PUBLICATION
Segmentation of cells from 3-d confocal images of live zebrafish embryo
- Authors
- Zanella, C., Rizzi, B., Melani, C., Campana, M., Bourgine, P., Mikula, K., Peyriéras, N., and Sarti, A.
- ID
- ZDB-PUB-071125-6
- Date
- 2007
- Source
- Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference 1(1): 6027-6030 (Journal)
- Registered Authors
- Peyriéras, Nadine, Rizzi, Barbara
- Keywords
- none
- MeSH Terms
-
- Algorithms
- Animals
- Artificial Intelligence
- Embryo, Nonmammalian/cytology*
- Humans
- Image Enhancement/methods
- Image Interpretation, Computer-Assisted/methods*
- Imaging, Three-Dimensional/methods*
- Microscopy, Confocal/methods*
- Pattern Recognition, Automated/methods*
- Reproducibility of Results
- Sensitivity and Specificity
- Zebrafish/anatomy & histology*
- Zebrafish/embryology*
- PubMed
- 18003388 Full text @ Conf. Proc. IEEE Eng. Med. Biol. Soc.
Citation
Zanella, C., Rizzi, B., Melani, C., Campana, M., Bourgine, P., Mikula, K., Peyriéras, N., and Sarti, A. (2007) Segmentation of cells from 3-d confocal images of live zebrafish embryo. Conference proceedings : ... Annual International Conference of the IEEE Engineering in Medicine and Biology Society. IEEE Engineering in Medicine and Biology Society. Annual Conference. 1(1):6027-6030.
Abstract
In this paper, we use partial-differential-equation-based segmentation to accurately extract the shapes of membranes and nuclei from time lapse confocal microscopy images, taken throughout early Zebrafish embryogenesis. This strategy is a prerequisite for an accurate quantitative analysis of cell shape and morphodynamics during organogenesis and is the basis for an integrated understanding of biological processes. This data will also serve for the measurement of the variability between individuals in a population. The segmentation of cellular structures is achieved by first using an edge-preserving image filtering method for noise reduction and then applying an algorithm for cell shape reconstruction based on the Subjective Surfaces technique.
Genes / Markers
Expression
Phenotype
Mutations / Transgenics
Human Disease / Model
Sequence Targeting Reagents
Fish
Orthology
Engineered Foreign Genes
Mapping