Multi-organ Segmentation via Co-training Weight-averaged Models from Few-organ Datasets
SenseTime Research（商汤科技研究院）；School of Information Science and Engineering at Shandong Normal University（山东师范大学信息科学与工程学院）；CUHK-SenseTime Joint Laboratory, The Chinese University of Hong Kong（香港中文大学-商汤科技联合实验室）
Rui Huang, Yuanjie Zheng, Zhiqiang Hu, Shaoting Zhang, Hongsheng Li
Multi-organ segmentation has extensive applications in many clinical applications. To segment multiple organs of interest, it is generally quite difficult to collect full annotations of all the organs on the same images, as some medical centers might only annotate a portion of the organs due to their own clinical practice. In most scenarios, one might obtain annotations of a single or a few organs from one training set, and obtain annotations of the the other organs from another set of training images. Existing approaches mostly train and deploy a single model for each subset of organs, which are memory intensive and also time inefficient. In this paper, we propose to co-train weight-averaged models for learning a unified multi-organ segmentation network from few-organ datasets. We collaboratively train two networks and let the coupled networks teach each other on un-annotated organs. To alleviate the noisy teaching supervisions between the networks, the weighted-averaged models are adopted to produce more reliable soft labels. In addition, a novel region mask is utilized to selectively apply the consistent constraint on the un-annotated organ regions that require collaborative teaching, which further boosts the performance. Extensive experiments on three public available single-organ datasets LiTS, KiTS, Pancreas and manually-constructed single-organ datasets from MOBA show that our method can better utilize the few-organ datasets and achieves superior performance with less inference computational cost.
Cooperative Medianet Innovation Center, Shanghai Jiao Tong University（上海交通大学媒体网络协同创新中心）
Annotating multiple organs in 3D medical images is time-consuming and costly. Meanwhile, there exist many single-organ datasets with one specific organ annotated. This paper investigates how to learn a multi-organ segmentation model leveraging a set of binary-labeled datasets. A novel Multi-teacher Single-student Knowledge Distillation (MS-KD) framework is proposed, where the teacher models are pre-trained single-organ segmentation networks, and the student model is a multi-organ segmentation network. Considering that each teacher focuses on different organs, a region-based supervision method,…
Deep Mutual Learning among Partially Labeled Datasets for Multi-Organ Segmentation
Digital Medical Research Center, School of Basic Medical Science, Fudan University（复旦大学基础医学院数字医学研究中心）；Shanghai Key Lab of Medical Image Computing and Computer Assisted Intervention（上海市医学影像计算与计算机辅助介入重点实验室）
The Chinese University of Hong Kong（香港中文大学）；University of Leicester（莱斯特大学）
Domain adaptation is crucial for transferring the knowledge from the source labeled CT dataset to the target unlabeled MR dataset in abdominal multi-organ segmentation. Meanwhile, it is highly desirable to avoid the high annotation cost related to the target dataset and protect the source dataset privacy. Therefore, we propose an effective source-free unsupervised domain adaptation method for cross-modality abdominal multi-organ segmentation without source dataset access. The proposed framework comprises two stages. In the first stage, the feature map statistics-guided model adaptation combine…
Continual Segment: Towards a Single, Unified and Accessible Continual Segmentation Model of 143 Whole-body Organs in CT Scans
DAMO Academy, Alibaba Group（阿里巴巴集团达摩院）；Hupan Lab（湖畔实验室）；University at Buffalo（布法罗大学）；Sichuan Cancer Hospital（四川省肿瘤医院）；The First Affiliated Hospital of Zhejiang University（浙江大学医学院附属第一医院）
