Multi scale and slice-based approach for automatic spine detection

Siu Kai Choy; Kun Chen; Yong Zhang; Matthew Baron; Merilee A. Teylan; Yong Kim; Chong Sze TONG; Zhihuan Song; Stephen T.C. Wong

doi:10.1109/IEMBS.2010.5626640

Multi scale and slice-based approach for automatic spine detection

Siu Kai Choy^*, Kun Chen, Yong Zhang, Matthew Baron, Merilee A. Teylan, Yong Kim, Chong Sze TONG, Zhihuan Song, Stephen T.C. Wong

^*Corresponding author for this work

Department of Mathematics

Research output: Chapter in book/report/conference proceeding › Conference contribution › peer-review

4 Citations (Scopus)

Abstract

Dendritic spines play an essential role in the central nervous system. Recent experiments have revealed that neuron functional properties are highly correlated with the statistical and morphological changes of the dendritic spines. In this paper, we propose a new multi scale approach for detecting dendritic spines in a 2D Maximum Intensity Projection (MIP) image of the 3D neuron data stacks collected from a 2-photon laser scanning confocal microscope. The proposed method utilizes the curvilinear structure detector in conjunction with the multi scale spine detection algorithm which automatically and accurately extracts and segments the spines with variational sizes along the dendrite. In addition, a slice-based spine detection algorithm is also proposed to detect spines which are hidden from the MIP image within the dendrite area. Experimental results show that our proposed method is effective for automatic spine detection and is able to accurately segment dendrite.

Original language	English
Title of host publication	2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10
Pages	4765-4768
Number of pages	4
DOIs	https://doi.org/10.1109/IEMBS.2010.5626640
Publication status	Published - 2010
Event	2010 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10 - Buenos Aires, Argentina Duration: 31 Aug 2010 → 4 Sept 2010

Publication series

Name	2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10

Conference

Conference	2010 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10
Country/Territory	Argentina
City	Buenos Aires
Period	31/08/10 → 4/09/10

Scopus Subject Areas

Biomedical Engineering
Computer Vision and Pattern Recognition
Signal Processing
Health Informatics

Access to Document

10.1109/IEMBS.2010.5626640

Cite this

Choy, S. K., Chen, K., Zhang, Y., Baron, M., Teylan, M. A., Kim, Y., TONG, C. S., Song, Z., & Wong, S. T. C. (2010). Multi scale and slice-based approach for automatic spine detection. In 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10 (pp. 4765-4768). [5626640] (2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10). https://doi.org/10.1109/IEMBS.2010.5626640

@inproceedings{8ef38e022cd94a41b7b1c10f6256cee1,

title = "Multi scale and slice-based approach for automatic spine detection",

abstract = "Dendritic spines play an essential role in the central nervous system. Recent experiments have revealed that neuron functional properties are highly correlated with the statistical and morphological changes of the dendritic spines. In this paper, we propose a new multi scale approach for detecting dendritic spines in a 2D Maximum Intensity Projection (MIP) image of the 3D neuron data stacks collected from a 2-photon laser scanning confocal microscope. The proposed method utilizes the curvilinear structure detector in conjunction with the multi scale spine detection algorithm which automatically and accurately extracts and segments the spines with variational sizes along the dendrite. In addition, a slice-based spine detection algorithm is also proposed to detect spines which are hidden from the MIP image within the dendrite area. Experimental results show that our proposed method is effective for automatic spine detection and is able to accurately segment dendrite.",

author = "Choy, {Siu Kai} and Kun Chen and Yong Zhang and Matthew Baron and Teylan, {Merilee A.} and Yong Kim and TONG, {Chong Sze} and Zhihuan Song and Wong, {Stephen T.C.}",

note = "Copyright: Copyright 2011 Elsevier B.V., All rights reserved.; 2010 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10 ; Conference date: 31-08-2010 Through 04-09-2010",

year = "2010",

doi = "10.1109/IEMBS.2010.5626640",

language = "English",

isbn = "9781424441235",

series = "2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10",

pages = "4765--4768",

booktitle = "2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10",

}

Choy, SK, Chen, K, Zhang, Y, Baron, M, Teylan, MA, Kim, Y, TONG, CS, Song, Z & Wong, STC 2010, Multi scale and slice-based approach for automatic spine detection. in 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10., 5626640, 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10, pp. 4765-4768, 2010 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10, Buenos Aires, Argentina, 31/08/10. https://doi.org/10.1109/IEMBS.2010.5626640

Multi scale and slice-based approach for automatic spine detection. / Choy, Siu Kai; Chen, Kun; Zhang, Yong et al.

2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10. 2010. p. 4765-4768 5626640 (2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10).

Research output: Chapter in book/report/conference proceeding › Conference contribution › peer-review

TY - GEN

T1 - Multi scale and slice-based approach for automatic spine detection

AU - Choy, Siu Kai

AU - Chen, Kun

AU - Zhang, Yong

AU - Baron, Matthew

AU - Teylan, Merilee A.

AU - Kim, Yong

AU - TONG, Chong Sze

AU - Song, Zhihuan

AU - Wong, Stephen T.C.

PY - 2010

Y1 - 2010

N2 - Dendritic spines play an essential role in the central nervous system. Recent experiments have revealed that neuron functional properties are highly correlated with the statistical and morphological changes of the dendritic spines. In this paper, we propose a new multi scale approach for detecting dendritic spines in a 2D Maximum Intensity Projection (MIP) image of the 3D neuron data stacks collected from a 2-photon laser scanning confocal microscope. The proposed method utilizes the curvilinear structure detector in conjunction with the multi scale spine detection algorithm which automatically and accurately extracts and segments the spines with variational sizes along the dendrite. In addition, a slice-based spine detection algorithm is also proposed to detect spines which are hidden from the MIP image within the dendrite area. Experimental results show that our proposed method is effective for automatic spine detection and is able to accurately segment dendrite.

AB - Dendritic spines play an essential role in the central nervous system. Recent experiments have revealed that neuron functional properties are highly correlated with the statistical and morphological changes of the dendritic spines. In this paper, we propose a new multi scale approach for detecting dendritic spines in a 2D Maximum Intensity Projection (MIP) image of the 3D neuron data stacks collected from a 2-photon laser scanning confocal microscope. The proposed method utilizes the curvilinear structure detector in conjunction with the multi scale spine detection algorithm which automatically and accurately extracts and segments the spines with variational sizes along the dendrite. In addition, a slice-based spine detection algorithm is also proposed to detect spines which are hidden from the MIP image within the dendrite area. Experimental results show that our proposed method is effective for automatic spine detection and is able to accurately segment dendrite.

UR - http://www.scopus.com/inward/record.url?scp=78650825880&partnerID=8YFLogxK

U2 - 10.1109/IEMBS.2010.5626640

DO - 10.1109/IEMBS.2010.5626640

M3 - Conference contribution

C2 - 21096249

AN - SCOPUS:78650825880

SN - 9781424441235

T3 - 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10

SP - 4765

EP - 4768

BT - 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10

T2 - 2010 32nd Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10

Y2 - 31 August 2010 through 4 September 2010

ER -

Choy SK, Chen K, Zhang Y, Baron M, Teylan MA, Kim Y et al. Multi scale and slice-based approach for automatic spine detection. In 2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10. 2010. p. 4765-4768. 5626640. (2010 Annual International Conference of the IEEE Engineering in Medicine and Biology Society, EMBC'10). doi: 10.1109/IEMBS.2010.5626640

Multi scale and slice-based approach for automatic spine detection

Abstract

Publication series

Conference

Scopus Subject Areas

Access to Document

Other files and links

Fingerprint

Cite this