Paper Info
Title
Deltr: Digital embryo lineage tree reconstructor
Abstract
We present DELTR, an automated pipeline for the analysis of time-resolved light sheet fluorescence microscopy images of zebrafish embryogenesis. It comprises 3D nucleus segmentation using shape-regularized graph cuts, parallelized extraction of geometrical features, and cell tracking by means of combinatorial optimization. We also discuss the interactive visualization software used for validating the results, and describe our advances towards reconstructing the entire cell lineage tree of the zebrafish. Our method achieves ca. 96 % accuracy for cell nucleus detection and ca. 90 % accuracy for the association of nuclei across subsequent time steps.
Year
DOI
Venue
2011
10.1109/ISBI.2011.5872698
Chicago, IL
Keywords
Field
DocType
biological techniques,biology computing,cellular biophysics,feature extraction,fluorescence,image reconstruction,image segmentation,optical microscopy,optimisation,zoology,3D nucleus segmentation,DELTR,cell tracking,combinatorial optimization,digital embryo lineage tree reconstructor,interactive visualization software,parallelized geometrical feature extraction,shape-regularized graph cuts,time-resolved light sheet fluorescence microscopy images,zebrafish embryogenesis,Cell Lineage Reconstruction,Cell Tracking,Segmentation,Shape Regularization,Visualization
Cut,Computer vision,Pattern recognition,Computer science,Segmentation,Visualization,Light sheet fluorescence microscopy,Feature extraction,Combinatorial optimization,Image segmentation,Interactive visualization,Artificial intelligence
Conference
ISSN
ISBN
Citations 
1945-7928 E-ISBN : 978-1-4244-4128-0
978-1-4244-4128-0
6
PageRank 
References 
Authors
0.49
5
9
Name
Order
Citations
PageRank
Xinghua Lou1826.38
Frederik O. Kaster2101.32
Martin S Lindner3202.63
Bernhard X. Kausler41285.13
Ullrich Koethe524922.37
Burkhard Hockendorf660.49
Jochen Wittbrodt7231.68
H. Janicke860.49
Fred A. Hamprecht996276.24