Until now, in the wake of the COVID-19 pandemic in 2019, lung diseases, especially diseases such as lung cancer and chronic obstructive pulmonary disease (COPD), have become an urgent global health issue. In order to mitigate the goal problem, early detection and accurate diagnosis of these conditions are critical for effective treatment and improved patient outcomes. To further research and reduce the error rate of hospital diagnoses, this comprehensive study explored the potential of computer-aided design (CAD) systems, especially utilizing advanced deep learning models such as U-Net. And compared with the literature content of other authors, this study explores the capabilities of U-Net in detail, and enhances the ability to simulate CAD systems through the VGG16 algorithm. An extensive dataset consisting of lung CT images and corresponding segmentation masks, curated collaboratively by multiple academic institutions, serves as the basis for empirical validation. In this paper, the efficiency of U-Net model is evaluated rigorously and precisely under multiple hardware configurations, such as single CPU, single GPU, distributed GPU and federated learning, and the effectiveness and development of the method in the segmentation task of lung disease are demonstrated. Empirical results clearly affirm the robust performance of the U-Net model, most effectively utilizing four GPUs for distributed learning, and these results highlight the potential of U-Net-based CAD systems for accurate and timely lung disease detection and diagnosis huge potential.
Positron Emission Tomography (PET) imaging plays a crucial role in modern medical diagnostics by revealing the metabolic processes within a patient's body, which is essential for quantification of therapy response and monitoring treatment progress. However, the segmentation of PET images presents unique challenges due to their lower contrast and less distinct boundaries compared to other structural medical modalities. Recent developments in segmentation foundation models have shown superior versatility across diverse natural image segmentation tasks. Despite the efforts of medical adaptations, these works primarily focus on structural medical images with detailed physiological structural information and exhibit poor generalization ability when adapted to molecular PET imaging. In this paper, we collect and construct PETS-5k, the largest PET segmentation dataset to date, comprising 5,731 three-dimensional whole-body PET images and encompassing over 1.3M 2D images. Based on the established dataset, we develop SegAnyPET, a modality-specific 3D foundation model for universal promptable segmentation from PET images. To issue the challenge of discrepant annotation quality of PET images, we adopt a cross prompting confident learning (CPCL) strategy with an uncertainty-guided self-rectification process to robustly learn segmentation from high-quality labeled data and low-quality noisy labeled data. Experimental results demonstrate that SegAnyPET can correctly segment seen and unseen targets using only one or a few prompt points, outperforming state-of-the-art foundation models and task-specific fully supervised models with higher accuracy and strong generalization ability for universal segmentation. As the first foundation model for PET images, we believe that SegAnyPET will advance the applications to various downstream tasks for molecular imaging.
The rapid development of Vision Foundation Models (VFMs), particularly Vision Transformers (ViT) and Segment Anything Model (SAM), has sparked significant advances in the field of medical image analysis. These models have demonstrated exceptional capabilities in capturing long-range dependencies and achieving high generalization in segmentation tasks. However, adapting these large models to medical image analysis presents several challenges, including domain differences between medical and natural images, the need for efficient model adaptation strategies, and the limitations of small-scale medical datasets. This paper reviews the state-of-the-art research on the adaptation of VFMs to medical image segmentation, focusing on the challenges of domain adaptation, model compression, and federated learning. We discuss the latest developments in adapter-based improvements, knowledge distillation techniques, and multi-scale contextual feature modeling, and propose future directions to overcome these bottlenecks. Our analysis highlights the potential of VFMs, along with emerging methodologies such as federated learning and model compression, to revolutionize medical image analysis and enhance clinical applications. The goal of this work is to provide a comprehensive overview of current approaches and suggest key areas for future research that can drive the next wave of innovation in medical image segmentation.
