单位:[1]School of Biomedical Science and Medical Engineering, Beihang University, Beijing 10 0 083, China[2]Beijing Advanced Innovation Center for Biomedical Engineering, Beihang University, Beijing 10 0 083, China[3]Department of General Thoracic Surgery, China Japan Friendship Hospital, Beijing 10 0 029, China[4]School of Computer Science and Engineering, Beihang University, Beijing 10 0 083, China[5]Intelligent Computing and Machine Learning Lab, School of Automation Science and Electrical Engineering, Beihang University, Beijing 10 0 083, China
Automated nuclear segmentation in histopathological images is a prerequisite for a computer-aided diagnosis framework. However, it remains a challenging problem due to the nucleus occlusion or overlapping, shape variation, and image background complexity. Recently, deep learning techniques are widely used in analyzing digital histopathology. We present a computerized image-based method for automatically segmenting nuclei using an integration of a deep learning model and an improved concave point detection algorithm. A modified atrous spatial pyramid pooling U-Net (ASPPU-Net) is derived to capture multi-scale nuclei features and obtain nuclei context information without reducing the spatial resolution of feature map. A weighted binary cross entropy loss function with Dice loss function is used to better handle the data unbalance problem. An accelerated concave point detection method allows to effectively and accurately segmenting highly overlapping nuclei. Our ASPPU-Net based method was tested on four independent data cohorts and achieved the highest Dice similarity coefficient of 0.83, and pixel wise accuracy of 0.95. The experimental results suggested that the combination of ASPPU-Net model and concave point detection method was able to gain improved performance in separating both isolated and touching clustered nuclei in histopathology. (c) 2020 Elsevier B.V. All rights reserved.
基金:
National Natural Science Foundation of ChinaNational Natural Science Foundation of China (NSFC) [61876197, 61771325]; Beijing Municipal NaturalScience FoundationBeijing Natural Science Foundation [7192105]; Beijing Hospitals Authority YangFan Programme [XMLX201820]
第一作者单位:[1]School of Biomedical Science and Medical Engineering, Beihang University, Beijing 10 0 083, China[2]Beijing Advanced Innovation Center for Biomedical Engineering, Beihang University, Beijing 10 0 083, China
通讯作者:
通讯机构:[1]School of Biomedical Science and Medical Engineering, Beihang University, Beijing 10 0 083, China[2]Beijing Advanced Innovation Center for Biomedical Engineering, Beihang University, Beijing 10 0 083, China
推荐引用方式(GB/T 7714):
Wan Tao,Zhao Lei,Feng Hongxiang,et al.Robust nuclei segmentation in histopathology using ASPPU-Net and boundary refinement[J].NEUROCOMPUTING.2020,408:144-156.doi:10.1016/j.neucom.2019.08.103.
APA:
Wan, Tao,Zhao, Lei,Feng, Hongxiang,Li, Deyu,Tong, Chao&Qin, Zengchang.(2020).Robust nuclei segmentation in histopathology using ASPPU-Net and boundary refinement.NEUROCOMPUTING,408,
MLA:
Wan, Tao,et al."Robust nuclei segmentation in histopathology using ASPPU-Net and boundary refinement".NEUROCOMPUTING 408.(2020):144-156