Automatic segmentation of organs-at-risk (OAR) in computed tomography (CT) is an essential part of planning effective treatment strategies to combat lung and esophageal cancer. Accurate segmentation of organs surrounding tumours helps account for the variation in position and morphology inherent across patients, thereby facilitating adaptive and computer-assisted radiotherapy. Although manual delineation of OARs is still highly prevalent, it is prone to errors due to complex variations in the shape and position of organs across patients, and low soft tissue contrast between neighbouring organs in CT images. Recently, deep convolutional neural networks (CNNs) have gained tremendous traction and achieved state-of-the-art results in medical image segmentation. In this paper, we propose a deep learning framework to segment OARs in thoracic CT images, specifically for the: heart, esophagus, trachea and aorta. Our approach employs dilated convolutions and aggregated residual connections in the bottleneck of a U-Net styled network, which incorporates global context and dense information. Our method achieved an overall Dice score of 91.57% on 20 unseen test samples from the ISBI 2019 SegTHOR challenge.
PAII Inc.（PAII公司）；The First Affiliated Hospital Zhejiang University（浙江大学附属第一医院）；Johns Hopkins University（约翰斯·霍普金斯大学）；Ping An Insurance Company of China（中国平安保险（集团）股份有限公司）；Zhejiang Provincial People’s Hospital（浙江省人民医院）
Lymph node station (LNS) delineation from computed tomography (CT) scans is an indispensable step in radiation oncology workflow. High inter-user variabilities across oncologists and prohibitive laboring costs motivated the automated approach. Previous works exploit anatomical priors to infer LNS based on predefined ad-hoc margins. However, without voxel-level supervision, the performance is severely limited. LNS is highly context-dependent - LNS boundaries are constrained by anatomical organs - we formulate it as a deep spatial and contextual parsing problem via encoded anatomical organs. Thi…
Bangladesh University of Engineering and Technology（孟加拉国工程技术大学）；Georgia Institute of Technology（佐治亚理工学院）
Thoracic disease detection from chest radiographs using deep learning methods has been an active area of research in the last decade. Most previous methods attempt to focus on the diseased organs of the image by identifying spatial regions responsible for significant contributions to the model's prediction. In contrast, expert radiologists first locate the prominent anatomical structures before determining if those regions are anomalous. Therefore, integrating anatomical knowledge within deep learning models could bring substantial improvement in automatic disease classification. Motivated by …
Memorial Sloan-Kettering Cancer Center（纪念斯隆-凯特琳癌症中心）
We implemented and evaluated a multiple resolution residual network (MRRN) for multiple normal organs-at-risk (OAR) segmentation from computed tomography (CT) images for thoracic radiotherapy treatment (RT) planning. Our approach simultaneously combines feature streams computed at multiple image resolutions and feature levels through residual connections. The feature streams at each level are updated as the images are passed through various feature levels. We trained our approach using 206 thoracic CT scans of lung cancer patients with 35 scans held out for validation to segment the left and r…
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…
Zhejiang University（浙江大学）；University of Notre Dame（圣母大学）；Gachon University（嘉泉大学）；Shanghai University（上海大学）
Computer-aided medical image segmentation has been applied widely in diagnosis and treatment to obtain clinically useful information of shapes and volumes of target organs and tissues. In the past several years, convolutional neural network (CNN) based methods (e.g., U-Net) have dominated this area, but still suffered from inadequate long-range information capturing. Hence, recent work presented computer vision Transformer variants for medical image segmentation tasks and obtained promising performances. Such Transformers model long-range dependency by computing pair-wise patch relations. Howe…
Image Sciences Institute（影像科学研究所）；University Medical Center Utrecht（乌得勒支大学医学中心）
Morphological analysis and identification of pathologies in the aorta are important for cardiovascular diagnosis and risk assessment in patients. Manual annotation is time-consuming and cumbersome in CT scans acquired without contrast enhancement and with low radiation dose. Hence, we propose an automatic method to segment the ascending aorta, the aortic arch and the thoracic descending aorta in low-dose chest CT without contrast enhancement. Segmentation was performed using a dilated convolutional neural network (CNN), with a receptive field of 131X131 voxels, that classified voxels in axial,…