Nanjing University of Science and Technology（南京理工大学）；Institute of Computing Technology, Chinese Academy of Sciences（中国科学院计算技术研究所）；University of Chinese Academy of Sciences（中国科学院大学）；Lenovo Research（联想研究院）；Nanjing University of Information Science and Technology（南京信息工程大学）；Shenzhen Haichuang Medical CO., LTD.（深圳海创医疗有限公司）；Jiangsu University of Technology（江苏理工学院）；Beihang University（北京航空航天大学）；Beijing Infervision Technology CO. LTD.（北京推想科技有限公司）；Tianjin University of Technology（天津理工大学）；Norwegian University of Science and Technology（挪威科技大学）；Nanjing University（南京大学）；Suzhou LungCare Medical Technology Co., Ltd（苏州朗润医疗科技有限公司）；King Abdullah University of Science and Technology（阿卜杜拉国王科技大学）
With the unprecedented developments in deep learning, automatic segmentation of main abdominal organs seems to be a solved problem as state-of-the-art (SOTA) methods have achieved comparable results with inter-rater variability on many benchmark datasets. However, most of the existing abdominal datasets only contain single-center, single-phase, single-vendor, or single-disease cases, and it is unclear whether the excellent performance can generalize on diverse datasets. This paper presents a large and diverse abdominal CT organ segmentation dataset, termed AbdomenCT-1K, with more than 1000 (1K…
Biomedical Image Analysis Group, Imperial College London（帝国理工学院生物医学图像分析组）；Comprehensive Cancer Imaging Centre, Hammersmith Hospital, Imperial College London（帝国理工学院哈默史密斯医院综合癌症成像中心）；The Royal Marsden NHS Foundation Trust, London（伦敦皇家马斯登国民保健服务基金会信托）
The variations in multi-center data in medical imaging studies have brought the necessity of domain adaptation. Despite the advancement of machine learning in automatic segmentation, performance often degrades when algorithms are applied on new data acquired from different scanners or sequences than the training data. Manual annotation is costly and time consuming if it has to be carried out for every new target domain. In this work, we investigate automatic selection of suitable subjects to be annotated for supervised domain adaptation using the concept of reverse classification accuracy (RCA…
Armed Forces Yangju Hospital（杨州武装部队医院）；Seoul National University（首尔国立大学）
For more clinical applications of deep learning models for medical image segmentation, high demands on labeled data and computational resources must be addressed. This study proposes a coarse-to-fine framework with two teacher models and a student model that combines knowledge distillation and cross teaching, a consistency regularization based on pseudo-labels, for efficient semi-supervised learning. The proposed method is demonstrated on the abdominal multi-organ segmentation task in CT images under the MICCAI FLARE 2022 challenge, with mean Dice scores of 0.8429 and 0.8520 in the validation …
RPTU Kaiserslautern-Landau（莱茵兰-普法尔茨州凯泽斯劳滕-兰道应用技术大学）；Karlsruhe Institute of Technology（卡尔斯鲁厄理工学院）；Heidelberg University（海德堡大学）；German Research Center for Artificial Intelligence (DFKI)（德国人工智能研究中心（DFKI））
Morphological atlases are an important tool in organismal studies, and modern high-throughput Computed Tomography (CT) facilities can produce hundreds of full-body high-resolution volumetric images of organisms. However, creating an atlas from these volumes requires accurate organ segmentation. In the last decade, machine learning approaches have achieved incredible results in image segmentation tasks, but they require large amounts of annotated data for training. In this paper, we propose a self-training framework for multi-organ segmentation in tomographic images of Medaka fish. We utilize t…
INSA Rouen（鲁昂国立应用科学学院）；Normandie Univ（诺曼底大学）；UNIROUEN（鲁昂大学）；UNIHAVRE（勒阿弗尔大学）；Centre Henri Becquerel（亨利·贝克勒尔中心）
In the era of open science, public datasets, along with common experimental protocol, help in the process of designing and validating data science algorithms; they also contribute to ease reproductibility and fair comparison between methods. Many datasets for image segmentation are available, each presenting its own challenges; however just a very few exist for radiotherapy planning. This paper is the presentation of a new dataset dedicated to the segmentation of organs at risk (OARs) in the thorax, i.e. the organs surrounding the tumour that must be preserved from irradiations during radiothe…
