Journal
ELIFE
Volume 10, Issue -, Pages -Publisher
eLIFE SCIENCES PUBL LTD
DOI: 10.7554/eLife.59187
Keywords
-
Categories
Funding
- Japan Society for the Promotion of Science KAKENHI [JP16H06545, JP20H05700, JP18H05135, JP19K15406]
- NIH/NCI [U01CA236554]
- National Institutes of Natural Sciences [01112002]
- Nagoya City University [48 1912011 1921102]
- RIKEN Center for Advanced Intelligence Project
- program for Leading Graduate Schools entitled 'Interdisciplinary graduate school program for systematic understanding of health and disease'
- NTT-Kyushu University Collaborative Research Program on Basic Science
- NIH/NINDS [U01NS094296, UF1NS108213]
Ask authors/readers for more resources
3DeeCellTracker is a deep learning-based software pipeline that successfully segments and tracks cells in various dynamic environments, providing a new possibility for revealing cell activities in image datasets that have been difficult to analyze.
Despite recent improvements in microscope technologies, segmenting and tracking cells in three-dimensional time-lapse images (3D + T images) to extract their dynamic positions and activities remains a considerable bottleneck in the field. We developed a deep learning-based software pipeline, 3DeeCellTracker, by integrating multiple existing and new techniques including deep learning for tracking. With only one volume of training data, one initial correction, and a few parameter changes, 3DeeCellTracker successfully segmented and tracked similar to 100 cells in both semi-immobilized and 'straightened' freely moving worm's brain, in a naturally beating zebrafish heart, and similar to 1000 cells in a 3D cultured tumor spheroid. While these datasets were imaged with highly divergent optical systems, our method tracked 90-100% of the cells in most cases, which is comparable or superior to previous results. These results suggest that 3DeeCellTracker could pave the way for revealing dynamic cell activities in image datasets that have been difficult to analyze.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available