Three-dimensional neurite tracing under globally varying contrast

S. Gulyanon; N. Sharifai; S. Bleykhman; E. Kelly; M. D. Kim; Akira Chiba; G. Tsechpenakis

doi:10.1109/ISBI.2015.7164010

Three-dimensional neurite tracing under globally varying contrast

S. Gulyanon, N. Sharifai, S. Bleykhman, E. Kelly, M. D. Kim, Akira Chiba, G. Tsechpenakis

Biology

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

9 Scopus citations

Abstract

We study the 3D neurite tracing problem in different imaging modalities. We consider that the examined images do not provide sufficient contrast between neurite and background, and the signal-to-noise ratio varies spatially. We first split the stack into box sub-volumes, and inside each box we evolve simultaneously a number of different open-curve snakes. The curves deform based on three criteria: local image statistics, local shape smoothness, and a term that enforces pairwise attraction between snakes, given their spatial proximity and shapes. We validate our method using larva Drosophila sensory neurons imaged with confocal laser scanning microscopy, as well as publicly available datasets.

Original language	English (US)
Title of host publication	Proceedings - International Symposium on Biomedical Imaging
Publisher	IEEE Computer Society
Pages	875-879
Number of pages	5
Volume	2015-July
ISBN (Print)	9781479923748
DOIs	https://doi.org/10.1109/ISBI.2015.7164010
State	Published - Jul 21 2015
Event	12th IEEE International Symposium on Biomedical Imaging, ISBI 2015 - Brooklyn, United States Duration: Apr 16 2015 → Apr 19 2015

Other

Other	12th IEEE International Symposium on Biomedical Imaging, ISBI 2015
Country	United States
City	Brooklyn
Period	4/16/15 → 4/19/15

Keywords

Drosophila
neurite tracing
neuron morphology
snakes

ASJC Scopus subject areas

Biomedical Engineering
Radiology Nuclear Medicine and imaging

Access to Document

10.1109/ISBI.2015.7164010

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Cite this

Gulyanon, S., Sharifai, N., Bleykhman, S., Kelly, E., Kim, M. D., Chiba, A., & Tsechpenakis, G. (2015). Three-dimensional neurite tracing under globally varying contrast. In Proceedings - International Symposium on Biomedical Imaging (Vol. 2015-July, pp. 875-879). [7164010] IEEE Computer Society. https://doi.org/10.1109/ISBI.2015.7164010

Three-dimensional neurite tracing under globally varying contrast. / Gulyanon, S.; Sharifai, N.; Bleykhman, S.; Kelly, E.; Kim, M. D.; Chiba, Akira; Tsechpenakis, G.

Proceedings - International Symposium on Biomedical Imaging. Vol. 2015-July IEEE Computer Society, 2015. p. 875-879 7164010.

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

Gulyanon, S, Sharifai, N, Bleykhman, S, Kelly, E, Kim, MD, Chiba, A & Tsechpenakis, G 2015, Three-dimensional neurite tracing under globally varying contrast. in Proceedings - International Symposium on Biomedical Imaging. vol. 2015-July, 7164010, IEEE Computer Society, pp. 875-879, 12th IEEE International Symposium on Biomedical Imaging, ISBI 2015, Brooklyn, United States, 4/16/15. https://doi.org/10.1109/ISBI.2015.7164010

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