A template-propagation method for segmentation of filamentous structures in electron tomograms

Weicheng Shen, Peijun Zhang, David Germain, Tracey Rouault, Sriram Subramaniam

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Abstract

We report a method for semi-automated segmentation of extended features such as filamentous structures in electron tomograms. We present an application of this method for the automatic propagation of segmented neuro-filaments present along the axis of an axonal section of fixed, plastic-embedded mouse brain tissue imaged by three-dimensional electron microscopy. The algorithm uses the manually segmented features in a given slice to progressively extend the segmentation to successive slices based on knowledge of the centroids, shapes, and intensities of filaments in the previous slice. An iterative procedure allows for refinement of the most probable locations of the filaments in each slice. Evaluation of the performance of the propagation algorithm by visual inspection suggests that this approach can be used successfully for the rapid quantitative and statistical analysis of filamentous structures in cellular tomograms.

Original languageEnglish (US)
Title of host publication2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano
Pages1-4
Number of pages4
Volume1
StatePublished - 2004
Externally publishedYes
Event2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano - Arlington, VA, United States
Duration: Apr 15 2004Apr 18 2004

Other

Other2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano
CountryUnited States
CityArlington, VA
Period4/15/044/18/04

Fingerprint

Electrons
Electron microscopy
Brain
Statistical methods
Inspection
Tissue
Plastics
Chemical analysis

ASJC Scopus subject areas

  • Engineering(all)

Cite this

Shen, W., Zhang, P., Germain, D., Rouault, T., & Subramaniam, S. (2004). A template-propagation method for segmentation of filamentous structures in electron tomograms. In 2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano (Vol. 1, pp. 1-4)

A template-propagation method for segmentation of filamentous structures in electron tomograms. / Shen, Weicheng; Zhang, Peijun; Germain, David; Rouault, Tracey; Subramaniam, Sriram.

2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano. Vol. 1 2004. p. 1-4.

Research output: Chapter in Book/Report/Conference proceedingConference contribution

Shen, W, Zhang, P, Germain, D, Rouault, T & Subramaniam, S 2004, A template-propagation method for segmentation of filamentous structures in electron tomograms. in 2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano. vol. 1, pp. 1-4, 2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano, Arlington, VA, United States, 4/15/04.
Shen W, Zhang P, Germain D, Rouault T, Subramaniam S. A template-propagation method for segmentation of filamentous structures in electron tomograms. In 2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano. Vol. 1. 2004. p. 1-4
Shen, Weicheng ; Zhang, Peijun ; Germain, David ; Rouault, Tracey ; Subramaniam, Sriram. / A template-propagation method for segmentation of filamentous structures in electron tomograms. 2004 2nd IEEE International Symposium on Biomedical Imaging: Macro to Nano. Vol. 1 2004. pp. 1-4
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