University of New South Wales（新南威尔士大学）；Prince of Wales Hospital（威尔士亲王医院）
Computer aided diagnostics often requires analysis of a region of interest (ROI) within a radiology scan, and the ROI may be an organ or a suborgan. Although deep learning algorithms have the ability to outperform other methods, they rely on the availability of a large amount of annotated data. Motivated by the need to address this limitation, an approach to localisation and detection of multiple organs based on supervised and semi-supervised learning is presented here. It draws upon previous work by the authors on localising the thoracic and lumbar spine region in CT images. The method genera…
Deepwise AI Lab（深度AI实验室）；Nanjing University of Science and Technology（南京理工大学）；Xinhua College of Sun Yat-sen University（中山大学新华学院）；Zhejiang University（浙江大学）；Zhejiang Sci-Tech University（浙江理工大学）；Shaanxi Normal University（陕西师范大学）；University Of Electronic Science And Technology Of China（电子科技大学）；Jiangsu University（江苏大学）
The detection of thoracic abnormalities challenge is organized by the Deepwise AI Lab. The challenge is divided into two rounds. In this paper, we present the results of 6 teams which reach the second round. The challenge adopts the ChestX-Det10 dateset proposed by the Deepwise AI Lab. ChestX-Det10 is the first chest X-Ray dataset with instance-level annotations, including 10 categories of disease/abnormality of 3,543 images. The annotations are located at https://github.com/Deepwise-AILab/ChestX-Det10-Dataset. In the challenge, we randomly split all data into 3001 images for training and 542 …
Florida International University（佛罗里达国际大学）；Technical University of Munich（慕尼黑工业大学）；Stanford University（斯坦福大学）
Chest X-ray radiography is one of the earliest medical imaging technologies and remains one of the most widely-used for diagnosis, screening, and treatment follow up of diseases related to lungs and heart. The literature in this field of research reports many interesting studies dealing with the challenging tasks of bone suppression and organ segmentation but performed separately, limiting any learning that comes with the consolidation of parameters that could optimize both processes. This study, and for the first time, introduces a multitask deep learning model that generates simultaneously t…
Memorial Sloan Kettering Cancer Center（纪念斯隆凯特琳癌症中心）
Image-guided adaptive lung radiotherapy requires accurate tumor and organs segmentation from during treatment cone-beam CT (CBCT) images. Thoracic CBCTs are hard to segment because of low soft-tissue contrast, imaging artifacts, respiratory motion, and large treatment induced intra-thoracic anatomic changes. Hence, we developed a novel Patient-specific Anatomic Context and Shape prior or PACS-aware 3D recurrent registration-segmentation network for longitudinal thoracic CBCT segmentation. Segmentation and registration networks were concurrently trained in an end-to-end framework and implemente…
ARTORG Center for Biomedical Engineering Research, University of Bern（伯尔尼大学ARTORG生物医学工程研究中心）；Department of Emergency Medicine, Bern University Hospital “Inselspital”（伯尔尼大学医院“Inselspital”急诊医学系）；University Clinic for Pneumonology, Bern University Hospital “Inselspital”（伯尔尼大学医院“Inselspital”肺科大学诊所）；Department of Diagnostic, Interventional and Pediatric Radiology, Bern University Hospital “Inselspital”（伯尔尼大学医院“Inselspital”诊断、介入和儿科放射学系）；Bern University Hospital “Inselspital”（伯尔尼大学医院“Inselspital”）；University of Bern（伯尔尼大学）
Early and accurate diagnosis of interstitial lung diseases (ILDs) is crucial for making treatment decisions, but can be challenging even for experienced radiologists. The diagnostic procedure is based on the detection and recognition of the different ILD pathologies in thoracic CT scans, yet their manifestation often appears similar. In this study, we propose the use of a deep purely convolutional neural network for the semantic segmentation of ILD patterns, as the basic component of a computer aided diagnosis (CAD) system for ILDs. The proposed CNN, which consists of convolutional layers with…
Emory University（埃默里大学）；Winship Cancer Institute（温希普癌症研究所）
This paper presents a review of deep learning (DL) in multi-organ segmentation. We summarized the latest DL-based methods for medical image segmentation and applications. These methods were classified into six categories according to their network design. For each category, we listed the surveyed works, highlighted important contributions and identified specific challenges. Following the detailed review of each category, we briefly discussed its achievements, shortcomings and future potentials. We provided a comprehensive comparison among DL-based methods for thoracic and head & neck multiorga…
Computer Aided Medical Procedures, Technische Universität München（慕尼黑工业大学计算机辅助医疗程序）；Canon Medical Research Europe ltd.（佳能医疗研究欧洲有限公司）；Computer Aided Medical Procedures, Johns Hopkins University, Baltimore, USA（约翰斯·霍普金斯大学计算机辅助医疗程序）
