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Design and Implementation for Massively Parallel Automated Localization of Neurons for Brain Circuits

  • Dan ZouEmail author
  • Hong Ye
  • Min Zhu
  • Xiaoqian Zhu
  • Liangyuan Zhou
  • Fei Xia
  • Lina Lu
Conference paper
Part of the Advances in Intelligent Systems and Computing book series (AISC, volume 553)

Abstract

Automatic localization of neurons is the foundation of tracing and reconstructing the neuronal connections from the brain image stacks. With rapid development of fluorescence labeling and imaging at submicron resolution, a huge amount of data were generated, making it challenging to efficiently locate neurons from massive multidimensional images. In this manuscript, we present the implementation of an efficient parallel neuronal localization algorithm that is based on NeuroGPS. We split the image stack with a space overlapping scheme to eliminate the communication overhead among computing nodes. On this basis, we develop a hybrid parallel automated neuronal localization algorithm. We evaluate this implementation on the TianHe-2 supercomputer. The preliminary results on a terabyte-sized image stack indicate that it is capable of handle large data sets and obtains good scalability and computing performance.

Keywords

Brain imaging Neuronal localization Parallel algorithm 

Notes

Acknowledgements

This research is partially supported by the Chinese 973 Program (2015CB755604) and the National Natural Science Foundation of China (61502516, 61572515). We greatly thank Hang Zhou for his constructive comments and useful discussions on details of NeuroGPS.

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Copyright information

© Springer Nature Singapore Pte Ltd. 2017

Authors and Affiliations

  • Dan Zou
    • 1
    Email author
  • Hong Ye
    • 2
  • Min Zhu
    • 1
  • Xiaoqian Zhu
    • 1
  • Liangyuan Zhou
    • 1
  • Fei Xia
    • 3
  • Lina Lu
    • 4
  1. 1.Academy of Ocean Science and EngineeringNational University of Defense TechnologyChangshaChina
  2. 2.Network CenterBeijing Technology and Business UniversityBeijingChina
  3. 3.Electronic Engineering CollegeNaval University of EngineeringWuhanChina
  4. 4.College of Mechatronic Engineering and AutomationNational University of Defense TechnologyChangshaChina

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