radiologist, showing the clinical significance of our results.

Hanjun Li, Xingjia Pan, Ke Yan et al.

Object detection under imperfect data receives great attention recently. Weakly supervised object detection (WSOD) suffers from severe localization issues due to the lack of instance-level annotation, while semi-supervised object detection (SSOD) remains challenging led by the inter-image discrepancy between labeled and unlabeled data. In this study, we propose the Single Instance annotated Object Detection (SIOD), requiring only one instance annotation for each existing category in an image. Degraded from inter-task (WSOD) or inter-image (SSOD) discrepancies to the intra-image discrepancy, SIOD provides more reliable and rich prior knowledge for mining the rest of unlabeled instances and trades off the annotation cost and performance. Under the SIOD setting, we propose a simple yet effective framework, termed Dual-Mining (DMiner), which consists of a Similarity-based Pseudo Label Generating module (SPLG) and a Pixel-level Group Contrastive Learning module (PGCL). SPLG firstly mines latent instances from feature representation space to alleviate the annotation missing problem. To avoid being misled by inaccurate pseudo labels, we propose PGCL to boost the tolerance to false pseudo labels. Extensive experiments on MS COCO verify the feasibility of the SIOD setting and the superiority of the proposed method, which obtains consistent and significant improvements compared to baseline methods and achieves comparable results with fully supervised object detection (FSOD) methods with only 40% instances annotated.

Milad Moradi, Ke Yan, David Colwell et al.

In recent years, deep neural networks have been widely used for building high-performance Artificial Intelligence (AI) systems for computer vision applications. Object detection is a fundamental task in computer vision, which has been greatly progressed through developing large and intricate AI models. However, the lack of transparency is a big challenge that may not allow the widespread adoption of these models. Explainable artificial intelligence is a field of research where methods are developed to help users understand the behavior, decision logics, and vulnerabilities of AI systems. Previously, few explanation methods were developed for object detection based on random masking. However, random masks may raise some issues regarding the actual importance of pixels within an image. In this paper, we design and implement a black-box explanation method named Black-box Object Detection Explanation by Masking (BODEM) through adopting a hierarchical random masking approach for object detection systems. We propose a hierarchical random masking framework in which coarse-grained masks are used in lower levels to find salient regions within an image, and fine-grained mask are used to refine the salient regions in higher levels. Experimentations on various object detection datasets and models showed that BODEM can effectively explain the behavior of object detectors. Moreover, our method outperformed Detector Randomized Input Sampling for Explanation (D-RISE) and Local Interpretable Model-agnostic Explanations (LIME) with respect to different quantitative measures of explanation effectiveness. The experimental results demonstrate that BODEM can be an effective method for explaining and validating object detection systems in black-box testing scenarios.

Fakai Wang, Chi-Tung Cheng, Chien-Wei Peng et al.

Liver cancer has high morbidity and mortality rates in the world. Multi-phase CT is a main medical imaging modality for detecting/identifying and diagnosing liver tumors. Automatically detecting and classifying liver lesions in CT images have the potential to improve the clinical workflow. This task remains challenging due to liver lesions' large variations in size, appearance, image contrast, and the complexities of tumor types or subtypes. In this work, we customize a multi-object labeling tool for multi-phase CT images, which is used to curate a large-scale dataset containing 1,631 patients with four-phase CT images, multi-organ masks, and multi-lesion (six major types of liver lesions confirmed by pathology) masks. We develop a two-stage liver lesion detection pipeline, where the high-sensitivity detecting algorithms in the first stage discover as many lesion proposals as possible, and the lesion-reclassification algorithms in the second stage remove as many false alarms as possible. The multi-sensitivity lesion detection algorithm maximizes the information utilization of the individual probability maps of segmentation, and the lesion-shuffle augmentation effectively explores the texture contrast between lesions and the liver. Independently tested on 331 patient cases, the proposed model achieves high sensitivity and specificity for malignancy classification in the multi-phase contrast-enhanced CT (99.2%, 97.1%, diagnosis setting) and in the noncontrast CT (97.3%, 95.7%, screening setting).

Minfeng Xu, Heng Guo, Jianfeng Zhang et al.

Accurate and robust abdominal multi-organ segmentation from CT imaging of different modalities is a challenging task due to complex inter- and intra-organ shape and appearance variations among abdominal organs. In this paper, we propose a probabilistic multi-organ segmentation network with hierarchical spatial-wise feature modulation to capture flexible organ semantic variants and inject the learnt variants into different scales of feature maps for guiding segmentation. More specifically, we design an input decomposition module via a conditional variational auto-encoder to learn organ-specific distributions on the low dimensional latent space and model richer organ semantic variations that is conditioned on input images.Then by integrating these learned variations into the V-Net decoder hierarchically via spatial feature transformation, which has the ability to convert the variations into conditional Affine transformation parameters for spatial-wise feature maps modulating and guiding the fine-scale segmentation. The proposed method is trained on the publicly available AbdomenCT-1K dataset and evaluated on two other open datasets, i.e., 100 challenging/pathological testing patient cases from AbdomenCT-1K fully-supervised abdominal organ segmentation benchmark and 90 cases from TCIA+&BTCV dataset. Highly competitive or superior quantitative segmentation results have been achieved using these datasets for four abdominal organs of liver, kidney, spleen and pancreas with reported Dice scores improved by 7.3% for kidneys and 9.7% for pancreas, while being ~7 times faster than two strong baseline segmentation methods(nnUNet and CoTr).

Xixia Xu, Yingguo Gao, Ke Yan et al.

Human pose estimation (HPE) usually requires large-scale training data to reach high performance. However, it is rather time-consuming to collect high-quality and fine-grained annotations for human body. To alleviate this issue, we revisit HPE and propose a location-free framework without supervision of keypoint locations. We reformulate the regression-based HPE from the perspective of classification. Inspired by the CAM-based weakly-supervised object localization, we observe that the coarse keypoint locations can be acquired through the part-aware CAMs but unsatisfactory due to the gap between the fine-grained HPE and the object-level localization. To this end, we propose a customized transformer framework to mine the fine-grained representation of human context, equipped with the structural relation to capture subtle differences among keypoints. Concretely, we design a Multi-scale Spatial-guided Context Encoder to fully capture the global human context while focusing on the part-aware regions and a Relation-encoded Pose Prototype Generation module to encode the structural relations. All these works together for strengthening the weak supervision from image-level category labels on locations. Our model achieves competitive performance on three datasets when only supervised at a category-level and importantly, it can achieve comparable results with fully-supervised methods with only 25\% location labels on MS-COCO and MPII.