Deep learning organ segmentation approaches require large amounts of annotated training data, which is limited in supply due to reasons of confidentiality and the time required for expert manual annotation. Therefore, being able to train models incrementally without having access to previously used data is desirable. A common form of sequential training is fine tuning (FT). In this setting, a model learns a new task effectively, but loses performance on previously learned tasks. The Learning without Forgetting (LwF) approach addresses this issue via replaying its own prediction for past tasks …
Human body is a complex dynamic system composed of various sub-dynamic parts. Especially, thoracic and abdominal organs have complex internal shape variations with different frequencies by various reasons such as respiration with fast motion and peristalsis with slower motion. CT protocols for abdominal lesions are multi-phase scans for various tumor detection to use different vascular contrast, however, they are not aligned well enough to visually check the same area. In this paper, we propose a time-efficient and accurate deformable registration algorithm for multi-phase CT scans considering…
Under-display camera (UDC) is a novel technology that can make digital imaging experience in handheld devices seamless by providing large screen-to-body ratio. UDC images are severely degraded owing to their positioning under a display screen. This work addresses the restoration of images degraded as a result of UDC imaging. Two different networks are proposed for the restoration of images taken with two types of UDC technologies. The first method uses a pyramidal dilated convolution within a wavelet decomposed convolutional neural network for pentile-organic LED (P-OLED) based display system.…
National Library of Medicine, National Institutes of Health（美国国立卫生研究院国家医学图书馆）
Chest X-ray (CXR) is a widely performed radiology examination that helps to detect abnormalities in the tissues and organs in the thoracic cavity. Detecting pulmonary abnormalities like COVID-19 may become difficult due to that they are obscured by the presence of bony structures like the ribs and the clavicles, thereby resulting in screening/diagnostic misinterpretations. Automated bone suppression methods would help suppress these bony structures and increase soft tissue visibility. In this study, we propose to build an ensemble of convolutional neural network models to suppress bones in fro…
Shanghai AI Lab（上海人工智能实验室）；Shenzhen Yino Intelligence Techonology Co., Ltd.（深圳一诺智能科技有限公司）；Shenying Medical Technology (Shenzhen) Co., Ltd.（深盈医疗科技（深圳）有限公司）；School of Biomedical Engineering, Shanghai Jiao Tong University（上海交通大学生物医学工程学院）；Institute of Medical Robotics, Shanghai Jiao Tong University（上海交通大学医疗机器人研究所）；Shenzhen Key Lab of Computer Vision and Pattern Recognition, SIAT-SenseTime Joint Lab, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences（中国科学院深圳先进技术研究院深圳计算机视觉与模式识别重点实验室、SIAT-商汤联合实验室）；Paul C. Lauterbur Research Center for Biomedical Imaging, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences（中国科学院深圳先进技术研究院保罗·C·劳特伯生物医学成像研究中心）；Peng Cheng Laboratory（鹏城实验室）；Pazhou Lab（琶洲实验室）；Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences（中国科学院深圳先进技术研究院）；SIAT-SenseTime Joint Lab（SIAT-商汤联合实验室）；Shenzhen Key Lab of Computer Vision and Pattern Recognition（深圳计算机视觉与模式识别重点实验室）
Radiation therapy (RT) is widely employed in the clinic for the treatment of head and neck (HaN) cancers. An essential step of RT planning is the accurate segmentation of various organs-at-risks (OARs) in HaN CT images. Nevertheless, segmenting OARs manually is time-consuming, tedious, and error-prone considering that typical HaN CT images contain tens to hundreds of slices. Automated segmentation algorithms are urgently required. Recently, convolutional neural networks (CNNs) have been extensively investigated on this task. Particularly, 3D CNNs are frequently adopted to process 3D HaN CT ima…
Deformable Image Registration (DIR) of MR and CT images is one of the most challenging registration task, due to the inherent structural differences of the modalities and the missing dense ground truth. Recently cycle Generative Adversarial Networks (cycle-GANs) have been used to learn the intensity relationship between these 2 modalities for unpaired brain data. Yet its usefulness for DIR was not assessed. In this study we evaluate the DIR performance for thoracic and abdominal organs after synthesis by cycle-GAN. We show that geometric changes, which differentiate the two populations (e.g. i…
