Dataset Information

Two-stage hybrid network for segmentation of COVID-19 pneumonia lesions in CT images: a multicenter study.

ABSTRACT: COVID-19 has been spreading continuously since its outbreak, and the detection of its manifestations in the lung via chest computed tomography (CT) imaging is essential to investigate the diagnosis and prognosis of COVID-19 as an indispensable step. Automatic and accurate segmentation of infected lesions is highly required for fast and accurate diagnosis and further assessment of COVID-19 pneumonia. However, the two-dimensional methods generally neglect the intraslice context, while the three-dimensional methods usually have high GPU memory consumption and calculation cost. To address these limitations, we propose a two-stage hybrid UNet to automatically segment infected regions, which is evaluated on the multicenter data obtained from seven hospitals. Moreover, we train a 3D-ResNet for COVID-19 pneumonia screening. In segmentation tasks, the Dice coefficient reaches 97.23% for lung segmentation and 84.58% for lesion segmentation. In classification tasks, our model can identify COVID-19 pneumonia with an area under the receiver-operating characteristic curve value of 0.92, an accuracy of 92.44%, a sensitivity of 93.94%, and a specificity of 92.45%. In comparison with other state-of-the-art methods, the proposed approach could be implemented as an efficient assisting tool for radiologists in COVID-19 diagnosis from CT images.

SUBMITTER: Shang Y

PROVIDER: S-EPMC9294771 | biostudies-literature | 2022 Sep

REPOSITORIES: biostudies-literature

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Two-stage hybrid network for segmentation of COVID-19 pneumonia lesions in CT images: a multicenter study.

Shang Yaxin Y Wei Zechen Z Hui Hui H Li Xiaohu X Li Liang L Yu Yongqiang Y Lu Ligong L Li Li L Li Hongjun H Yang Qi Q Wang Meiyun M Zhan Meixiao M Wang Wei W Zhang Guanghao G Wu Xiangjun X Wang Li L Liu Jie J Tian Jie J Zha Yunfei Y

Medical & biological engineering & computing 20220719 9

COVID-19 has been spreading continuously since its outbreak, and the detection of its manifestations in the lung via chest computed tomography (CT) imaging is essential to investigate the diagnosis and prognosis of COVID-19 as an indispensable step. Automatic and accurate segmentation of infected lesions is highly required for fast and accurate diagnosis and further assessment of COVID-19 pneumonia. However, the two-dimensional methods generally neglect the intraslice context, while the three-di ...[more]

PMID: 35856130

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Project description:BackgroundThe coronavirus disease 2019 (COVID-19) spreads rapidly across the globe, seriously threatening the health of people all over the world. To reduce the diagnostic pressure of front-line doctors, an accurate and automatic lesion segmentation method is highly desirable in clinic practice.PurposeMany proposed two-dimensional (2D) methods for sliced-based lesion segmentation cannot take full advantage of spatial information in the three-dimensional (3D) volume data, resulting in limited segmentation performance. Three-dimensional methods can utilize the spatial information but suffer from long training time and slow convergence speed. To solve these problems, we propose an end-to-end hybrid-feature cross fusion network (HFCF-Net) to fuse the 2D and 3D features at three scales for the accurate segmentation of COVID-19 lesions.MethodsThe proposed HFCF-Net incorporates 2D and 3D subnets to extract features within and between slices effectively. Then the cross fusion module is designed to bridge 2D and 3D decoders at the same scale to fuse both types of features. The module consists of three cross fusion blocks, each of which contains a prior fusion path and a context fusion path to jointly learn better lesion representations. The former aims to explicitly provide the 3D subnet with lesion-related prior knowledge, and the latter utilizes the 3D context information as the attention guidance of the 2D subnet, which promotes the precise segmentation of the lesion regions. Furthermore, we explore an imbalance-robust adaptive learning loss function that includes image-level loss and pixel-level loss to tackle the problems caused by the apparent imbalance between the proportions of the lesion and non-lesion voxels, providing a learning strategy to dynamically adjust the learning focus between 2D and 3D branches during the training process for effective supervision.ResultExtensive experiments conducted on a publicly available dataset demonstrate that the proposed segmentation network significantly outperforms some state-of-the-art methods for the COVID-19 lesion segmentation, yielding a Dice similarity coefficient of 74.85%. The visual comparison of segmentation performance also proves the superiority of the proposed network in segmenting different-sized lesions.ConclusionsIn this paper, we propose a novel HFCF-Net for rapid and accurate COVID-19 lesion segmentation from chest computed tomography volume data. It innovatively fuses hybrid features in a cross manner for lesion segmentation, aiming to utilize the advantages of 2D and 3D subnets to complement each other for enhancing the segmentation performance. Benefitting from the cross fusion mechanism, the proposed HFCF-Net can segment the lesions more accurately with the knowledge acquired from both subnets.

