Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models

Hongsheng Li; Tian Shen; Matthew B. Smith; Ikuko Fujiwara; Dimitrios Vavylonis; Xiaolei Huang

doi:10.1109/ISBI.2009.5193303

Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models

Hongsheng Li, Tian Shen, Matthew B. Smith, Ikuko Fujiwara, Dimitrios Vavylonis, Xiaolei Huang

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

56 Scopus citations

Abstract

This paper presents an automated method for actin filament segmentation and tracking for measuring tip elongation rates in Total Internal Reflection Fluorescence Microscopy (TIRFM) images. The main contributions of the paper are: (i) we use a novel open active contour model for filament segmentation and tracking, which is fast and robust against noise; and (ii) different strategies are proposed to solve the filament intersection problem, which is shown to be the main difficulty in filament tracking. Application to experimental results demonstrated the robustness and effectiveness of this method.

Original language	English (US)
Title of host publication	Proceedings - 2009 IEEE International Symposium on Biomedical Imaging
Subtitle of host publication	From Nano to Macro, ISBI 2009
Pages	1302-1305
Number of pages	4
DOIs	https://doi.org/10.1109/ISBI.2009.5193303
State	Published - 2009
Event	2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009 - Boston, MA, United States Duration: Jun 28 2009 → Jul 1 2009

Publication series

Name	Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009

Other

Other	2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009
Country/Territory	United States
City	Boston, MA
Period	6/28/09 → 7/1/09

All Science Journal Classification (ASJC) codes

Biomedical Engineering
Radiology Nuclear Medicine and imaging

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10.1109/ISBI.2009.5193303

Cite this

Li, H., Shen, T., Smith, M. B., Fujiwara, I., Vavylonis, D., & Huang, X. (2009). Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models. In Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009 (pp. 1302-1305). Article 5193303 (Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009). https://doi.org/10.1109/ISBI.2009.5193303

Li, Hongsheng ; Shen, Tian ; Smith, Matthew B. et al. / Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models. Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009. 2009. pp. 1302-1305 (Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009).

@inproceedings{78a4eb08ab234b5d8cedda9a3921d710,

title = "Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models",

abstract = "This paper presents an automated method for actin filament segmentation and tracking for measuring tip elongation rates in Total Internal Reflection Fluorescence Microscopy (TIRFM) images. The main contributions of the paper are: (i) we use a novel open active contour model for filament segmentation and tracking, which is fast and robust against noise; and (ii) different strategies are proposed to solve the filament intersection problem, which is shown to be the main difficulty in filament tracking. Application to experimental results demonstrated the robustness and effectiveness of this method.",

author = "Hongsheng Li and Tian Shen and Smith, {Matthew B.} and Ikuko Fujiwara and Dimitrios Vavylonis and Xiaolei Huang",

year = "2009",

doi = "10.1109/ISBI.2009.5193303",

language = "English (US)",

isbn = "9781424439324",

series = "Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009",

pages = "1302--1305",

booktitle = "Proceedings - 2009 IEEE International Symposium on Biomedical Imaging",

note = "2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009 ; Conference date: 28-06-2009 Through 01-07-2009",

}

Li, H, Shen, T, Smith, MB, Fujiwara, I, Vavylonis, D & Huang, X 2009, Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models. in Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009., 5193303, Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009, pp. 1302-1305, 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009, Boston, MA, United States, 6/28/09. https://doi.org/10.1109/ISBI.2009.5193303

Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models. / Li, Hongsheng; Shen, Tian; Smith, Matthew B. et al.
Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009. 2009. p. 1302-1305 5193303 (Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009).

Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

TY - GEN

T1 - Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models

AU - Li, Hongsheng

AU - Shen, Tian

AU - Smith, Matthew B.

AU - Fujiwara, Ikuko

AU - Vavylonis, Dimitrios

AU - Huang, Xiaolei

PY - 2009

Y1 - 2009

N2 - This paper presents an automated method for actin filament segmentation and tracking for measuring tip elongation rates in Total Internal Reflection Fluorescence Microscopy (TIRFM) images. The main contributions of the paper are: (i) we use a novel open active contour model for filament segmentation and tracking, which is fast and robust against noise; and (ii) different strategies are proposed to solve the filament intersection problem, which is shown to be the main difficulty in filament tracking. Application to experimental results demonstrated the robustness and effectiveness of this method.

AB - This paper presents an automated method for actin filament segmentation and tracking for measuring tip elongation rates in Total Internal Reflection Fluorescence Microscopy (TIRFM) images. The main contributions of the paper are: (i) we use a novel open active contour model for filament segmentation and tracking, which is fast and robust against noise; and (ii) different strategies are proposed to solve the filament intersection problem, which is shown to be the main difficulty in filament tracking. Application to experimental results demonstrated the robustness and effectiveness of this method.

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DO - 10.1109/ISBI.2009.5193303

M3 - Conference contribution

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SN - 9781424439324

T3 - Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009

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BT - Proceedings - 2009 IEEE International Symposium on Biomedical Imaging

T2 - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009

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Li H, Shen T, Smith MB, Fujiwara I, Vavylonis D, Huang X. Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models. In Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009. 2009. p. 1302-1305. 5193303. (Proceedings - 2009 IEEE International Symposium on Biomedical Imaging: From Nano to Macro, ISBI 2009). doi: 10.1109/ISBI.2009.5193303

Automated actin filament segmentation, tracking and tip elongation measurements based on open active contour models

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