Fully convolutional neural networks have made promising progress in joint liver and liver tumor segmentation. Instead of following the debates over 2D versus 3D networks (for example, pursuing the balance between large-scale 2D pretraining and 3D context), in this paper, we novelly identify the wide variation in the ratio between intra- and inter-slice resolutions as a crucial obstacle to the performance. To tackle the mismatch between the intra- and inter-slice information, we propose a slice-aware 2.5D network that emphasizes extracting discriminative features utilizing not only in-plane sem…
Imperial College London（伦敦帝国理工学院）；The Chinese University of Hong Kong（香港中文大学）
Multi-modal learning is typically performed with network architectures containing modality-specific layers and shared layers, utilizing co-registered images of different modalities. We propose a novel learning scheme for unpaired cross-modality image segmentation, with a highly compact architecture achieving superior segmentation accuracy. In our method, we heavily reuse network parameters, by sharing all convolutional kernels across CT and MRI, and only employ modality-specific internal normalization layers which compute respective statistics. To effectively train such a highly compact model,…
TotalRegistrator: Towards a Lightweight Foundation Model for CT Image Registration
Department of Imaging, Radboudumc, Nijmegen, the Netherlands（影像部，Radboudumc，尼姆egen，荷兰）；Institute for Medical Informatics, University of Lübeck, Lübeck, Germany（医学信息研究所，吕贝克大学，吕贝克，德国）；Department of Nuclear Medicine, Hospital 108, Hanoi, Vietnam（核医学部，108医院，河内，越南）；Department of Diagnostic Imaging and Interventional Radiology, Thai Nguyen National Hospital, Thai Nguyen, Vietnam（诊断影像和介入放射科，Thai Nguyen国家医院，Thai Nguyen，越南）；Interventional Radiology Center, Tam Anh Hospital, Hanoi, Vietnam（介入放射科中心，Tam Anh医院，河内，越南）；FET, Vietnam National University, University of Engineering and Technology, Hanoi, Vietnam（FET，越南国家大学，工程与技术大学，河内，越南）
Skolkovo Institute of Science and Technology（斯科尔科沃科学技术学院）；FSBI National Medical Research Radiological Center of the Ministry of Health of the Russian Federation（俄罗斯联邦卫生部国家医学研究放射中心）
Segmentation of certain hollow organs, such as the bladder, is especially hard to automate due to their complex geometry, vague intensity gradients in the soft tissues, and a tedious manual process of the data annotation routine. Yet, accurate localization of the walls and the cancer regions in the radiologic images of such organs is an essential step in oncology. To address this issue, we propose a new class of hollow kernels that learn to 'mimic' the contours of the segmented organ, effectively replicating its shape and structural complexity. We train a series of the U-Net-like neural networ…
University of Dundee（邓迪大学）；Technical University of Munich（慕尼黑工业大学）；Shenzhen Institute of Artificial Intelligence and Robotics for Society（深圳人工智能与机器人研究院）；Southern University of Science and Technology（南方科技大学）
Analysis and modeling of the ventricles and myocardium are important in the diagnostic and treatment of heart diseases. Manual delineation of those tissues in cardiac MR (CMR) scans is laborious and time-consuming. The ambiguity of the boundaries makes the segmentation task rather challenging. Furthermore, the annotations on some modalities such as Late Gadolinium Enhancement (LGE) MRI, are often not available. We propose an end-to-end segmentation framework based on convolutional neural network (CNN) and adversarial learning. A dilated residual U-shape network is used as a segmentor to genera…
HBFormer: A Hybrid-Bridge Transformer for Microtumor and Miniature Organ Segmentation
Shenzhen Institutes of Advanced Technology, Chinese Academy of Sciences（深圳先进技术研究所，中国科学院）；Guangdong University of Technology（广东技术大学）；University of Macau（澳门大学）；Huizhou University（惠州大学）
Quality assurance of organs-at-risk delineation in radiotherapy
School of Electronics and Communication Engineering, Sun Yat-sen University（中山大学电子与通信工程学院）；National Cancer Center/National Clinical Research Center for Cancer/Cancer Hospital & Shenzhen Hospital, Chinese Academy of Medical Sciences and Peking Union Medical College（中国医学科学院北京协和医学院国家癌症中心/国家癌症临床研究中心/肿瘤医院深圳医院）；Faculty of Health Sciences, University of Macau（澳门大学健康科学学院）；Department of Radiation Oncology, Mayo Clinic Arizona（梅奥诊所亚利桑那分院放射肿瘤科）
University of Oxford（牛津大学）；Universiti Malaysia Perlis（马来西亚玻璃市大学）；Churchill Hospital（丘吉尔医院）
The human lung is a complex respiratory organ, consisting of five distinct anatomic compartments called lobes. Accurate and automatic segmentation of these pulmonary lobes from computed tomography (CT) images is of clinical importance for lung disease assessment and treatment planning. However, this task is challenging due to ambiguous lobar boundaries, anatomical variations and pathological deformations. In this paper, we propose a high-resolution and efficient 3D fully convolutional network to automatically segment the lobes. We refer to the network as Pulmonary Lobe Segmentation Network (PL…