Fan Bai, Ke Yan, Xiaoyu Bai et al.

Medical image analysis using deep learning is often challenged by limited labeled data and high annotation costs. Fine-tuning the entire network in label-limited scenarios can lead to overfitting and suboptimal performance. Recently, prompt tuning has emerged as a more promising technique that introduces a few additional tunable parameters as prompts to a task-agnostic pre-trained model, and updates only these parameters using supervision from limited labeled data while keeping the pre-trained model unchanged. However, previous work has overlooked the importance of selective labeling in downstream tasks, which aims to select the most valuable downstream samples for annotation to achieve the best performance with minimum annotation cost. To address this, we propose a framework that combines selective labeling with prompt tuning (SLPT) to boost performance in limited labels. Specifically, we introduce a feature-aware prompt updater to guide prompt tuning and a TandEm Selective LAbeling (TESLA) strategy. TESLA includes unsupervised diversity selection and supervised selection using prompt-based uncertainty. In addition, we propose a diversified visual prompt tuning strategy to provide multi-prompt-based discrepant predictions for TESLA. We evaluate our method on liver tumor segmentation and achieve state-of-the-art performance, outperforming traditional fine-tuning with only 6% of tunable parameters, also achieving 94% of full-data performance by labeling only 5% of the data.

Xiaoyu Bai, Fan Bai, Xiaofei Huo et al.

Radiotherapists require accurate registration of MR/CT images to effectively use information from both modalities. In a typical registration pipeline, rigid or affine transformations are applied to roughly align the fixed and moving images before proceeding with the deformation step. While recent learning-based methods have shown promising results in the rigid/affine step, these methods often require images with similar field-of-view (FOV) for successful alignment. As a result, aligning images with different FOVs remains a challenging task. Self-supervised landmark detection methods like self-supervised Anatomical eMbedding (SAM) have emerged as a useful tool for mapping and cropping images to similar FOVs. However, these methods are currently limited to intra-modality use only. To address this limitation and enable cross-modality matching, we propose a new approach called Cross-SAM. Our approach utilizes a novel iterative process that alternates between embedding learning and CT-MRI registration. We start by applying aggressive contrast augmentation on both CT and MRI images to train a SAM model. We then use this SAM to identify corresponding regions on paired images using robust grid-points matching, followed by a point-set based affine/rigid registration, and a deformable fine-tuning step to produce registered paired images. We use these registered pairs to enhance the matching ability of SAM, which is then processed iteratively. We use the final model for cross-modality matching tasks. We evaluated our approach on two CT-MRI affine registration datasets and found that Cross-SAM achieved robust affine registration on both datasets, significantly outperforming other methods and achieving state-of-the-art performance.

Zhanghexuan Ji, Dazhou Guo, Puyang Wang et al.

Deep learning empowers the mainstream medical image segmentation methods. Nevertheless current deep segmentation approaches are not capable of efficiently and effectively adapting and updating the trained models when new incremental segmentation classes (along with new training datasets or not) are required to be added. In real clinical environment, it can be preferred that segmentation models could be dynamically extended to segment new organs/tumors without the (re-)access to previous training datasets due to obstacles of patient privacy and data storage. This process can be viewed as a continual semantic segmentation (CSS) problem, being understudied for multi-organ segmentation. In this work, we propose a new architectural CSS learning framework to learn a single deep segmentation model for segmenting a total of 143 whole-body organs. Using the encoder/decoder network structure, we demonstrate that a continually-trained then frozen encoder coupled with incrementally-added decoders can extract and preserve sufficiently representative image features for new classes to be subsequently and validly segmented. To maintain a single network model complexity, we trim each decoder progressively using neural architecture search and teacher-student based knowledge distillation. To incorporate with both healthy and pathological organs appearing in different datasets, a novel anomaly-aware and confidence learning module is proposed to merge the overlapped organ predictions, originated from different decoders. Trained and validated on 3D CT scans of 2500+ patients from four datasets, our single network can segment total 143 whole-body organs with very high accuracy, closely reaching the upper bound performance level by training four separate segmentation models (i.e., one model per dataset/task).

Sijing Li, Zhongwei Qiu, Jiang Liu et al.

Accurate tumor analysis is central to clinical radiology and precision oncology, where early detection, reliable lesion characterization, and pathology-level risk assessment guide diagnosis and treatment planning. Chain-of-Thought (CoT) reasoning is particularly important in this setting because it enables step-by-step interpretation from imaging findings to clinical impressions and pathology conclusions, improving traceability and reducing diagnostic errors. Here, we target the clinical tumor analysis task and build a large-scale benchmark that operationalizes a multimodal reasoning pipeline, spanning findings, impressions, and pathology predictions. We curate TumorCoT, a large-scale dataset of 1.5M CoT-labeled VQA instructions paired with 3D CT scans, with step-aligned rationales and cross-modal alignments along the trajectory from findings to impression to pathology, enabling evaluation of both answer accuracy and reasoning consistency. We further propose TumorChain, a multimodal interleaved reasoning framework that tightly couples 3D imaging encoders, clinical text understanding, and organ-level vision-language alignment. Through cross-modal alignment and iterative interleaved causal reasoning, TumorChain grounds visual evidence, aggregates conclusions, and issues pathology predictions after multiple rounds of self-refinement, improving traceability and reducing hallucination risk. Experiments show consistent improvements over strong baselines in lesion detection, impression generation, and pathology classification, and demonstrate strong generalization on the DeepTumorVQA benchmark. These results highlight the potential of multimodal reasoning for reliable and interpretable tumor analysis in clinical practice. Detailed information about our project can be found on our project homepage at https://github.com/ZJU4HealthCare/TumorChain.

Milad Moradi, Ke Yan, David Colwell et al.

