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 | |
| 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 |
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Keywords
- Drosophila
- neurite tracing
- neuron morphology
- snakes
ASJC Scopus subject areas
- Biomedical Engineering
- Radiology Nuclear Medicine and imaging
Cite this
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
}
TY - GEN
T1 - Three-dimensional neurite tracing under globally varying contrast
AU - Gulyanon, S.
AU - Sharifai, N.
AU - Bleykhman, S.
AU - Kelly, E.
AU - Kim, M. D.
AU - Chiba, Akira
AU - Tsechpenakis, G.
PY - 2015/7/21
Y1 - 2015/7/21
N2 - 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.
AB - 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.
KW - Drosophila
KW - neurite tracing
KW - neuron morphology
KW - snakes
UR - http://www.scopus.com/inward/record.url?scp=84944318444&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=84944318444&partnerID=8YFLogxK
U2 - 10.1109/ISBI.2015.7164010
DO - 10.1109/ISBI.2015.7164010
M3 - Conference contribution
AN - SCOPUS:84944318444
SN - 9781479923748
VL - 2015-July
SP - 875
EP - 879
BT - Proceedings - International Symposium on Biomedical Imaging
PB - IEEE Computer Society
ER -