University of Electronic Science and Technology of China（电子科技大学）；Shanghai Artificial Intelligence Laboratory（上海人工智能实验室）；Sichuan Cancer Hospital and Institute（四川省肿瘤医院（四川省肿瘤研究所））；Sichuan Cancer Center（四川省癌症中心）；Sichuan University（四川大学）；West China Hospital（华西医院）；Johns Hopkins University（约翰斯·霍普金斯大学）；SenseTime Research（商汤科技研究院）；Rutgers University（罗格斯大学）
Whole abdominal organ segmentation is important in diagnosing abdomen lesions, radiotherapy, and follow-up. However, oncologists' delineating all abdominal organs from 3D volumes is time-consuming and very expensive. Deep learning-based medical image segmentation has shown the potential to reduce manual delineation efforts, but it still requires a large-scale fine annotated dataset for training, and there is a lack of large-scale datasets covering the whole abdomen region with accurate and detailed annotations for the whole abdominal organ segmentation. In this work, we establish a new large-s…
TU Dresden（德累斯顿工业大学）；University Hospital and Faculty of Medicine Carl Gustav Carus（卡尔·古斯塔夫·卡鲁斯大学医院及医学院）；Paul Langerhans Institute Dresden (PLID) of the Helmholtz Center Munich（慕尼黑亥姆霍兹中心德累斯顿保罗·朗格汉斯研究所（PLID））；German Center for Diabetes Research (DZD e.V.)（德国糖尿病研究中心（DZD e.V.））；Max Delbrück Center for Molecular Medicine (MDC) in the Helmholtz Association（亥姆霍兹联合会马克斯·德尔布吕克分子医学中心（MDC））；École Polytechnique Fédérale de Lausanne (EPFL)（洛桑联邦理工学院（EPFL））
Volume electron microscopy is the method of choice for the in-situ interrogation of cellular ultrastructure at the nanometer scale. Recent technical advances have led to a rapid increase in large raw image datasets that require computational strategies for segmentation and spatial analysis. In this protocol, we describe a practical and annotation-efficient pipeline for organelle-specific segmentation, spatial analysis, and visualization of large volume electron microscopy datasets using freely available, user-friendly software tools that can be run on a single standard workstation. We specific…
University of North Carolina at Chapel Hill（北卡罗来纳大学教堂山分校）
The accurate segmentation of organs-at-risk (OARs) in head and neck CT images is a critical step for radiation therapy of head and neck cancer patients. However, manual delineation for numerous OARs is time-consuming and laborious, even for expert oncologists. Moreover, manual delineation results are susceptible to high intra- and inter-variability. To this end, we propose a novel dual shape guided network (DSGnet) to automatically delineate nine important OARs in head and neck CT images. To deal with the large shape variation and unclear boundary of OARs in CT images, we represent the organ s…
Automatic Organ and Pan-cancer Segmentation in Abdomen CT: the FLARE 2023 Challenge
University of Toronto（多伦多大学）；University Health Network（大学网络健康中心）；Vector Institute（向量研究所）；Lenovo Research（联想研究院）；Nanjing Anke Medical Technology Co., Ltd.（南京安科医疗科技有限公司）；Ocean University of China（中国海洋大学）；ShenZhen Yorktal DMIT Co. LTD.（深圳约克塔尔DMIT有限公司）；Shanghai Jiao Tong University（上海交通大学）；East China University of Science and Technology（华东理工大学）；Shanghai AI Laboratory（上海人工智能实验室）；City University of Macau（澳门城市大学）；Hanglok-Tech Co., Ltd.（恒乐科技有限公司）；Nanjing Drum Tower Hospital（南京鼓楼医院）
Polytechnique Montreal（蒙特利尔理工学院）；Universite de Montreal（蒙特利尔大学）
Recently proposed techniques for semi-supervised learning such as Temporal Ensembling and Mean Teacher have achieved state-of-the-art results in many important classification benchmarks. In this work, we expand the Mean Teacher approach to segmentation tasks and show that it can bring important improvements in a realistic small data regime using a publicly available multi-center dataset from the Magnetic Resonance Imaging (MRI) domain. We also devise a method to solve the problems that arise when using traditional data augmentation strategies for segmentation tasks on our new training scheme.
