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Author:

Liu, Jing (Liu, Jing.) | Hong, Bei (Hong, Bei.) | Chen, Xi (Chen, Xi.) | Xie, Qiwei (Xie, Qiwei.) (Scholars:谢启伟) | Tang, Yuanyan (Tang, Yuanyan.) | Han, Hua (Han, Hua.)

Indexed by:

EI Scopus SCIE

Abstract:

Electron microscopy has become the most important technique in the field of connectomics. Several methods have been proposed in the literature to tackle the problem of dense reconstruction. However, sparse reconstruction, which is a promising technique, has not been extensively studied. As a result, we develop an AI integrated system for sparse reconstruction that can automatically trace neurons with only the initial seeded masks. First, as an important part of the system for interlayer information estimation, convolutional LSTMs are employed to estimate the spatial contexts between adjacent sections. Then, the intra-slice information is obtained by a lightweight U-Net. Moreover, we employ a novel recursive training method that can significantly improve the performance. To reduce the tracing errors caused by misalignments in large-scale data, we integrate a shift estimation and correction module that effectively improves the traced neuron length. To the best of our knowledge, this is the first attempt to apply a recurrent neural network to the task of neuron tracing. In addition, our approach performs better than other state-of-the-art methods on two highly anisotropic datasets.

Keyword:

Deep learning Neuron tracing Convolutional LSTM Electron microscopy

Author Community:

  • [ 1 ] [Liu, Jing]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China
  • [ 2 ] [Hong, Bei]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 ] [Liu, Jing]Univ Chinese Acad Sci, Sch Future Technol, Sch Artificial Intelligence, Beijing, Peoples R China
  • [ 5 ] [Hong, Bei]Univ Chinese Acad Sci, Sch Future Technol, Sch Artificial Intelligence, Beijing, Peoples R China
  • [ 6 ] [Han, Hua]Univ Chinese Acad Sci, Sch Future Technol, Sch Artificial Intelligence, Beijing, Peoples R China
  • [ 7 ] [Xie, Qiwei]Beijing Univ Technol, Res Base Beijing Modern Mfg Dev, Beijing, Peoples R China
  • [ 8 ] [Tang, Yuanyan]Univ Macau, Dept Comp & Informat Sci, Macau, Peoples R China
  • [ 9 ] [Han, Hua]CAS Ctr Excellence Brain Sci & Intelligence Tech, Shanghai, Peoples R China

Reprint Author's Address:

  • 谢启伟

    [Xie, Qiwei]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China;;[Han, Hua]Chinese Acad Sci, Inst Automat, Natl Lab Pattern Recognit, Beijing, Peoples R China

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Source :

BIOMEDICAL SIGNAL PROCESSING AND CONTROL

ISSN: 1746-8094

Year: 2021

Volume: 69

5 . 1 0 0

JCR@2022

ESI Discipline: ENGINEERING;

ESI HC Threshold:87

JCR Journal Grade:2

Cited Count:

WoS CC Cited Count: 3

SCOPUS Cited Count: 4

ESI Highly Cited Papers on the List: 0 Unfold All

WanFang Cited Count:

Chinese Cited Count:

30 Days PV: 5

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