Paper Info
Title
Segmentation of 3D cell membrane images by PDE methods and its applications.
Abstract
We present a set of techniques that enable us to segment objects from 3D cell membrane images. Particularly, we propose methods for detection of approximate cell nuclei centers, extraction of the inner cell boundaries, the surface of the organism and the intercellular borders--the so called intercellular skeleton. All methods are based on numerical solution of partial differential equations. The center detection problem is represented by a level set equation for advective motion in normal direction with curvature term. In case of the inner cell boundaries and the global surface, we use the generalized subjective surface model. The intercellular borders are segmented by the advective level set equation where the velocity field is given by the gradient of the signed distance function to the segmented inner cell boundaries. The distance function is computed by solving the time relaxed eikonal equation. We describe the mathematical models, explain their numerical approximation and finally we present various possible practical applications on the images of zebrafish embryogenesis--computation of important quantitative characteristics, evaluation of the cell shape, detection of cell divisions and others.
Year
DOI
Venue
2011
10.1016/j.compbiomed.2011.03.010
Comp. in Bio. and Med.
Keywords
DocType
Volume
segmented inner cell boundary,image processing,cell membranes,cell shape,approximate cell nuclei center,segmentation,cell division,subjective surface method,partial differential equation,cell membrane image,cell image,intercellular skeleton,center detection problem,eikonal equation,inner cell boundary,generalized subjective surface model,pde method,advective level set equation,object counting
Journal
41
Issue
ISSN
Citations 
6
1879-0534
3
PageRank 
References 
Authors
0.37
11
4
Name
Order
Citations
PageRank
K Mikula1121.13
Nadine Peyriéras2759.37
M. Remešíková350.80
O Stasová4121.13