Segmentation of cells from 3-D confocal images of live zebrafish embryo.
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.
Zanella
Cecilia
C
Dipartimento di Elettronica, Informatica e Sistemistica (DEIS), Bologna University, Italy. cecilia.zanella2@unibo.it
Rizzi
Barbara
B
Melani
Camilo
C
Campana
Matteo
M
Bourgine
Paul
P
Mikula
Karol
K
Peyriéras
Nadine
N
Sarti
Alessandro
A
D000465:Algorithms; D000818:Animals; D001185:Artificial Intelligence; D004625:Embryo, Nonmammalian / Q000166:cytology*; D006801:Humans; D007089:Image Enhancement / Q000379:methods; D007090:Image Interpretation, Computer-Assisted / Q000379:methods*; D021621:Imaging, Three-Dimensional / Q000379:methods*; D018613:Microscopy, Confocal / Q000379:methods*; D010363:Pattern Recognition, Automated / Q000379:methods*; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity; D015027:Zebrafish / Q000033:anatomy & histology* / Q000196:embryology*