Automated test case generation from natural language requirements remains a challenging problem in software engineering due to the ambiguity of requirements and the need to produce structured, executable test artifacts. Recent advances in LLMs have shown promise in addressing this task; however, their effectiveness depends on task-specific adaptation and efficient fine-tuning strategies. In this paper, we present a comprehensive empirical study on the use of parameter-efficient fine-tuning, specifically LoRA, for requirement-based test case generation. We evaluate multiple LLM families, including open-source and proprietary models, under a unified experimental pipeline. The study systematically explores the impact of key LoRA hyperparameters, including rank, scaling factor, and dropout, on downstream performance. We propose an automated evaluation framework based on GPT-4o, which assesses generated test cases across nine quality dimensions. Experimental results demonstrate that LoRA-based fine-tuning significantly improves the performance of all open-source models, with Ministral-8B achieving the best results among them. Furthermore, we show that a fine-tuned 8B open-source model can achieve performance comparable to pre-fine-tuned GPT-4.1 models, highlighting the effectiveness of parameter-efficient adaptation. While GPT-4.1 models achieve the highest overall performance, the performance gap between proprietary and open-source models is substantially reduced after fine-tuning. These findings provide important insights into model selection, fine-tuning strategies, and evaluation methods for automated test generation. In particular, they demonstrate that cost-efficient, locally deployable open-source models can serve as viable alternatives to proprietary systems when combined with well-designed fine-tuning approaches.

Ke Yan, Dakai Jin, Dazhou Guo et al.

Finding abnormal lymph nodes in radiological images is highly important for various medical tasks such as cancer metastasis staging and radiotherapy planning. Lymph nodes (LNs) are small glands scattered throughout the body. They are grouped or defined to various LN stations according to their anatomical locations. The CT imaging appearance and context of LNs in different stations vary significantly, posing challenges for automated detection, especially for pathological LNs. Motivated by this observation, we propose a novel end-to-end framework to improve LN detection performance by leveraging their station information. We design a multi-head detector and make each head focus on differentiating the LN and non-LN structures of certain stations. Pseudo station labels are generated by an LN station classifier as a form of multi-task learning during training, so we do not need another explicit LN station prediction model during inference. Our algorithm is evaluated on 82 patients with lung cancer and 91 patients with esophageal cancer. The proposed implicit station stratification method improves the detection sensitivity of thoracic lymph nodes from 65.1% to 71.4% and from 80.3% to 85.5% at 2 false positives per patient on the two datasets, respectively, which significantly outperforms various existing state-of-the-art baseline techniques such as nnUNet, nnDetection and LENS.

Wei Huang, Wei Liu, Xiaoming Zhang et al.

The early detection and precise diagnosis of liver tumors are tasks of critical clinical value, yet they pose significant challenges due to the high heterogeneity and variability of liver tumors. In this work, a precise LIver tumor DIAgnosis network on multi-phase contrast-enhance CT, named LIDIA, is proposed for real-world scenario. To fully utilize all available phases in contrast-enhanced CT, LIDIA first employs the iterative fusion module to aggregate variable numbers of image phases, thereby capturing the features of lesions at different phases for better tumor diagnosis. To effectively mitigate the high heterogeneity problem of liver tumors, LIDIA incorporates asymmetric contrastive learning to enhance the discriminability between different classes. To evaluate our method, we constructed a large-scale dataset comprising 1,921 patients and 8,138 lesions. LIDIA has achieved an average AUC of 93.6% across eight different types of lesions, demonstrating its effectiveness. Besides, LIDIA also demonstrated strong generalizability with an average AUC of 89.3% when tested on an external cohort of 828 patients.

Yunpeng Luo, Junlong Du, Ke Yan et al.

The evolution of Diffusion Models has dramatically improved image generation quality, making it increasingly difficult to differentiate between real and generated images. This development, while impressive, also raises significant privacy and security concerns. In response to this, we propose a novel Latent REconstruction error guided feature REfinement method (LaRE^2) for detecting the diffusion-generated images. We come up with the Latent Reconstruction Error (LaRE), the first reconstruction-error based feature in the latent space for generated image detection. LaRE surpasses existing methods in terms of feature extraction efficiency while preserving crucial cues required to differentiate between the real and the fake. To exploit LaRE, we propose an Error-Guided feature REfinement module (EGRE), which can refine the image feature guided by LaRE to enhance the discriminativeness of the feature. Our EGRE utilizes an align-then-refine mechanism, which effectively refines the image feature for generated-image detection from both spatial and channel perspectives. Extensive experiments on the large-scale GenImage benchmark demonstrate the superiority of our LaRE^2, which surpasses the best SoTA method by up to 11.9%/12.1% average ACC/AP across 8 different image generators. LaRE also surpasses existing methods in terms of feature extraction cost, delivering an impressive speed enhancement of 8 times. Code is available.

Shuman Fang, Zhiwen Lin, Ke Yan et al.

The task of Human-Object Interaction (HOI) detection is to detect humans and their interactions with surrounding objects, where transformer-based methods show dominant advances currently. However, these methods ignore the relationship among humans, objects, and interactions: 1) human features are more contributive than object ones to interaction prediction; 2) interactive information disturbs the detection of objects but helps human detection. In this paper, we propose a Human and Object Disentangling Network (HODN) to model the HOI relationships explicitly, where humans and objects are first detected by two disentangling decoders independently and then processed by an interaction decoder. Considering that human features are more contributive to interaction, we propose a Human-Guide Linking method to make sure the interaction decoder focuses on the human-centric regions with human features as the positional embeddings. To handle the opposite influences of interactions on humans and objects, we propose a Stop-Gradient Mechanism to stop interaction gradients from optimizing the object detection but to allow them to optimize the human detection. Our proposed method achieves competitive performance on both the V-COCO and the HICO-Det datasets. It can be combined with existing methods easily for state-of-the-art results.

Chunli Li, Xiaoming Zhang, Yuan Gao et al.

Esophageal varices (EV), a serious health concern resulting from portal hypertension, are traditionally diagnosed through invasive endoscopic procedures. Despite non-contrast computed tomography (NC-CT) imaging being a less expensive and non-invasive imaging modality, it has yet to gain full acceptance as a primary clinical diagnostic tool for EV evaluation. To overcome existing diagnostic challenges, we present the Multi-Organ-cOhesion-Network (MOON), a novel framework enhancing the analysis of critical organ features in NC-CT scans for effective assessment of EV. Drawing inspiration from the thorough assessment practices of radiologists, MOON establishes a cohesive multiorgan analysis model that unifies the imaging features of the related organs of EV, namely esophagus, liver, and spleen. This integration significantly increases the diagnostic accuracy for EV. We have compiled an extensive NC-CT dataset of 1,255 patients diagnosed with EV, spanning three grades of severity. Each case is corroborated by endoscopic diagnostic results. The efficacy of MOON has been substantiated through a validation process involving multi-fold cross-validation on 1,010 cases and an independent test on 245 cases, exhibiting superior diagnostic performance compared to methods focusing solely on the esophagus (for classifying severe grade: AUC of 0.864 versus 0.803, and for moderate to severe grades: AUC of 0.832 versus 0.793). To our knowledge, MOON is the first work to incorporate a synchronized multi-organ NC-CT analysis for EV assessment, providing a more acceptable and minimally invasive alternative for patients compared to traditional endoscopy.