Hyperspectral image (HSI) classification is a cornerstone of remote sensing, enabling precise material and land-cover identification through rich spectral information. While deep learning has driven significant progress in this task, small patch-based classifiers, which account for over 90% of the progress, face limitations: (1) the small patch (e.g., 7x7, 9x9)-based sampling approach considers a limited receptive field, resulting in insufficient spatial structural information critical for object-level identification and noise-like misclassifications even within uniform regions; (2) undefined optimal patch sizes lead to coarse label predictions, which degrade performance; and (3) a lack of multi-shape awareness around objects. To address these challenges, we draw inspiration from large-scale image segmentation techniques, which excel at handling object boundaries-a capability essential for semantic labeling in HSI classification. However, their application remains under-explored in this task due to (1) the prevailing notion that larger patch sizes degrade performance, (2) the extensive unlabeled regions in HSI groundtruth, and (3) the misalignment of input shapes between HSI data and segmentation models. Thus, in this study, we propose a novel paradigm and baseline, HSIseg, for HSI classification that leverages segmentation techniques combined with a novel Dynamic Shifted Regional Transformer (DSRT) to overcome these challenges. We also introduce an intuitive progressive learning framework with adaptive pseudo-labeling to iteratively incorporate unlabeled regions into the training process, thereby advancing the application of segmentation techniques. Additionally, we incorporate auxiliary data through multi-source data collaboration, promoting better feature interaction. Validated on five public HSI datasets, our proposal outperforms state-of-the-art methods.
Medical image segmentation plays a crucial role in various clinical applications. A major challenge in medical image segmentation is achieving accurate delineation of regions of interest in the presence of noise, low contrast, or complex anatomical structures. Existing segmentation models often neglect the integration of multi-grained information and fail to preserve edge details, which are critical for precise segmentation. To address these challenges, we propose a novel image semantic segmentation model called the Multi-Grained Feature Integration Network (MGFI-Net). Our MGFI-Net is designed with two dedicated modules to tackle these issues. First, to enhance segmentation accuracy, we introduce a Multi-Grained Feature Extraction Module, which leverages hierarchical relationships between different feature scales to selectively focus on the most relevant information. Second, to preserve edge details, we incorporate an Edge Enhancement Module that effectively retains and integrates boundary information to refine segmentation results. Extensive experiments demonstrate that MGFI-Net not only outperforms state-of-the-art methods in terms of segmentation accuracy but also achieves superior time efficiency, establishing it as a leading solution for real-time medical image segmentation.
Radiographic testing is a fundamental non-destructive evaluation technique for identifying weld defects and assessing quality in industrial applications due to its high-resolution imaging capabilities. Over the past decade, deep learning techniques have significantly advanced weld defect identification in radiographic images. However, conventional approaches, which rely on training small-scale, task-specific models on single-scenario datasets, exhibit poor cross-scenario generalization. Recently, the Segment Anything Model (SAM), a pre-trained visual foundation model trained on large-scale datasets, has demonstrated exceptional zero-shot generalization capabilities. Fine-tuning SAM with limited domain-specific data has yielded promising results in fields such as medical image segmentation and anomaly detection. To the best of our knowledge, this work is the first to introduce SAM-based segmentation for general weld radiographic testing images. We propose WRT-SAM, a novel weld radiographic defect segmentation model that leverages SAM through an adapter-based integration with a specialized prompt generator architecture. To improve adaptability to grayscale weld radiographic images, we introduce a frequency prompt generator module, which enhances the model's sensitivity to frequency-domain information. Furthermore, to address the multi-scale nature of weld defects, we incorporate a multi-scale prompt generator module, enabling the model to effectively extract and encode defect information across varying scales. Extensive experimental evaluations demonstrate that WRT-SAM achieves a recall of 78.87%, a precision of 84.04%, and an AUC of 0.9746, setting a new state-of-the-art (SOTA) benchmark. Moreover, the model exhibits superior zero-shot generalization performance, highlighting its potential for practical deployment in diverse radiographic testing scenarios.