Ludwig Maximilians University（路德维希-马克西米利安大学）；Technical University Munich（慕尼黑工业大学）
The wide range of research in deep learning-based medical image segmentation pushed the boundaries in a multitude of applications. A clinically relevant problem that received less attention is the handling of scans with irregular anatomy, e.g., after organ resection. State-of-the-art segmentation models often lead to organ hallucinations, i.e., false-positive predictions of organs, which cannot be alleviated by oversampling or post-processing. Motivated by the increasing need to develop robust deep learning models, we propose HALOS for abdominal organ segmentation in MR images that handles cas…
Tailored Multi-Organ Segmentation with Model Adaptation and Ensemble
Zhejiang University（浙江大学）；Suzhou Institute for Advanced Research, University of Science and Technology of China（中国科学技术大学苏州高等研究院）；Ritsumeikan University（立命馆大学）；University of Science and Technology of China（中国科学技术大学）
Automatic segmentation of abdomen organs using medical imaging has many potential applications in clinical workflows. Recently, the state-of-the-art performance for organ segmentation has been achieved by deep learning models, i.e., convolutional neural network (CNN). However, it is challenging to train the conventional CNN-based segmentation models that aware of the shape and topology of organs. In this work, we tackle this problem by introducing a novel end-to-end shape learning architecture -- organ point-network. It takes deep learning features as inputs and generates organ shape represent…
Beijing UCAS Space Technology Co., Ltd.（北京国科大空间技术有限公司）；University of Science and Technology of China（中国科学技术大学）；Institute of Computing Technology, CAS（中国科学院计算技术研究所）
Objective and Impact Statement: Accurate organ segmentation is critical for many clinical applications at different clinical sites, which may have their specific application requirements that concern different organs. Introduction: However, learning high-quality, site-specific organ segmentation models is challenging as it often needs on-site curation of a large number of annotated images. Security concerns further complicate the matter. Methods: The paper aims to tackle these challenges via a two-phase aggregation-then-adaptation approach. The first phase of federated aggregation learns a sin…
InferLink Corporation（InferLink公司）；Fred Hutch Cancer Research Center（弗雷德·哈钦森癌症研究中心）
The analysis of animal cross section images, such as cross sections of laboratory mice, is critical in assessing the effect of experimental drugs such as the biodistribution of candidate compounds in preclinical drug development stage. Tissue distribution of radiolabeled candidate therapeutic compounds can be quantified using techniques like Quantitative Whole-Body Autoradiography (QWBA).QWBA relies, among other aspects, on the accurate segmentation or identification of key organs of interest in the animal cross section image such as the brain, spine, heart, liver and others. We present a deep…
The University of Hong Kong（香港大学）；Tencent（腾讯）；Huazhong University of Science and Technology（华中科技大学）
Learning by imitation is one of the most significant abilities of human beings and plays a vital role in human's computational neural system. In medical image analysis, given several exemplars (anchors), experienced radiologist has the ability to delineate unfamiliar organs by imitating the reasoning process learned from existing types of organs. Inspired by this observation, we propose OrganNet which learns a generalized organ concept from a set of annotated organ classes and then transfer this concept to unseen classes. In this paper, we show that such process can be integrated into the one-…
Technical University of Munich（慕尼黑工业大学）；Klinikum rechts der Isar（慕尼黑 Rechts der Isar 医院）；University of Zurich（苏黎世大学）
Automatic localization and segmentation of organs-at-risk (OAR) in CT are essential pre-processing steps in medical image analysis tasks, such as radiation therapy planning. For instance, the segmentation of OAR surrounding tumors enables the maximization of radiation to the tumor area without compromising the healthy tissues. However, the current medical workflow requires manual delineation of OAR, which is prone to errors and is annotator-dependent. In this work, we aim to introduce a unified 3D pipeline for OAR localization-segmentation rather than novel localization or segmentation archite…
Most existing approaches to train a unified multi-organ segmentation model from several single-organ datasets require simultaneously access multiple datasets during training. In the real scenarios, due to privacy and ethics concerns, the training data of the organs of interest may not be publicly available. To this end, we investigate a data-free incremental organ segmentation scenario and propose a novel incremental training framework to solve it. We use the pretrained model instead of its own training data for privacy protection. Specifically, given a pretrained $K$ organ segmentation model …