Evelyn Zhang, Fufu Yu, Aoqi Wu et al.

Processing long visual token sequences poses a significant computational burden on Multimodal Large Language Models (MLLMs). While token pruning offers a path to acceleration, we find that current methods, while adequate for general understanding, catastrophically fail on fine-grained localization tasks. We attribute this failure to the inherent flaws of the two prevailing strategies: importance-based methods suffer from a strong positional bias, an inherent model artifact that distracts from semantic content, while diversity-based methods exhibit structural blindness, disregarding the user's prompt and spatial redundancy. To address this, we introduce D2Pruner, a framework that rectifies these issues by uniquely combining debiased importance with a structural pruning mechanism. Our method first secures a core set of the most critical tokens as pivots based on a debiased attention score. It then performs a Maximal Independent Set (MIS) selection on the remaining tokens, which are modeled on a hybrid graph where edges signify spatial proximity and semantic similarity. This process iteratively preserves the most important and available token while removing its neighbors, ensuring that the supplementary tokens are chosen to maximize importance and diversity. Extensive experiments demonstrate that D2Pruner has exceptional efficiency and fidelity. Applied to LLaVA-1.5-7B for general understanding tasks, it reduces FLOPs by 74.2\% while retaining 99.2\% of its original performance. Furthermore, in challenging localization benchmarks with InternVL-2.5-8B, it maintains 85.7\% performance at a 90\% token reduction rate, marking a significant advancement with up to 63. 53\% improvement over existing methods.

Xiaoshuang Chen, Zhongyi Sun, Ke Yan et al.

Class Incremental Learning (CIL) aims to handle the scenario where data of novel classes occur continuously and sequentially. The model should recognize the sequential novel classes while alleviating the catastrophic forgetting. In the self-supervised manner, it becomes more challenging to avoid the conflict between the feature embedding spaces of novel classes and old ones without any class labels. To address the problem, we propose a self-supervised CIL framework CPPF, meaning Combining Past, Present and Future. In detail, CPPF consists of a prototype clustering module (PC), an embedding space reserving module (ESR) and a multi-teacher distillation module (MTD). 1) The PC and the ESR modules reserve embedding space for subsequent phases at the prototype level and the feature level respectively to prepare for knowledge learned in the future. 2) The MTD module maintains the representations of the current phase without the interference of past knowledge. One of the teacher networks retains the representations of the past phases, and the other teacher network distills relation information of the current phase to the student network. Extensive experiments on CIFAR100 and ImageNet100 datasets demonstrate that our proposed method boosts the performance of self-supervised class incremental learning. We will release code in the near future.

Heng Guo, Jianfeng Zhang, Jiaxing Huang et al.

Segment anything model (SAM) demonstrates strong generalization ability on natural image segmentation. However, its direct adaptation in medical image segmentation tasks shows significant performance drops. It also requires an excessive number of prompt points to obtain a reasonable accuracy. Although quite a few studies explore adapting SAM into medical image volumes, the efficiency of 2D adaptation methods is unsatisfactory and 3D adaptation methods are only capable of segmenting specific organs/tumors. In this work, we propose a comprehensive and scalable 3D SAM model for whole-body CT segmentation, named CT-SAM3D. Instead of adapting SAM, we propose a 3D promptable segmentation model using a (nearly) fully labeled CT dataset. To train CT-SAM3D effectively, ensuring the model's accurate responses to higher-dimensional spatial prompts is crucial, and 3D patch-wise training is required due to GPU memory constraints. Therefore, we propose two key technical developments: 1) a progressively and spatially aligned prompt encoding method to effectively encode click prompts in local 3D space; and 2) a cross-patch prompt scheme to capture more 3D spatial context, which is beneficial for reducing the editing workloads when interactively prompting on large organs. CT-SAM3D is trained using a curated dataset of 1204 CT scans containing 107 whole-body anatomies and extensively validated using five datasets, achieving significantly better results against all previous SAM-derived models. Code, data, and our 3D interactive segmentation tool with quasi-real-time responses are available at https://github.com/alibaba-damo-academy/ct-sam3d.

Xiaoming Zhang, Chunli Li, Jiacheng Hao et al.

Esophageal varices (EV) represent a critical complication of portal hypertension, affecting approximately 60% of cirrhosis patients with a significant bleeding risk of ~30%. While traditionally diagnosed through invasive endoscopy, non-contrast computed tomography (NCCT) presents a potential non-invasive alternative that has yet to be fully utilized in clinical practice. We present Multi-Organ-COhesion Network++ (MOON++), a novel multimodal framework that enhances EV assessment through comprehensive analysis of NCCT scans. Inspired by clinical evidence correlating organ volumetric relationships with liver disease severity, MOON++ synthesizes imaging characteristics of the esophagus, liver, and spleen through multimodal learning. We evaluated our approach using 1,631 patients, those with endoscopically confirmed EV were classified into four severity grades. Validation in 239 patient cases and independent testing in 289 cases demonstrate superior performance compared to conventional single organ methods, achieving an AUC of 0.894 versus 0.803 for the severe grade EV classification (G3 versus <G3) and 0.921 versus 0.793 for the differentiation of moderate to severe grades (>=G2 versus <G2). We conducted a reader study involving experienced radiologists to further validate the performance of MOON++. To our knowledge, MOON++ represents the first comprehensive multi-organ NCCT analysis framework incorporating clinical knowledge priors for EV assessment, potentially offering a promising non-invasive diagnostic alternative.

Zijiang Yang, Hanqing Chao, Bokai Zhao et al.

