Memory and time efficient 3D neuron morphology tracing in large-scale images

Heng Wang; Donghao Zhang; Yang Song; Siqi Liu; Rong Gao; Hanchuan Peng; Weidong Cai

doi:10.1109/DICTA.2018.8615765

Memory and time efficient 3D neuron morphology tracing in large-scale images

Heng Wang, Donghao Zhang, Yang Song, Siqi Liu, Rong Gao, Hanchuan Peng, Weidong Cai

Research output: Chapter in Book/Report/Conference proceeding › Conference Paper › Research › peer-review

7 Citations (Scopus)

Abstract

3D reconstruction of neuronal morphology is crucial to solving neuron-related problems in neuroscience as it is a key technique for investigating the connectivity and functionality of the neuron system. Many methods have been proposed to improve the accuracy of digital neuron reconstruction. However, the large amount of computer memory and computation time they require to process the large-scale images have posed a new challenge for us. To solve this problem, we introduce a novel Memory (and Time) Efficient Image Tracing (MEIT) framework. Evaluated on the Gold dataset, our proposed method achieves better or competitive performance compared to state-of-the-art neuron tracing methods in most cases while requiring less memory and time.

Original language	English
Title of host publication	Proceedings of 2018 International Conference on Digital Image Computing
Subtitle of host publication	Techniques and Applications, DICTA 2018
Editors	Ashfaqur Rahman, Manzur Murshed, Md Asikuzzaman, Manoranjan Paul
Place of Publication	USA
Publisher	IEEE, Institute of Electrical and Electronics Engineers
Pages	39-46
Number of pages	8
Edition	1st
ISBN (Electronic)	9781538666029
DOIs	https://doi.org/10.1109/DICTA.2018.8615765
Publication status	Published - 2018
Externally published	Yes
Event	Digital Image Computing Techniques and Applications 2018 - Canberra, Australia Duration: 10 Dec 2018 → 13 Dec 2018 Conference number: 20th https://dicta2018.org/ https://ieeexplore.ieee.org/xpl/conhome/8615628/proceeding (Proceedings)

Conference

Conference	Digital Image Computing Techniques and Applications 2018
Abbreviated title	DICTA 2018
Country/Territory	Australia
City	Canberra
Period	10/12/18 → 13/12/18
Internet address	https://dicta2018.org/ https://ieeexplore.ieee.org/xpl/conhome/8615628/proceeding (Proceedings)

Keywords

neuron morphology
neuron tracing

Access to Document

10.1109/DICTA.2018.8615765

Cite this

Wang, H., Zhang, D., Song, Y., Liu, S., Gao, R., Peng, H., & Cai, W. (2018). Memory and time efficient 3D neuron morphology tracing in large-scale images. In A. Rahman, M. Murshed, M. Asikuzzaman, & M. Paul (Eds.), Proceedings of 2018 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2018 (1st ed., pp. 39-46). IEEE, Institute of Electrical and Electronics Engineers. https://doi.org/10.1109/DICTA.2018.8615765

Wang, Heng ; Zhang, Donghao ; Song, Yang et al. / Memory and time efficient 3D neuron morphology tracing in large-scale images. Proceedings of 2018 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2018. editor / Ashfaqur Rahman ; Manzur Murshed ; Md Asikuzzaman ; Manoranjan Paul. 1st. ed. USA : IEEE, Institute of Electrical and Electronics Engineers, 2018. pp. 39-46

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title = "Memory and time efficient 3D neuron morphology tracing in large-scale images",

abstract = "3D reconstruction of neuronal morphology is crucial to solving neuron-related problems in neuroscience as it is a key technique for investigating the connectivity and functionality of the neuron system. Many methods have been proposed to improve the accuracy of digital neuron reconstruction. However, the large amount of computer memory and computation time they require to process the large-scale images have posed a new challenge for us. To solve this problem, we introduce a novel Memory (and Time) Efficient Image Tracing (MEIT) framework. Evaluated on the Gold dataset, our proposed method achieves better or competitive performance compared to state-of-the-art neuron tracing methods in most cases while requiring less memory and time.",

keywords = "neuron morphology, neuron tracing",

author = "Heng Wang and Donghao Zhang and Yang Song and Siqi Liu and Rong Gao and Hanchuan Peng and Weidong Cai",