This work presents a novel Bayesian framework for unsupervised domain adaptation (UDA) in medical image segmentation. While prior works have explored this clinically significant task using various strategies of domain alignment, they often lack an explicit and explainable mechanism to ensure that target image features capture meaningful structural information. Besides, these methods are prone to the curse of dimensionality, inevitably leading to challenges in interpretability and computational efficiency. To address these limitations, we propose RemInD, a framework inspired by human adaptation. RemInD learns a domain-agnostic latent manifold, characterized by several anchors, to memorize anatomical variations. By mapping images onto this manifold as weighted anchor averages, our approach ensures realistic and reliable predictions. This design mirrors how humans develop representative components to understand images and then retrieve component combinations from memory to guide segmentation. Notably, model prediction is determined by two explainable factors: a low-dimensional anchor weight vector, and a spatial deformation. This design facilitates computationally efficient and geometry-adherent adaptation by aligning weight vectors between domains on a probability simplex. Experiments on two public datasets, encompassing cardiac and abdominal imaging, demonstrate the superiority of RemInD, which achieves state-of-the-art performance using a single alignment approach, outperforming existing methods that often rely on multiple complex alignment strategies.
Semi-supervised 3D medical image segmentation aims to achieve accurate segmentation using few labelled data and numerous unlabelled data. The main challenge in the design of semi-supervised learning methods consists in the effective use of the unlabelled data for training. A promising solution consists of ensuring consistent predictions across different views of the data, where the efficacy of this strategy depends on the accuracy of the pseudo-labels generated by the model for this consistency learning strategy. In this paper, we introduce a new methodology to produce high-quality pseudo-labels for a consistency learning strategy to address semi-supervised 3D medical image segmentation. The methodology has three important contributions. The first contribution is the Cooperative Rectification Learning Network (CRLN) that learns multiple prototypes per class to be used as external knowledge priors to adaptively rectify pseudo-labels at the voxel level. The second contribution consists of the Dynamic Interaction Module (DIM) to facilitate pairwise and cross-class interactions between prototypes and multi-resolution image features, enabling the production of accurate voxel-level clues for pseudo-label rectification. The third contribution is the Cooperative Positive Supervision (CPS), which optimises uncertain representations to align with unassertive representations of their class distributions, improving the model's accuracy in classifying uncertain regions. Extensive experiments on three public 3D medical segmentation datasets demonstrate the effectiveness and superiority of our semi-supervised learning method.
Deep learning (DL) techniques have emerged as promising solutions for medical wound tissue segmentation. However, a notable limitation in this field is the lack of publicly available labelled datasets and a standardised performance evaluation of state-of-the-art DL models on such datasets. This study addresses this gap by comprehensively evaluating various DL models for wound tissue segmentation using a novel dataset. We have curated a dataset comprising 147 wound images exhibiting six tissue types: slough, granulation, maceration, necrosis, bone, and tendon. The dataset was meticulously labelled for semantic segmentation employing supervised machine learning techniques. Three distinct labelling formats were developed -- full image, patch, and superpixel. Our investigation encompassed a wide array of DL segmentation and classification methodologies, ranging from conventional approaches like UNet, to generative adversarial networks such as cGAN, and modified techniques like FPN+VGG16. Also, we explored DL-based classification methods (e.g., ResNet50) and machine learning-based classification leveraging DL features (e.g., AlexNet+RF). In total, 82 wound tissue segmentation models were derived across the three labelling formats. Our analysis yielded several notable findings, including identifying optimal DL models for each labelling format based on weighted average Dice or F1 scores. Notably, FPN+VGG16 emerged as the top-performing DL model for wound tissue segmentation, achieving a dice score of 82.25%. This study provides a valuable benchmark for evaluating wound image segmentation and classification models, offering insights to inform future research and clinical practice in wound care. The labelled dataset created in this study is available at https://github.com/akabircs/WoundTissue.
