%0 Conference Paper %1 5872698 %A Lou, X. %A Kaster, F. O. %A Lindner, M. S. %A Kausler, B. X. %A Kothe, U. %A Hockendorf, B. %A Wittbrodt, J. %A Janicke, H. %A Hamprecht, F.A. %B Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on %D 2011 %K development embryos motion_analysis segmentation tracking zebrafish %P 1557-1560 %R 10.1109/ISBI.2011.5872698 %T Deltr: Digital embryo lineage tree reconstructor %U http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=5872698 %X 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.

@inproceedings{5872698, 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.}, added-at = {2013-10-22T15:05:45.000+0200}, author = {Lou, X. and Kaster, F. O. and Lindner, M. S. and Kausler, B. X. and Kothe, U. and Hockendorf, B. and Wittbrodt, J. and Janicke, H. and Hamprecht, F.A.}, biburl = {https://www.bibsonomy.org/bibtex/2c39003fdcd09409ce0d252cc2828af67/alex_ruff}, booktitle = {Biomedical Imaging: From Nano to Macro, 2011 IEEE International Symposium on}, description = {IEEE Xplore - Deltr: Digital embryo lineage tree reconstructor}, doi = {10.1109/ISBI.2011.5872698}, interhash = {7908a6917b99e2aef3176c96ef08de6a}, intrahash = {c39003fdcd09409ce0d252cc2828af67}, issn = {1945-7928}, keywords = {development embryos motion_analysis segmentation tracking zebrafish}, pages = {1557-1560}, timestamp = {2013-10-22T15:05:45.000+0200}, title = {Deltr: Digital embryo lineage tree reconstructor}, url = {http://ieeexplore.ieee.org/xpl/articleDetails.jsp?arnumber=5872698}, year = 2011 }