Nucleus detection and classification (NDC) in histopathology analysis is a fundamental task that underpins a wide range of high-level pathology applications. However, existing methods heavily rely on labor-intensive nucleus-level annotations and struggle to fully exploit large-scale unlabeled data for learning discriminative nucleus representations. In this work, we propose MUSE (MUlti-scale denSE self-distillation), a novel self-supervised learning method tailored for NDC. At its core is NuLo (Nucleus-based Local self-distillation), a coordinate-guided mechanism that enables flexible local self-distillation based on predicted nucleus positions. By removing the need for strict spatial alignment between augmented views, NuLo allows critical cross-scale alignment, thus unlocking the capacity of models for fine-grained nucleus-level representation. To support MUSE, we design a simple yet effective encoder-decoder architecture and a large field-of-view semi-supervised fine-tuning strategy that together maximize the value of unlabeled pathology images. Extensive experiments on three widely used benchmarks demonstrate that MUSE effectively addresses the core challenges of histopathological NDC. The resulting models not only surpass state-of-the-art supervised baselines but also outperform generic pathology foundation models.

Enguang Wang, Qiang Wang, Yuanchen Wu et al.

While Multimodal Large Language Models (MLLMs) excel at vision-language tasks, the cost of their language-driven training on internal visual foundational competence remains unclear. In this paper, we conduct a detailed diagnostic analysis to unveil a pervasive issue: visual representation degradation in MLLMs. Specifically, we find that compared to the initial visual features, the visual representation in the middle layers of LLM exhibits both a degradation in global function and patch structure. We attribute this phenomenon to a visual sacrifice driven by the singular text-generation objective, where the model compromises its visual fidelity to optimize for answer generation. We argue that a robust MLLM requires both strong cross-modal reasoning and core visual competence, and propose Predictive Regularization (PRe) to force degraded intermediate features to predict initial visual features, thereby maintaining the inherent visual attributes of the MLLM's internal representations. Extensive experiments confirm that mitigating this visual degradation effectively boosts vision-language performance, underscoring the critical importance of fostering robust internal visual representations within MLLMs for comprehensive multimodal understanding.

Milad Moradi, Ke Yan, David Colwell et al.

Detecting user interface (UI) controls from software screenshots is a critical task for automated testing, accessibility, and software analytics, yet it remains challenging due to visual ambiguities, design variability, and the lack of contextual cues in pixel-only approaches. In this paper, we introduce a novel multi-modal extension of YOLOv5 that integrates GPT-generated textual descriptions of UI images into the detection pipeline through cross-attention modules. By aligning visual features with semantic information derived from text embeddings, our model enables more robust and context-aware UI control detection. We evaluate the proposed framework on a large dataset of over 16,000 annotated UI screenshots spanning 23 control classes. Extensive experiments compare three fusion strategies, i.e. element-wise addition, weighted sum, and convolutional fusion, demonstrating consistent improvements over the baseline YOLOv5 model. Among these, convolutional fusion achieved the strongest performance, with significant gains in detecting semantically complex or visually ambiguous classes. These results establish that combining visual and textual modalities can substantially enhance UI element detection, particularly in edge cases where visual information alone is insufficient. Our findings open promising opportunities for more reliable and intelligent tools in software testing, accessibility support, and UI analytics, setting the stage for future research on efficient, robust, and generalizable multi-modal detection systems.

Ke Yan, Qing Cai, Fan Zhang et al.

Although semi-supervised learning has made significant advances in the field of medical image segmentation, fully annotating a volumetric sample slice by slice remains a costly and time-consuming task. Even worse, most of the existing approaches pay much attention to image-level information and ignore semantic features, resulting in the inability to perceive weak boundaries. To address these issues, we propose a novel Semantic-Guided Triplet Co-training (SGTC) framework, which achieves high-end medical image segmentation by only annotating three orthogonal slices of a few volumetric samples, significantly alleviating the burden of radiologists. Our method consist of two main components. Specifically, to enable semantic-aware, fine-granular segmentation and enhance the quality of pseudo-labels, a novel semantic-guided auxiliary learning mechanism is proposed based on the pretrained CLIP. In addition, focusing on a more challenging but clinically realistic scenario, a new triple-view disparity training strategy is proposed, which uses sparse annotations (i.e., only three labeled slices of a few volumes) to perform co-training between three sub-networks, significantly improving the robustness. Extensive experiments on three public medical datasets demonstrate that our method outperforms most state-of-the-art semi-supervised counterparts under sparse annotation settings. The source code is available at https://github.com/xmeimeimei/SGTC.

Pengfei Jiang, Hanjun Li, Linglan Zhao et al.

In this study, we introduce a novel method called group-wise \textbf{VI}sual token \textbf{S}election and \textbf{A}ggregation (VISA) to address the issue of inefficient inference stemming from excessive visual tokens in multimoal large language models (MLLMs). Compared with previous token pruning approaches, our method can preserve more visual information while compressing visual tokens. We first propose a graph-based visual token aggregation (VTA) module. VTA treats each visual token as a node, forming a graph based on semantic similarity among visual tokens. It then aggregates information from removed tokens into kept tokens based on this graph, producing a more compact visual token representation. Additionally, we introduce a group-wise token selection strategy (GTS) to divide visual tokens into kept and removed ones, guided by text tokens from the final layers of each group. This strategy progressively aggregates visual information, enhancing the stability of the visual information extraction process. We conduct comprehensive experiments on LLaVA-1.5, LLaVA-NeXT, and Video-LLaVA across various benchmarks to validate the efficacy of VISA. Our method consistently outperforms previous methods, achieving a superior trade-off between model performance and inference speed. The code is available at https://github.com/mobiushy/VISA.

Guopeng Li, Qiang Wang, Ke Yan et al.

Most knowledge distillation (KD) methodologies predominantly focus on teacher-student pairs with similar architectures, such as both being convolutional neural networks (CNNs). However, the potential and flexibility of KD can be greatly improved by expanding it to novel Cross-Architecture KD (CAKD), where the knowledge of homogeneous and heterogeneous teachers can be transferred flexibly to a given student. The primary challenge in CAKD lies in the substantial feature gaps between heterogeneous models, originating from the distinction of their inherent inductive biases and module functions. To this end, we introduce an assistant model as a bridge to facilitate smooth feature knowledge transfer between heterogeneous teachers and students. More importantly, within our proposed design principle, the assistant model combines the advantages of cross-architecture inductive biases and module functions by merging convolution and attention modules derived from both student and teacher module functions. Furthermore, we observe that heterogeneous features exhibit diverse spatial distributions in CAKD, hindering the effectiveness of conventional pixel-wise mean squared error (MSE) loss. Therefore, we leverage a spatial-agnostic InfoNCE loss to align features after spatial smoothing, thereby improving the feature alignments in CAKD. Our proposed method is evaluated across some homogeneous model pairs and arbitrary heterogeneous combinations of CNNs, ViTs, and MLPs, achieving state-of-the-art performance for distilled models with a maximum gain of 11.47% on CIFAR-100 and 3.67% on ImageNet-1K. Our code and models will be released.

