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article · PLoS ONE · 2014

An Automated Three-Dimensional Detection and Segmentation Method for Touching Cells by Integrating Concave Points Clustering and Random Walker Algorithm

Yong He, Yunlong Meng, Hui Gong, Xing‐Qiu Chen, Bin Zhang, Wenxiang Ding, Qingming Luo, Anan Li

Cited by 21Open access

Abstract

Characterizing cytoarchitecture is crucial for understanding brain functions and neural diseases. In neuroanatomy, it is an important task to accurately extract cell populations' centroids and contours. Recent advances have permitted imaging at single cell resolution for an entire mouse brain using the Nissl staining method. However, it is difficult to precisely segment numerous cells, especially those cells touching each other. As presented herein, we have developed an automated three-dimensional detection and segmentation method applied to the Nissl staining data, with the following two key steps: 1) concave points clustering to determine the seed points of touching cells; and 2) random walker segmentation to obtain cell contours. Also, we have evaluated the performance of our proposed method with several mouse brain datasets, which were captured with the micro-optical sectioning tomography imaging system, and the datasets include closely touching cells. Comparing with traditional detection and segmentation methods, our approach shows promising detection accuracy and high robustness.

Cite this paper

APA 7

He, Y., Meng, Y., Gong, H., Chen, X., Zhang, B., Ding, W., Luo, Q., & Li, A. (2014). An Automated Three-Dimensional Detection and Segmentation Method for Touching Cells by Integrating Concave Points Clustering and Random Walker Algorithm. PLoS ONE, 9(8), e104437. https://doi.org/10.1371/journal.pone.0104437

MLA 9

He, Yong, et al. “An Automated Three-Dimensional Detection and Segmentation Method for Touching Cells by Integrating Concave Points Clustering and Random Walker Algorithm.” PLoS ONE, vol. 9, no. 8, 2014, p. e104437, https://doi.org/10.1371/journal.pone.0104437.

Chicago

He, Yong, Yunlong Meng, Hui Gong, Xing‐Qiu Chen, Bin Zhang, Wenxiang Ding, Qingming Luo, and Anan Li. 2014. “An Automated Three-Dimensional Detection and Segmentation Method for Touching Cells by Integrating Concave Points Clustering and Random Walker Algorithm.” PLoS ONE 9 (8): e104437. https://doi.org/10.1371/journal.pone.0104437.

Harvard

He, Y. et al. (2014) ‘An Automated Three-Dimensional Detection and Segmentation Method for Touching Cells by Integrating Concave Points Clustering and Random Walker Algorithm’, PLoS ONE, 9(8), p. e104437. Available at: https://doi.org/10.1371/journal.pone.0104437.

BibTeX
@article{he2014automated,
  title = {{An Automated Three-Dimensional Detection and Segmentation Method for Touching Cells by Integrating Concave Points Clustering and Random Walker Algorithm}},
  author = {He, Yong and Meng, Yunlong and Gong, Hui and Chen, Xing‐Qiu and Zhang, Bin and Ding, Wenxiang and Luo, Qingming and Li, Anan},
  journal = {PLoS ONE},
  volume = {9},
  number = {8},
  pages = {e104437},
  year = {2014},
  doi = {10.1371/journal.pone.0104437}
}

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