Accurate and robust segmentation of small organs in whole-body MRI is difficult due to anatomical variation and class imbalance. Recent deep network based approaches have demonstrated promising performance on abdominal multi-organ segmentations. However, the performance on small organs is still suboptimal as these occupy only small regions of the whole-body volumes with unclear boundaries and variable shapes. A coarse-to-fine, hierarchical strategy is a common approach to alleviate this problem, however, this might miss useful contextual information. We propose a two-stage approach with weight…
Pennsylvania State University（宾夕法尼亚州立大学）；Tencent Hippocrates Research Lab（腾讯希波克拉底研究实验室）；Shandong Cancer Hospital and Institute（山东省肿瘤医院研究院）
In this work, we propose to resolve the issue existing in current deep learning based organ segmentation systems that they often produce results that do not capture the overall shape of the target organ and often lack smoothness. Since there is a rigorous mapping between the Signed Distance Map (SDM) calculated from object boundary contours and the binary segmentation map, we exploit the feasibility of learning the SDM directly from medical scans. By converting the segmentation task into predicting an SDM, we show that our proposed method retains superior segmentation performance and has bette…
Brain image segmentation is used for visualizing and quantifying anatomical structures of the brain. We present an automated ap-proach using 2D deep residual dilated networks which captures rich context information of different tissues for the segmentation of eight brain structures. The proposed system was evaluated in the MICCAI Brain Segmentation Challenge and ranked 9th out of 22 teams. We further compared the method with traditional U-Net using leave-one-subject-out cross-validation setting on the public dataset. Experimental results shows that the proposed method outperforms traditional U…
The Johns Hopkins University（约翰斯·霍普金斯大学）；The Johns Hopkins University School of Medicine（约翰斯·霍普金斯大学医学院）
There has been a debate on whether to use 2D or 3D deep neural networks for volumetric organ segmentation. Both 2D and 3D models have their advantages and disadvantages. In this paper, we present an alternative framework, which trains 2D networks on different viewpoints for segmentation, and builds a 3D Volumetric Fusion Net (VFN) to fuse the 2D segmentation results. VFN is relatively shallow and contains much fewer parameters than most 3D networks, making our framework more efficient at integrating 3D information for segmentation. We train and test the segmentation and fusion modules individu…
Institute of Computing Technology, Chinese Academy of Sciences（中国科学院计算技术研究所）；Southeast University（东南大学）
Annotating multiple organs in medical images is both costly and time-consuming; therefore, existing multi-organ datasets with labels are often low in sample size and mostly partially labeled, that is, a dataset has a few organs labeled but not all organs. In this paper, we investigate how to learn a single multi-organ segmentation network from a union of such datasets. To this end, we propose two types of novel loss function, particularly designed for this scenario: (i) marginal loss and (ii) exclusion loss. Because the background label for a partially labeled image is, in fact, a `merged' lab…
SelfMedHPM: Self Pre-training With Hard Patches Mining Masked Autoencoders For Medical Image Segmentation
1 Department of Computer Science；Engineering, Nanjing University of Aeronautics；\ , Nanjing, China 2 School of Biomedical Engineering；the Institute of Medical Robotics, Shanghai JiaoTong University, Shanghai, 200240, China
Brno University of Technology（布尔诺理工大学）；TESCAN 3DIM（泰思肯三维成像公司）
This paper deals with segmentation of organs at risk (OAR) in head and neck area in CT images which is a crucial step for reliable intensity modulated radiotherapy treatment. We introduce a convolution neural network with encoder-decoder architecture and a new loss function, the batch soft Dice loss function, used to train the network. The resulting model produces segmentations of every OAR in the public MICCAI 2015 Head And Neck Auto-Segmentation Challenge dataset. Despite the heavy class imbalance in the data, we improve accuracy of current state-of-the-art methods by 0.33 mm in terms of ave…
Technische Universität München（慕尼黑工业大学）；Klinikum rechts der Isar（伊萨尔河右岸医院）
Multi-organ segmentation in whole-body computed tomography (CT) is a constant pre-processing step which finds its application in organ-specific image retrieval, radiotherapy planning, and interventional image analysis. We address this problem from an organ-specific shape-prior learning perspective. We introduce the idea of complementary-task learning to enforce shape-prior leveraging the existing target labels. We propose two complementary-tasks namely i) distance map regression and ii) contour map detection to explicitly encode the geometric properties of each organ. We evaluate the proposed …