Project description:The recent global outbreak and spread of coronavirus disease (COVID-19) makes it an imperative to develop accurate and efficient diagnostic tools for the disease as medical resources are getting increasingly constrained. Artificial intelligence (AI)-aided tools have exhibited desirable potential; for example, chest computed tomography (CT) has been demonstrated to play a major role in the diagnosis and evaluation of COVID-19. However, developing a CT-based AI diagnostic system for the disease detection has faced considerable challenges, which is mainly due to the lack of adequate manually-delineated samples for training, as well as the requirement of sufficient sensitivity to subtle lesions in the early infection stages. In this study, we developed a dual-branch combination network (DCN) for COVID-19 diagnosis that can simultaneously achieve individual-level classification and lesion segmentation. To focus the classification branch more intensively on the lesion areas, a novel lesion attention module was developed to integrate the intermediate segmentation results. Furthermore, to manage the potential influence of different imaging parameters from individual facilities, a slice probability mapping method was proposed to learn the transformation from slice-level to individual-level classification. We conducted experiments on a large dataset of 1202 subjects from ten institutes in China. The results demonstrated that 1) the proposed DCN attained a classification accuracy of 96.74% on the internal dataset and 92.87% on the external validation dataset, thereby outperforming other models; 2) DCN obtained comparable performance with fewer samples and exhibited higher sensitivity, especially in subtle lesion detection; and 3) DCN provided good interpretability on the loci of infection compared to other deep models due to its classification guided by high-level semantic information. An online CT-based diagnostic platform for COVID-19 derived from our proposed framework is now available.

Project description:BackgroundPneumoconiosis has a significant impact on the quality of patient survival. This study aims to evaluate the performance and application value of improved Unet network technology in the recognition and segmentation of lesion areas of lung CT images in patients with pneumoconiosis.MethodsA total of 1212 lung CT images of patients with pneumoconiosis were retrospectively included. The improved Unet network was used to identify and segment the CT image regions of the patients' lungs, and the image data of the granular regions of the lungs were processed by the watershed and region growing algorithms. After random sorting, 848 data were selected into the training set and 364 data into the validation set. The experimental dataset underwent data augmentation and were used for model training and validation to evaluate segmentation performance. The segmentation results were compared with FCN-8s, Unet network (Base), Unet (Squeeze-and-Excitation, SE + Rectified Linear Unit, ReLU), and Unet + + networks.ResultsIn the segmentation of lung CT granular region with the improved Unet network, the four evaluation indexes of Dice similarity coefficient, positive prediction value (PPV), sensitivity coefficient (SC) and mean intersection over union (MIoU) reached 0.848, 0.884, 0.895 and 0.885, respectively, increasing by 7.6%, 13.3%, 3.9% and 6.4%, respectively, compared with those of Unet network (Base), and increasing by 187.5%, 249.4%, 131.9% and 51.0%, respectively, compared with those of FCN-8s, and increasing by 14.0%, 31.2%, 4.7% and 9.7%, respectively, compared with those of Unet network (SE + ReLU), while the segmentation performance was also not inferior to that of the Unet + + network.ConclusionsThe improved Unet network proposed shows good performance in the recognition and segmentation of abnormal regions in lung CT images in patients with pneumoconiosis, showing potential application value for assisting clinical decision-making.

Dataset Information

Two-stage hybrid network for segmentation of COVID-19 pneumonia lesions in CT images: a multicenter study.

Publications

Two-stage hybrid network for segmentation of COVID-19 pneumonia lesions in CT images: a multicenter study.

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