The deployment of advanced deep learning models for medical image segmentation is often constrained by the requirement for extensively annotated datasets. Weakly-supervised learning, which allows less precise labels, has become a promising solution to this challenge. Building on this approach, we propose QMaxViT-Unet+, a novel framework for scribble-supervised medical image segmentation. This framework is built on the U-Net architecture, with the encoder and decoder replaced by Multi-Axis Vision Transformer (MaxViT) blocks. These blocks enhance the model's ability to learn local and global features efficiently. Additionally, our approach integrates a query-based Transformer decoder to refine features and an edge enhancement module to compensate for the limited boundary information in the scribble label. We evaluate the proposed QMaxViT-Unet+ on four public datasets focused on cardiac structures, colorectal polyps, and breast cancer: ACDC, MS-CMRSeg, SUN-SEG, and BUSI. Evaluation metrics include the Dice similarity coefficient (DSC) and the 95th percentile of Hausdorff distance (HD95). Experimental results show that QMaxViT-Unet+ achieves 89.1\% DSC and 1.316mm HD95 on ACDC, 88.4\% DSC and 2.226mm HD95 on MS-CMRSeg, 71.4\% DSC and 4.996mm HD95 on SUN-SEG, and 69.4\% DSC and 50.122mm HD95 on BUSI. These results demonstrate that our method outperforms existing approaches in terms of accuracy, robustness, and efficiency while remaining competitive with fully-supervised learning approaches. This makes it ideal for medical image analysis, where high-quality annotations are often scarce and require significant effort and expense. The code is available at: https://github.com/anpc849/QMaxViT-Unet
Referring Remote Sensing Image Segmentation (RRSIS) is critical for ecological monitoring, urban planning, and disaster management, requiring precise segmentation of objects in remote sensing imagery guided by textual descriptions. This task is uniquely challenging due to the considerable vision-language gap, the high spatial resolution and broad coverage of remote sensing imagery with diverse categories and small targets, and the presence of clustered, unclear targets with blurred edges. To tackle these issues, we propose \ours, a novel framework designed to bridge the vision-language gap, enhance multi-scale feature interaction, and improve fine-grained object differentiation. Specifically, \ours introduces: (1) the Bidirectional Spatial Correlation (BSC) for improved vision-language feature alignment, (2) the Target-Background TwinStream Decoder (T-BTD) for precise distinction between targets and non-targets, and (3) the Dual-Modal Object Learning Strategy (D-MOLS) for robust multimodal feature reconstruction. Extensive experiments on the benchmark datasets RefSegRS and RRSIS-D demonstrate that \ours achieves state-of-the-art performance. Specifically, \ours improves the overall IoU (oIoU) by 3.76 percentage points (80.57) and 1.44 percentage points (79.23) on the two datasets, respectively. Additionally, it outperforms previous methods in the mean IoU (mIoU) by 5.37 percentage points (67.95) and 1.84 percentage points (66.04), effectively addressing the core challenges of RRSIS with enhanced precision and robustness.
Medical image segmentation remains a formidable challenge due to the label scarcity. Pre-training Vision Transformer (ViT) through masked image modeling (MIM) on large-scale unlabeled medical datasets presents a promising solution, providing both computational efficiency and model generalization for various downstream tasks. However, current ViT-based MIM pre-training frameworks predominantly emphasize local aggregation representations in output layers and fail to exploit the rich representations across different ViT layers that better capture fine-grained semantic information needed for more precise medical downstream tasks. To fill the above gap, we hereby present Hierarchical Encoder-driven MAE (Hi-End-MAE), a simple yet effective ViT-based pre-training solution, which centers on two key innovations: (1) Encoder-driven reconstruction, which encourages the encoder to learn more informative features to guide the reconstruction of masked patches; and (2) Hierarchical dense decoding, which implements a hierarchical decoding structure to capture rich representations across different layers. We pre-train Hi-End-MAE on a large-scale dataset of 10K CT scans and evaluated its performance across seven public medical image segmentation benchmarks. Extensive experiments demonstrate that Hi-End-MAE achieves superior transfer learning capabilities across various downstream tasks, revealing the potential of ViT in medical imaging applications. The code is available at: https://github.com/FengheTan9/Hi-End-MAE
Automated lesion segmentation of medical images has made tremendous improvements in recent years due to deep learning advancements. However, accurately capturing fine-grained global and regional feature representations remains a challenge. Many existing methods obtain suboptimal performance on complex lesion segmentation due to information loss during typical downsampling operations and the insufficient capture of either regional or global features. To address these issues, we propose the Global and Regional Compensation Segmentation Framework (GRCSF), which introduces two key innovations: the Global Compensation Unit (GCU) and the Region Compensation Unit (RCU). The proposed GCU addresses resolution loss in the U-shaped backbone by preserving global contextual features and fine-grained details during multiscale downsampling. Meanwhile, the RCU introduces a self-supervised learning (SSL) residual map generated by Masked Autoencoders (MAE), obtained as pixel-wise differences between reconstructed and original images, to highlight regions with potential lesions. These SSL residual maps guide precise lesion localization and segmentation through a patch-based cross-attention mechanism that integrates regional spatial and pixel-level features. Additionally, the RCU incorporates patch-level importance scoring to enhance feature fusion by leveraging global spatial information from the backbone. Experiments on two publicly available medical image segmentation datasets, including brain stroke lesion and coronary artery calcification datasets, demonstrate that our GRCSF outperforms state-of-the-art methods, confirming its effectiveness across diverse lesion types and its potential as a generalizable lesion segmentation solution.
