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Author:

Xiao, Chi (Xiao, Chi.) | Chen, Xi (Chen, Xi.) | Xie, Qiwei (Xie, Qiwei.) | Li, Guoqing (Li, Guoqing.) | Xiao, Hao (Xiao, Hao.) | Song, Jingdong (Song, Jingdong.) | Han, Hua (Han, Hua.)

Indexed by:

EI Scopus SCIE PubMed

Abstract:

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. (c) 2020 Elsevier B.V. All rights reserved.

Keyword:

deep learning attention mechanism Virus identification viral morphology transmission electron microscopy

Author Community:

  • [ 1 ] [Xiao, Chi]Hainan Univ, Sch Biomed Engn, Haikou, Hainan, Peoples R China
  • [ 2 ] [Xiao, Chi]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China
  • [ 3 ] [Chen, Xi]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China
  • [ 4 ] [Xie, Qiwei]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China
  • [ 5 ] [Li, Guoqing]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China
  • [ 6 ] [Han, Hua]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China
  • [ 7 ] [Xie, Qiwei]Beijing Univ Technol, Data Min Lab, Beijing, Peoples R China
  • [ 8 ] [Xiao, Hao]Chinese Ctr Dis Control & Prevent, Natl Inst Viral Dis Control & Prevent, State Key Lab Infect Dis Prevent & Control, Beijing, Peoples R China
  • [ 9 ] [Song, Jingdong]Chinese Ctr Dis Control & Prevent, Natl Inst Viral Dis Control & Prevent, State Key Lab Infect Dis Prevent & Control, Beijing, Peoples R China
  • [ 10 ] [Xiao, Hao]Hunan Normal Univ, Synerget Innovat Ctr Quantum Effects & Applicat, Minist Educ,Coll Phys & Informat Sci, Key Lab Lowdimens Quantum Struct & Quantum Contro, Changsha, Peoples R China
  • [ 11 ] [Song, Jingdong]Collaborat Innovat Ctr Diag & Treatment Infect Di, Hangzhou, Peoples R China
  • [ 12 ] [Han, Hua]Chinese Acad Sci, Ctr Excellence Brain Sci & Intelligence Technol, Shanghai, Peoples R China
  • [ 13 ] [Han, Hua]Univ Chinese Acad Sci, Sch Future Technol, Beijing, Peoples R China

Reprint Author's Address:

  • [Han, Hua]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China;;[Song, Jingdong]Chinese Ctr Dis Control & Prevent, Natl Inst Viral Dis Control & Prevent, State Key Lab Infect Dis Prevent & Control, Beijing, Peoples R China;;[Song, Jingdong]Collaborat Innovat Ctr Diag & Treatment Infect Di, Hangzhou, Peoples R China;;[Han, Hua]Chinese Acad Sci, Ctr Excellence Brain Sci & Intelligence Technol, Shanghai, Peoples R China;;[Han, Hua]Univ Chinese Acad Sci, Sch Future Technol, Beijing, Peoples R China

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Source :

COMPUTER METHODS AND PROGRAMS IN BIOMEDICINE

ISSN: 0169-2607

Year: 2021

Volume: 198

6 . 1 0 0

JCR@2022

ESI Discipline: COMPUTER SCIENCE;

ESI HC Threshold:87

JCR Journal Grade:1

Cited Count:

WoS CC Cited Count: 2

SCOPUS Cited Count: 17

ESI Highly Cited Papers on the List: 0 Unfold All

WanFang Cited Count:

Chinese Cited Count:

30 Days PV: 1

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