Quanjiang Guo, Sijie Wang, Jinchuan Zhang et al.

Zero-shot event extraction (ZSEE) remains a significant challenge for large language models (LLMs) due to the need for complex reasoning and domain-specific understanding. Direct prompting often yields incomplete or structurally invalid outputs--such as misclassified triggers, missing arguments, and schema violations. To address these limitations, we present Agent-Event-Coder (AEC), a novel multi-agent framework that treats event extraction like software engineering: as a structured, iterative code-generation process. AEC decomposes ZSEE into specialized subtasks--retrieval, planning, coding, and verification--each handled by a dedicated LLM agent. Event schemas are represented as executable class definitions, enabling deterministic validation and precise feedback via a verification agent. This programming-inspired approach allows for systematic disambiguation and schema enforcement through iterative refinement. By leveraging collaborative agent workflows, AEC enables LLMs to produce precise, complete, and schema-consistent extractions in zero-shot settings. Experiments across five diverse domains and six LLMs demonstrate that AEC consistently outperforms prior zero-shot baselines, showcasing the power of treating event extraction like code generation. The code and data are released on https://github.com/UESTC-GQJ/Agent-Event-Coder.

Jinjun Yi, Zhixin Zhao, Yitao Hu et al.

LLM serving is increasingly dominated by decode attention, which is a memory-bound operation due to massive KV cache loading from global memory. Meanwhile, real-world workloads exhibit substantial, hierarchical shared prefixes across requests (e.g., system prompts, tools/templates, RAG). Existing attention implementations fail to fully exploit prefix sharing: one-query-per-CTA execution repeatedly loads shared prefix KV cache, while one-size-fits-all tiling leaves on-chip resources idle and exacerbates bubbles for uneven KV lengths. These choices amplify memory bandwidth pressure and stall memory-bound decode attention. This paper introduces PAT, a prefix-aware attention kernel implementation for LLM decoding that organizes execution with a pack-forward-merge paradigm. PAT packs queries by shared prefix to reduce repeated memory accesses, runs a customized multi-tile kernel to achieve high resource efficiency. It further applies practical multi-stream forwarding and KV splitting to reduce resource bubbles. The final merge performs online softmax with negligible overhead. We implement PAT as an off-the-shelf plugin for vLLM. Evaluation on both real-world and synthetic workloads shows that PAT reduces attention latency by 53.5% on average and TPOT by 17.0-93.1% under the same configurations against state-of-the-art attention kernels. PAT's source code is publicly available at https://github.com/flashserve/PAT.

Shaohao Lu, Yuqiao Xian, Ke Yan et al.

The Deep Neural Networks are vulnerable toadversarial exam-ples(Figure 1), making the DNNs-based systems collapsed byadding the inconspicuous perturbations to the images. Most of the existing works for adversarial attack are gradient-based and suf-fer from the latency efficiencies and the load on GPU memory. Thegenerative-based adversarial attacks can get rid of this limitation,and some relative works propose the approaches based on GAN.However, suffering from the difficulty of the convergence of train-ing a GAN, the adversarial examples have either bad attack abilityor bad visual quality. In this work, we find that the discriminatorcould be not necessary for generative-based adversarial attack, andpropose theSymmetric Saliency-based Auto-Encoder (SSAE)to generate the perturbations, which is composed of the saliencymap module and the angle-norm disentanglement of the featuresmodule. The advantage of our proposed method lies in that it is notdepending on discriminator, and uses the generative saliency map to pay more attention to label-relevant regions. The extensive exper-iments among the various tasks, datasets, and models demonstratethat the adversarial examples generated by SSAE not only make thewidely-used models collapse, but also achieves good visual quality.The code is available at https://github.com/BravoLu/SSAE.

Ke Yan, Jinzheng Cai, Youjing Zheng et al.

Large-scale datasets with high-quality labels are desired for training accurate deep learning models. However, due to the annotation cost, datasets in medical imaging are often either partially-labeled or small. For example, DeepLesion is such a large-scale CT image dataset with lesions of various types, but it also has many unlabeled lesions (missing annotations). When training a lesion detector on a partially-labeled dataset, the missing annotations will generate incorrect negative signals and degrade the performance. Besides DeepLesion, there are several small single-type datasets, such as LUNA for lung nodules and LiTS for liver tumors. These datasets have heterogeneous label scopes, i.e., different lesion types are labeled in different datasets with other types ignored. In this work, we aim to develop a universal lesion detection algorithm to detect a variety of lesions. The problem of heterogeneous and partial labels is tackled. First, we build a simple yet effective lesion detection framework named Lesion ENSemble (LENS). LENS can efficiently learn from multiple heterogeneous lesion datasets in a multi-task fashion and leverage their synergy by proposal fusion. Next, we propose strategies to mine missing annotations from partially-labeled datasets by exploiting clinical prior knowledge and cross-dataset knowledge transfer. Finally, we train our framework on four public lesion datasets and evaluate it on 800 manually-labeled sub-volumes in DeepLesion. Our method brings a relative improvement of 49% compared to the current state-of-the-art approach in the metric of average sensitivity. We have publicly released our manual 3D annotations of DeepLesion in https://github.com/viggin/DeepLesion_manual_test_set.

Jinzheng Cai, Adam P. Harrison, Youjing Zheng et al.

Acquiring large-scale medical image data, necessary for training machine learning algorithms, is frequently intractable, due to prohibitive expert-driven annotation costs. Recent datasets extracted from hospital archives, e.g., DeepLesion, have begun to address this problem. However, these are often incompletely or noisily labeled, e.g., DeepLesion leaves over 50% of its lesions unlabeled. Thus, effective methods to harvest missing annotations are critical for continued progress in medical image analysis. This is the goal of our work, where we develop a powerful system to harvest missing lesions from the DeepLesion dataset at high precision. Accepting the need for some degree of expert labor to achieve high fidelity, we exploit a small fully-labeled subset of medical image volumes and use it to intelligently mine annotations from the remainder. To do this, we chain together a highly sensitive lesion proposal generator and a very selective lesion proposal classifier. While our framework is generic, we optimize our performance by proposing a 3D contextual lesion proposal generator and by using a multi-view multi-scale lesion proposal classifier. These produce harvested and hard-negative proposals, which we then re-use to finetune our proposal generator by using a novel hard negative suppression loss, continuing this process until no extra lesions are found. Extensive experimental analysis demonstrates that our method can harvest an additional 9,805 lesions while keeping precision above 90%. To demonstrate the benefits of our approach, we show that lesion detectors trained on our harvested lesions can significantly outperform the same variants only trained on the original annotations, with boost of average precision of 7% to 10%. We open source our annotations at https://github.com/JimmyCai91/DeepLesionAnnotation.

