Knowledge Commons of Institute of Automation,CAS
Virus Identification in Electron Microscopy Images by Residual Mixed Attention Network | |
Xiao, Chi1,2; Chen, Xi2; Xie, Qiwei2,3; Li, Guoqing2; Xiao, Hao4,5; Song, Jingdong4,6; Han, Hua2,7,8 | |
发表期刊 | Computer Methods and Programs in Biomedicine |
ISSN | 0169-2607 |
2021 | |
卷号 | 198期号:198页码:105766 |
通讯作者 | Song, Jingdong(songjd@ivdc.chinacdc.cn) ; Han, Hua(hua.han@ia.ac.cn) |
摘要 | Background and Objective: Virus identification in electron microscopy (EM) images is considered as one of the front-line method in pathogen diagnosis and re-emerging infectious agents. However, the existing methods either focused on the detection of a single virus or required large amounts of manual labeling work to segment virus. In this work, we focus on the task of virus classification and propose an effective and simple method to identify different viruses. Methods: We put forward a residual mixed attention network (RMAN) for virus classification. The proposed network uses channel attention, bottom-up and top-down attention, and incorporates a residual architecture in an end-to-end training manner, which is suitable for dealing with EM virus images and reducing the burden of manual annotation. Results: We validate the proposed network through extensive experiments on a transmission electron microscopy virus image dataset. The top-1 error rate of our RMAN on 12 virus classes is 4.285%, which surpasses that of state-of-the-art networks and even human experts. In addition, the ablation study and the visualization of class activation mapping (CAM) further demonstrate the effectiveness of our method. Conclusions: The proposed automated method contributes to the development of medical virology, which provides virologists with a high-accuracy approach to recognize viruses as well as assist in the diagnosis of viruses. |
关键词 | Virus identification viral morphology transmission electron microscopy deep learning attention mechanism |
DOI | 10.1016/j.cmpb.2020.105766 |
收录类别 | SCI |
语种 | 英语 |
资助项目 | National Natural Science Foundation of China[61673381] ; National Natural Science Foundation of China[61871177] ; National Natural Science Foundation of China[31472001] ; Special Program of Beijing Municipal Science and Technology Commission[Z161100000216146] ; Scientific Research Instrument and Equipment Development Project of the CAS[YZ201671] ; Strategic Priority Research Program of the CAS[XDB02060001] ; Science Foundation for the State Key Laboratory for Infectious Disease Prevention and Control of China[2014SKLID206] ; Scientific Research Foundation of Hainan University[KYQD(ZR)20010] |
项目资助者 | National Natural Science Foundation of China ; Special Program of Beijing Municipal Science and Technology Commission ; Scientific Research Instrument and Equipment Development Project of the CAS ; Strategic Priority Research Program of the CAS ; Science Foundation for the State Key Laboratory for Infectious Disease Prevention and Control of China ; Scientific Research Foundation of Hainan University |
WOS研究方向 | Computer Science ; Engineering ; Medical Informatics |
WOS类目 | Computer Science, Interdisciplinary Applications ; Computer Science, Theory & Methods ; Engineering, Biomedical ; Medical Informatics |
WOS记录号 | WOS:000598417800009 |
出版者 | ELSEVIER IRELAND LTD |
七大方向——子方向分类 | 机器学习 |
引用统计 | |
文献类型 | 期刊论文 |
条目标识符 | http://ir.ia.ac.cn/handle/173211/40682 |
专题 | 脑图谱与类脑智能实验室_微观重建与智能分析 |
通讯作者 | Song, Jingdong; Han, Hua |
作者单位 | 1.School of Biomedical Engineering, Hainan University, Haikou, China 2.National Laboratory of Pattern Recognition, Institute of Automation, Chinese Academy of Sciences, Beijing, China 3.Data Mining Lab, Beijing University of Technology, Beijing, China 4.State Key Laboratory of Infectious Disease Prevention and Control, National Institute for Viral Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China 5.College of Physics and Information Science, Key Laboratory of Low-dimensional Quantum Structures, And Quantum Control of the Ministry of Education, Synergetic Innovation Center for Quantum Effects and Applications, Hunan Normal University, Changsha, China 6.Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China 7.Chinese Academy of Sciences Center for Excellence in Brain Science and Intelligence Technology, Shanghai, China 8.School of Future Technology, University of Chinese Academy of Sciences, Beijing, China |
第一作者单位 | 模式识别国家重点实验室 |
通讯作者单位 | 模式识别国家重点实验室 |
推荐引用方式 GB/T 7714 | Xiao, Chi,Chen, Xi,Xie, Qiwei,et al. Virus Identification in Electron Microscopy Images by Residual Mixed Attention Network[J]. Computer Methods and Programs in Biomedicine,2021,198(198):105766. |
APA | Xiao, Chi.,Chen, Xi.,Xie, Qiwei.,Li, Guoqing.,Xiao, Hao.,...&Han, Hua.(2021).Virus Identification in Electron Microscopy Images by Residual Mixed Attention Network.Computer Methods and Programs in Biomedicine,198(198),105766. |
MLA | Xiao, Chi,et al."Virus Identification in Electron Microscopy Images by Residual Mixed Attention Network".Computer Methods and Programs in Biomedicine 198.198(2021):105766. |
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