Johns Hopkins University（约翰斯·霍普金斯大学）；Huazhong University of Science and Technology（华中科技大学）；Shanghai University（上海大学）；The Johns Hopkins University School of Medicine（约翰斯·霍普金斯大学医学院）
Deep convolutional neural networks (CNNs), especially fully convolutional networks, have been widely applied to automatic medical image segmentation problems, e.g., multi-organ segmentation. Existing CNN-based segmentation methods mainly focus on looking for increasingly powerful network architectures, but pay less attention to data sampling strategies for training networks more effectively. In this paper, we present a simple but effective sample selection method for training multi-organ segmentation networks. Sample selection exhibits an exploitation-exploration strategy, i.e., exploiting har…
Counting plant organs such as heads or tassels from outdoor imagery is a popular benchmark computer vision task in plant phenotyping, which has been previously investigated in the literature using state-of-the-art supervised deep learning techniques. However, the annotation of organs in field images is time-consuming and prone to errors. In this paper, we propose a fully unsupervised technique for counting dense objects such as plant organs. We use a convolutional network-based unsupervised segmentation method followed by two post-hoc optimization steps. The proposed technique is shown to prov…
Northwestern Polytechnical University（西北工业大学）；The University of Adelaide（阿德莱德大学）；Alibaba DAMO Academy（阿里巴巴达摩院）；Zhejiang University（浙江大学）
Medical image benchmarks for the segmentation of organs and tumors suffer from the partially labeling issue due to its intensive cost of labor and expertise. Current mainstream approaches follow the practice of one network solving one task. With this pipeline, not only the performance is limited by the typically small dataset of a single task, but also the computation cost linearly increases with the number of tasks. To address this, we propose a Transformer based dynamic on-demand network (TransDoDNet) that learns to segment organs and tumors on multiple partially labeled datasets. Specifical…
Nuclei segmentation is a fundamental task that is critical for various computational pathology applications including nuclei morphology analysis, cell type classification, and cancer grading. Conventional vision-based methods for nuclei segmentation struggle in challenging cases and deep learning approaches have proven to be more robust and generalizable. However, CNNs require large amounts of labeled histopathology data. Moreover, conventional CNN-based approaches lack structured prediction capabilities which are required to distinguish overlapping and clumped nuclei. Here, we present an appr…
Image-Conditioned Diffusion Models for Quality Assurance of Organ-at-Risk Segmentations in Radiotherapy
UCL Hawkes Institute（UCL霍克斯研究所）；University College London（伦敦大学学院）；National Physical Laboratory（英国国家物理实验室）；University College London Hospital（伦敦大学学院医院）；National Radiotherapy Trials Quality Assurance Group（国家放射治疗试验质量保证组）；Mount Vernon Hospital（芒特弗农医院）；University of Manchester（曼彻斯特大学）
Chest X-ray (CXR) is one of the most commonly prescribed medical imaging procedures, often with over 2-10x more scans than other imaging modalities such as MRI, CT scan, and PET scans. These voluminous CXR scans place significant workloads on radiologists and medical practitioners. Organ segmentation is a crucial step to obtain effective computer-aided detection on CXR. In this work, we propose Structure Correcting Adversarial Network (SCAN) to segment lung fields and the heart in CXR images. SCAN incorporates a critic network to impose on the convolutional segmentation network the structural …
Nagoya University（名古屋大学）；Aichi Cancer Center Hospital（爱知县癌症中心医院）
Deep learning-based methods achieved impressive results for the segmentation of medical images. With the development of 3D fully convolutional networks (FCNs), it has become feasible to produce improved results for multi-organ segmentation of 3D computed tomography (CT) images. The results of multi-organ segmentation using deep learning-based methods not only depend on the choice of networks architecture, but also strongly rely on the choice of loss function. In this paper, we present a discussion on the influence of Dice-based loss functions for multi-class organ segmentation using a dataset …
Johns Hopkins University（约翰斯·霍普金斯大学）；University of Oxford（牛津大学）；The Johns Hopkins Medical Institute（约翰斯·霍普金斯医学研究所）；Google AI（谷歌AI）；ByteDance Inc.（字节跳动公司）；Facebook（脸书）；PAII Inc.（PAII公司）