Image-to-image translation (I2I) transforms an image from a source domain to a target domain while preserving source content. Most computer vision applications are in the field of image-to-image translation, such as style transfer, image segmentation, and photo enhancement. The degree of preservation of the content of the source images in the translation process can be different according to the problem and the intended application. From this point of view, in this paper, we divide the different tasks in the field of image-to-image translation into three categories: Fully Content preserving, Partially Content preserving, and Non-Content preserving. We present different tasks, datasets, methods, results of methods for these three categories in this paper. We make a categorization for I2I methods based on the architecture of different models and study each category separately. In addition, we introduce well-known evaluation criteria in the I2I translation field. Specifically, nearly 70 different I2I models were analyzed, and more than 10 quantitative evaluation metrics and 30 distinct tasks and datasets relevant to the I2I translation problem were both introduced and assessed. Translating from simulation to real images could be well viewed as an application of fully content preserving or partially content preserving unsupervised image-to-image translation methods. So, we provide a benchmark for Sim-to-Real translation, which can be used to evaluate different methods. In general, we conclude that because of the different extent of the obligation to preserving content in various applications, it is better to consider this issue in choosing a suitable I2I model for a specific application.
Differentiating signals from the background in micrographs is a critical initial step for cryogenic electron microscopy (cryo-EM), yet it remains laborious due to low signal-to-noise ratio (SNR), the presence of contaminants and densely packed particles of varying sizes. Although image segmentation has recently been introduced to distinguish particles at the pixel level, the low SNR complicates the automated generation of accurate annotations for training supervised models. Moreover, platforms for systematically comparing different design choices in pipeline construction are lacking. Thus, a modular framework is essential to understand the advantages and limitations of this approach and drive further development. To address these challenges, we present a pipeline that automatically generates high-quality segmentation maps from cryo-EM data to serve as ground truth labels. Our modular framework enables the selection of various segmentation models and loss functions. We also integrate Conditional Random Fields (CRFs) with different solvers and feature sets to refine coarse predictions, thereby producing fine-grained segmentation. This flexibility facilitates optimal configurations tailored to cryo-EM datasets. When trained on a limited set of micrographs, our approach achieves over 90% accuracy, recall, precision, Intersection over Union (IoU), and F1-score on synthetic data. Furthermore, to demonstrate our framework's efficacy in downstream analyses, we show that the particles extracted by our pipeline produce 3D density maps with higher resolution than those generated by existing particle pickers on real experimental datasets, while achieving performance comparable to that of manually curated datasets from experts.
Sketch segmentation involves grouping pixels within a sketch that belong to the same object or instance. It serves as a valuable tool for sketch editing tasks, such as moving, scaling, or removing specific components. While image segmentation models have demonstrated remarkable capabilities in recent years, sketches present unique challenges for these models due to their sparse nature and wide variation in styles. We introduce InkLayer, a method for instance segmentation of raster scene sketches. Our approach adapts state-of-the-art image segmentation and object detection models to the sketch domain by employing class-agnostic fine-tuning and refining segmentation masks using depth cues. Furthermore, our method organizes sketches into sorted layers, where occluded instances are inpainted, enabling advanced sketch editing applications. As existing datasets in this domain lack variation in sketch styles, we construct a synthetic scene sketch segmentation dataset, InkScenes, featuring sketches with diverse brush strokes and varying levels of detail. We use this dataset to demonstrate the robustness of our approach.