Ke Yan, Mohammadhadi Bagheri, Ronald M. Summers

Detecting lesions from computed tomography (CT) scans is an important but difficult problem because non-lesions and true lesions can appear similar. 3D context is known to be helpful in this differentiation task. However, existing end-to-end detection frameworks of convolutional neural networks (CNNs) are mostly designed for 2D images. In this paper, we propose 3D context enhanced region-based CNN (3DCE) to incorporate 3D context information efficiently by aggregating feature maps of 2D images. 3DCE is easy to train and end-to-end in training and inference. A universal lesion detector is developed to detect all kinds of lesions in one algorithm using the DeepLesion dataset. Experimental results on this challenging task prove the effectiveness of 3DCE. We have released the code of 3DCE in https://github.com/rsummers11/CADLab/tree/master/lesion_detector_3DCE.

Yi Xin, Junlong Du, Qiang Wang et al.

Multi-Task Learning (MTL) is designed to train multiple correlated tasks simultaneously, thereby enhancing the performance of individual tasks. Typically, a multi-task network structure consists of a shared backbone and task-specific decoders. However, the complexity of the decoders increases with the number of tasks. To tackle this challenge, we integrate the decoder-free vision-language model CLIP, which exhibits robust zero-shot generalization capability. Recently, parameter-efficient transfer learning methods have been extensively explored with CLIP for adapting to downstream tasks, where prompt tuning showcases strong potential. Nevertheless, these methods solely fine-tune a single modality (text or visual), disrupting the modality structure of CLIP. In this paper, we first propose Multi-modal Alignment Prompt (MmAP) for CLIP, which aligns text and visual modalities during fine-tuning process. Building upon MmAP, we develop an innovative multi-task prompt learning framework. On the one hand, to maximize the complementarity of tasks with high similarity, we utilize a gradient-driven task grouping method that partitions tasks into several disjoint groups and assign a group-shared MmAP to each group. On the other hand, to preserve the unique characteristics of each task, we assign an task-specific MmAP to each task. Comprehensive experiments on two large multi-task learning datasets demonstrate that our method achieves significant performance improvements compared to full fine-tuning while only utilizing approximately 0.09% of trainable parameters.

Yi Xin, Junlong Du, Qiang Wang et al.

Large-scale pre-trained models have achieved remarkable success in various computer vision tasks. A standard approach to leverage these models is to fine-tune all model parameters for downstream tasks, which poses challenges in terms of computational and storage costs. Recently, inspired by Natural Language Processing (NLP), parameter-efficient transfer learning has been successfully applied to vision tasks. However, most existing techniques primarily focus on single-task adaptation, and despite limited research on multi-task adaptation, these methods often exhibit suboptimal training and inference efficiency. In this paper, we first propose an once-for-all Vision Multi-Task Adapter (VMT-Adapter), which strikes approximately O(1) training and inference efficiency w.r.t task number. Concretely, VMT-Adapter shares the knowledge from multiple tasks to enhance cross-task interaction while preserves task-specific knowledge via independent knowledge extraction modules. Notably, since task-specific modules require few parameters, VMT-Adapter can handle an arbitrary number of tasks with a negligible increase of trainable parameters. We also propose VMT-Adapter-Lite, which further reduces the trainable parameters by learning shared parameters between down- and up-projections. Extensive experiments on four dense scene understanding tasks demonstrate the superiority of VMT-Adapter(-Lite), achieving a 3.96%(1.34%) relative improvement compared to single-task full fine-tuning, while utilizing merely ~1% (0.36%) trainable parameters of the pre-trained model.

Zishuo Wan, Qinqin Kang, Na Li et al.

The accurate diagnosis and segmentation of tumors in contrast-enhanced Computed Tomography (CT) are fundamentally driven by the distinctive hemodynamic profiles of contrast agents over time. However, in real-world clinical practice, complete temporal dynamics are often hard to capture by strict radiation dose limits and inconsistent acquisition protocols across institutions, leading to a prevalent missing modality problem. Existing deep learning approaches typically treat missing phases as absent independent channels, ignoring the inherent temporal continuity of hemodynamics. In this work, we propose Time Attenuated Representation Disentanglement (TARDis), a novel physics-aware framework that redefines missing modalities as missing sample points on a continuous Time-Attenuation Curve. We first hypothesize that the latent feature can be disentangled into a time-invariant static component (anatomy) and a time-dependent dynamic component (perfusion). We achieve this via a dual-path architecture: a quantization-based path using a learnable embedding dictionary to extract consistent anatomical structures, and a probabilistic path using a Hemodynamic Conditional Variational Autoencoder to model dynamic enhancement conditioned on the estimated scan time. This design allows the network to infer missing hemodynamic features by sampling from the learned latent distribution. Extensive experiments on a large-scale multi-modal private abdominal CT dataset (2,282 patients) and two public datasets demonstrate that TARDis significantly outperforms state-of-the-art incomplete modality frameworks. Notably, our method maintains robust diagnostic performance even in extreme data-sparsity scenarios, highlighting its potential for reducing radiation exposure while maintaining diagnostic precision.

Didi Zhu, Zhongyi Sun, Zexi Li et al.

Catastrophic forgetting emerges as a critical challenge when fine-tuning multi-modal large language models (MLLMs), where improving performance on unseen tasks often leads to a significant performance drop on the original tasks. This paper presents a comprehensive analysis of catastrophic forgetting in MLLMs and introduces a post-training adjustment method called Model Tailor. Our method primarily preserves the pre-trained parameters while replacing a small number ($\leq$ 10\%) of fine-tuned parameters, maintaining $\sim$ 99\% effectiveness on original tasks versus pre-training, and achieving $\sim$ 97\% on new tasks compared to standard fine-tuning. Specifically, we derive a sparse mask to identify the "model patch", based on a fusion strategy that integrates salience and sensitivity analysis. Subsequently, a compensation mechanism is introduced to "decorate the patch", enhancing the model's performance on both target and original tasks. Additionally, our method is adaptable to multi-task scenarios. Through extensive experiments on InstructBLIP and LLaVA-1.5 in both image captioning and visual question answering tasks, our approach demonstrates significant task adaptability while preserving inherent pre-trained capabilities.