note = "Publisher Copyright: {\textcopyright} 2018 IEEE.; Digital Image Computing Techniques and Applications 2018, DICTA 2018 ; Conference date: 10-12-2018 Through 13-12-2018",

year = "2018",

doi = "10.1109/DICTA.2018.8615765",

language = "English",

pages = "39--46",

editor = "Ashfaqur Rahman and Manzur Murshed and Md Asikuzzaman and Manoranjan Paul",

booktitle = "Proceedings of 2018 International Conference on Digital Image Computing",

publisher = "IEEE, Institute of Electrical and Electronics Engineers",

address = "United States of America",

edition = "1st",

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Wang, H, Zhang, D, Song, Y, Liu, S, Gao, R, Peng, H & Cai, W 2018, Memory and time efficient 3D neuron morphology tracing in large-scale images. in A Rahman, M Murshed, M Asikuzzaman & M Paul (eds), Proceedings of 2018 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2018. 1st edn, IEEE, Institute of Electrical and Electronics Engineers, USA, pp. 39-46, Digital Image Computing Techniques and Applications 2018, Canberra, Australian Capital Territory, Australia, 10/12/18. https://doi.org/10.1109/DICTA.2018.8615765

Memory and time efficient 3D neuron morphology tracing in large-scale images. / Wang, Heng; Zhang, Donghao; Song, Yang et al.
Proceedings of 2018 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2018. ed. / Ashfaqur Rahman; Manzur Murshed; Md Asikuzzaman; Manoranjan Paul. 1st. ed. USA: IEEE, Institute of Electrical and Electronics Engineers, 2018. p. 39-46.

Research output: Chapter in Book/Report/Conference proceeding › Conference Paper › Research › peer-review

TY - GEN

T1 - Memory and time efficient 3D neuron morphology tracing in large-scale images

AU - Wang, Heng

AU - Zhang, Donghao

AU - Song, Yang

AU - Liu, Siqi

AU - Gao, Rong

AU - Peng, Hanchuan

AU - Cai, Weidong

N1 - Conference code: 20th

PY - 2018

Y1 - 2018

N2 - 3D reconstruction of neuronal morphology is crucial to solving neuron-related problems in neuroscience as it is a key technique for investigating the connectivity and functionality of the neuron system. Many methods have been proposed to improve the accuracy of digital neuron reconstruction. However, the large amount of computer memory and computation time they require to process the large-scale images have posed a new challenge for us. To solve this problem, we introduce a novel Memory (and Time) Efficient Image Tracing (MEIT) framework. Evaluated on the Gold dataset, our proposed method achieves better or competitive performance compared to state-of-the-art neuron tracing methods in most cases while requiring less memory and time.

AB - 3D reconstruction of neuronal morphology is crucial to solving neuron-related problems in neuroscience as it is a key technique for investigating the connectivity and functionality of the neuron system. Many methods have been proposed to improve the accuracy of digital neuron reconstruction. However, the large amount of computer memory and computation time they require to process the large-scale images have posed a new challenge for us. To solve this problem, we introduce a novel Memory (and Time) Efficient Image Tracing (MEIT) framework. Evaluated on the Gold dataset, our proposed method achieves better or competitive performance compared to state-of-the-art neuron tracing methods in most cases while requiring less memory and time.

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KW - neuron tracing

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M3 - Conference Paper

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BT - Proceedings of 2018 International Conference on Digital Image Computing

A2 - Rahman, Ashfaqur

A2 - Murshed, Manzur

A2 - Asikuzzaman, Md

A2 - Paul, Manoranjan

PB - IEEE, Institute of Electrical and Electronics Engineers

CY - USA

T2 - Digital Image Computing Techniques and Applications 2018

Y2 - 10 December 2018 through 13 December 2018

ER -

Wang H, Zhang D, Song Y, Liu S, Gao R, Peng H et al. Memory and time efficient 3D neuron morphology tracing in large-scale images. In Rahman A, Murshed M, Asikuzzaman M, Paul M, editors, Proceedings of 2018 International Conference on Digital Image Computing: Techniques and Applications, DICTA 2018. 1st ed. USA: IEEE, Institute of Electrical and Electronics Engineers. 2018. p. 39-46 doi: 10.1109/DICTA.2018.8615765

Memory and time efficient 3D neuron morphology tracing in large-scale images

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