In semi-supervised medical image segmentation, the poor quality of unlabeled data and the uncertainty in the model's predictions lead to models that inevitably produce erroneous pseudo-labels. These errors accumulate throughout model training, thereby weakening the model's performance. We found that these erroneous pseudo-labels are typically concentrated in high-uncertainty regions. Traditional methods improve performance by directly discarding pseudo-labels in these regions, but this can also result in neglecting potentially valuable training data. To alleviate this problem, we propose a bidirectional uncertainty-aware region learning strategy. In training labeled data, we focus on high-uncertainty regions, using precise label information to guide the model's learning in potentially uncontrollable areas. Meanwhile, in the training of unlabeled data, we concentrate on low-uncertainty regions to reduce the interference of erroneous pseudo-labels on the model. Through this bidirectional learning strategy, the model's overall performance has significantly improved. Extensive experiments show that our proposed method achieves significant performance improvement on different medical image segmentation tasks.
The Segment Anything Model (SAM) has gained popularity as a versatile image segmentation method, thanks to its strong generalization capabilities across various domains. However, when applied to optic disc (OD) and optic cup (OC) segmentation tasks, SAM encounters challenges due to the complex structures, low contrast, and blurred boundaries typical of fundus images, leading to suboptimal performance. To overcome these challenges, we introduce a novel model, FunduSAM, which incorporates several Adapters into SAM to create a deep network specifically designed for OD and OC segmentation. The FunduSAM utilizes Adapter into each transformer block after encoder for parameter fine-tuning (PEFT). It enhances SAM's feature extraction capabilities by designing a Convolutional Block Attention Module (CBAM), addressing issues related to blurred boundaries and low contrast. Given the unique requirements of OD and OC segmentation, polar transformation is used to convert the original fundus OD images into a format better suited for training and evaluating FunduSAM. A joint loss is used to achieve structure preservation between the OD and OC, while accurate segmentation. Extensive experiments on the REFUGE dataset, comprising 1,200 fundus images, demonstrate the superior performance of FunduSAM compared to five mainstream approaches.
Chronic kidney disease (CKD) is a major global health issue, affecting over 10% of the population and causing significant mortality. While kidney biopsy remains the gold standard for CKD diagnosis and treatment, the lack of comprehensive benchmarks for kidney pathology segmentation hinders progress in the field. To address this, we organized the Kidney Pathology Image Segmentation (KPIs) Challenge, introducing a dataset that incorporates preclinical rodent models of CKD with over 10,000 annotated glomeruli from 60+ Periodic Acid Schiff (PAS)-stained whole slide images. The challenge includes two tasks, patch-level segmentation and whole slide image segmentation and detection, evaluated using the Dice Similarity Coefficient (DSC) and F1-score. By encouraging innovative segmentation methods that adapt to diverse CKD models and tissue conditions, the KPIs Challenge aims to advance kidney pathology analysis, establish new benchmarks, and enable precise, large-scale quantification for disease research and diagnosis.
Segmentation of colorectal cancer (CRC) tumors in 3D medical imaging is both complex and clinically critical, providing vital support for effective radiation therapy planning and survival outcome assessment. Recently, 3D volumetric segmentation architectures incorporating long-range sequence modeling mechanisms, such as Transformers and Mamba, have gained attention for their capacity to achieve high accuracy in 3D medical image segmentation. In this work, we evaluate the effectiveness of these global token modeling techniques by pitting them against our proposed MambaOutUNet within the context of our newly introduced colorectal tumor segmentation dataset (CTS-204). Our findings suggest that robust local token interactions can outperform long-range modeling techniques in cases where the region of interest is small and anatomically complex, proposing a potential shift in 3D tumor segmentation research.