Wang-Tao Zhou, Zhao Kang, Ke Yan et al.

Marked Temporal Point Processes (MTPPs) provide a principled framework for modeling asynchronous event sequences by conditioning on the history of past events. However, most existing MTPP models rely on channel-mixing strategies that encode information from different event types into a single, fixed-size latent representation. This entanglement can obscure type-specific dynamics, leading to performance degradation and increased risk of overfitting. In this work, we introduce ITPP, a novel channel-independent architecture for MTPP modeling that decouples event type information using an encoder-decoder framework with an ODE-based backbone. Central to ITPP is a type-aware inverted self-attention mechanism, designed to explicitly model inter-channel correlations among heterogeneous event types. This architecture enhances effectiveness and robustness while reducing overfitting. Comprehensive experiments on multiple real-world and synthetic datasets demonstrate that ITPP consistently outperforms state-of-the-art MTPP models in both predictive accuracy and generalization.

Wei Fang, Yuxing Tang, Heng Guo et al.

In the realm of medical 3D data, such as CT and MRI images, prevalent anisotropic resolution is characterized by high intra-slice but diminished inter-slice resolution. The lowered resolution between adjacent slices poses challenges, hindering optimal viewing experiences and impeding the development of robust downstream analysis algorithms. Various volumetric super-resolution algorithms aim to surmount these challenges, enhancing inter-slice resolution and overall 3D medical imaging quality. However, existing approaches confront inherent challenges: 1) often tailored to specific upsampling factors, lacking flexibility for diverse clinical scenarios; 2) newly generated slices frequently suffer from over-smoothing, degrading fine details, and leading to inter-slice inconsistency. In response, this study presents CycleINR, a novel enhanced Implicit Neural Representation model for 3D medical data volumetric super-resolution. Leveraging the continuity of the learned implicit function, the CycleINR model can achieve results with arbitrary up-sampling rates, eliminating the need for separate training. Additionally, we enhance the grid sampling in CycleINR with a local attention mechanism and mitigate over-smoothing by integrating cycle-consistent loss. We introduce a new metric, Slice-wise Noise Level Inconsistency (SNLI), to quantitatively assess inter-slice noise level inconsistency. The effectiveness of our approach is demonstrated through image quality evaluations on an in-house dataset and a downstream task analysis on the Medical Segmentation Decathlon liver tumor dataset.

Tony C. W. Mok, Zi Li, Yunhao Bai et al.

Establishing dense anatomical correspondence across distinct imaging modalities is a foundational yet challenging procedure for numerous medical image analysis studies and image-guided radiotherapy. Existing multi-modality image registration algorithms rely on statistical-based similarity measures or local structural image representations. However, the former is sensitive to locally varying noise, while the latter is not discriminative enough to cope with complex anatomical structures in multimodal scans, causing ambiguity in determining the anatomical correspondence across scans with different modalities. In this paper, we propose a modality-agnostic structural representation learning method, which leverages Deep Neighbourhood Self-similarity (DNS) and anatomy-aware contrastive learning to learn discriminative and contrast-invariance deep structural image representations (DSIR) without the need for anatomical delineations or pre-aligned training images. We evaluate our method on multiphase CT, abdomen MR-CT, and brain MR T1w-T2w registration. Comprehensive results demonstrate that our method is superior to the conventional local structural representation and statistical-based similarity measures in terms of discriminability and accuracy.

Linglan Zhao, Xuerui Zhang, Ke Yan et al.

Continual learning aims to incrementally acquire new concepts in data streams while resisting forgetting previous knowledge. With the rise of powerful pre-trained models (PTMs), there is a growing interest in training incremental learning systems using these foundation models, rather than learning from scratch. Existing works often view PTMs as a strong initial point and directly apply parameter-efficient tuning (PET) in the first session for adapting to downstream tasks. In the following sessions, most methods freeze model parameters for tackling forgetting issues. However, applying PET directly to downstream data cannot fully explore the inherent knowledge in PTMs. Additionally, freezing the parameters in incremental sessions hinders models' plasticity to novel concepts not covered in the first session. To solve the above issues, we propose a Slow And Fast parameter-Efficient tuning (SAFE) framework. In particular, to inherit general knowledge from foundation models, we include a transfer loss function by measuring the correlation between the PTM and the PET-applied model. After calibrating in the first session, the slow efficient tuning parameters can capture more informative features, improving generalization to incoming classes. Moreover, to further incorporate novel concepts, we strike a balance between stability and plasticity by fixing slow efficient tuning parameters and continuously updating the fast ones. Specifically, a cross-classification loss with feature alignment is proposed to circumvent catastrophic forgetting. During inference, we introduce an entropy-based aggregation strategy to dynamically utilize the complementarity in the slow and fast learners. Extensive experiments on seven benchmark datasets verify the effectiveness of our method by significantly surpassing the state-of-the-art.

Jinwei Han, Zhiwen Lin, Zhongyisun Sun et al.

We aim at finetuning a vision-language model without hurting its out-of-distribution (OOD) generalization. We address two types of OOD generalization, i.e., i) domain shift such as natural to sketch images, and ii) zero-shot capability to recognize the category that was not contained in the finetune data. Arguably, the diminished OOD generalization after finetuning stems from the excessively simplified finetuning target, which only provides the class information, such as ``a photo of a [CLASS]''. This is distinct from the process in that CLIP was pretrained, where there is abundant text supervision with rich semantic information. Therefore, we propose to compensate for the finetune process using auxiliary supervision with rich semantic information, which acts as anchors to preserve the OOD generalization. Specifically, two types of anchors are elaborated in our method, including i) text-compensated anchor which uses the images from the finetune set but enriches the text supervision from a pretrained captioner, ii) image-text-pair anchor which is retrieved from the dataset similar to pretraining data of CLIP according to the downstream task, associating with the original CLIP text with rich semantics. Those anchors are utilized as auxiliary semantic information to maintain the original feature space of CLIP, thereby preserving the OOD generalization capabilities. Comprehensive experiments demonstrate that our method achieves in-distribution performance akin to conventional finetuning while attaining new state-of-the-art results on domain shift and zero-shot learning benchmarks.