Accurate multi-organ abdominal CT segmentation is essential to many clinical applications such as computer-aided intervention. As data annotation requires massive human labor from experienced radiologists, it is common that training data are partially labeled, e.g., pancreas datasets only have the pancreas labeled while leaving the rest marked as background. However, these background labels can be misleading in multi-organ segmentation since the "background" usually contains some other organs of interest. To address the background ambiguity in these partially-labeled datasets, we propose Prior…
Semantic segmentation is an import task in the medical field to identify the exact extent and orientation of significant structures like organs and pathology. Deep neural networks can perform this task well by leveraging the information from a large well-labeled data-set. This paper aims to present a method that mitigates the necessity of an extensive well-labeled data-set. This method also addresses semi-supervision by enabling segmentation based on bounding box annotations, avoiding the need for full pixel-level annotations. The network presented consists of a single U-Net based unbranched a…
Isfahan University of Technology（伊斯法罕理工大学）；University of Michigan（密歇根大学）
The need for CT scan analysis is growing for pre-diagnosis and therapy of abdominal organs. Automatic organ segmentation of abdominal CT scan can help radiologists analyze the scans faster and segment organ images with fewer errors. However, existing methods are not efficient enough to perform the segmentation process for victims of accidents and emergencies situations. In this paper we propose an efficient liver segmentation with our 3D to 2D fully connected network (3D-2D-FCN). The segmented mask is enhanced by means of conditional random field on the organ's border. Consequently, we segment…
Seoul National University（首尔国立大学）；Soongsil University（崇实大学）
Recent works in medical image segmentation have actively explored various deep learning architectures or objective functions to encode high-level features from volumetric data owing to limited image annotations. However, most existing approaches tend to ignore cross-volume global context and define context relations in the decision space. In this work, we propose a novel voxel-level Siamese representation learning method for abdominal multi-organ segmentation to improve representation space. The proposed method enforces voxel-wise feature relations in the representation space for leveraging li…
Accurate and robust segmentation of abdominal organs on CT is essential for many clinical applications such as computer-aided diagnosis and computer-aided surgery. But this task is challenging due to the weak boundaries of organs, the complexity of the background, and the variable sizes of different organs. To address these challenges, we introduce a novel framework for multi-organ segmentation by using organ-attention networks with reverse connections (OAN-RCs) which are applied to 2D views, of the 3D CT volume, and output estimates which are combined by statistical fusion exploiting structur…
ThreshGuide: Class-Aware Labeled-Guided Thresholding for Semi-Supervised 3D Abdominal Multi-Organ Segmentation
School of Intelligent Science and Technology, Hangzhou Institute for Advanced Study, University of Chinese Academy of Sciences（中国科学院大学杭州高等研究院智能科学与技术学院）
New York University（纽约大学）；New York University Abu Dhabi（纽约大学阿布扎比分校）；Winship Cancer Institute of Emory University（埃默里大学温希普癌症研究所）
CT organ segmentation on computed tomography (CT) images becomes a significant brick for modern medical image analysis, supporting clinic workflows in multiple domains. Previous segmentation methods include 2D convolution neural networks (CNN) based approaches, fed by CT image slices that lack the structural knowledge in axial view, and 3D CNN-based methods with the expensive computation cost in multi-organ segmentation applications. This paper introduces an adversarial performance validation network into a 2D-to-3D segmentation framework. The classifier and performance validator competition c…
Zero-Shot 3D Plant Organ Segmentation with SAM3 and Semantic NeRFs
Fraunhofer Institute for Integrated Circuits (IIS)（弗劳恩霍夫集成电路研究所）；Otto-Friedrich-Universität Bamberg（班贝格奥托·弗里德里希大学）；Friedrich-Alexander-Universität Erlangen-Nürnberg（埃尔朗根-纽伦堡弗里德里希-亚历山大大学）
Shortage of fully annotated datasets has been a limiting factor in developing deep learning based image segmentation algorithms and the problem becomes more pronounced in multi-organ segmentation. In this paper, we propose a unified training strategy that enables a novel multi-scale deep neural network to be trained on multiple partially labeled datasets for multi-organ segmentation. In addition, a new network architecture for multi-scale feature abstraction is proposed to integrate pyramid input and feature analysis into a U-shape pyramid structure. To bridge the semantic gap caused by direct…
