scholarly journals Adaptive Cell Segmentation and Tracking for Volumetric Confocal Microscopy Images of a Developing Plant Meristem

2011 ◽  
Vol 4 (5) ◽  
pp. 922-931 ◽  
Author(s):  
Min Liu ◽  
Anirban Chakraborty ◽  
Damanpreet Singh ◽  
Ram Kishor Yadav ◽  
Gopi Meenakshisundaram ◽  
...  
Keyword(s):  
Confocal Microscopy ◽  
Cell Segmentation ◽  
Microscopy Images ◽  
Segmentation And Tracking

scholarly journals Cell segmentation and tracking using CNN-based distance predictions and a graph-based matching strategy

PLoS ONE ◽  
2020 ◽  
Vol 15 (12) ◽  
pp. e0243219
Author(s):  
Tim Scherr ◽  
Katharina Löffler ◽  
Moritz Böhland ◽  
Ralf Mikut
Keyword(s):  
Cell Tracking ◽  
Signal To Noise Ratio ◽  
Cell Types ◽  
Tracking Algorithm ◽  
Training Data ◽  
Cell Segmentation ◽  
Data Sets ◽  
Matching Strategy ◽  
Microscopy Images ◽  
Segmentation And Tracking

The accurate segmentation and tracking of cells in microscopy image sequences is an important task in biomedical research, e.g., for studying the development of tissues, organs or entire organisms. However, the segmentation of touching cells in images with a low signal-to-noise-ratio is still a challenging problem. In this paper, we present a method for the segmentation of touching cells in microscopy images. By using a novel representation of cell borders, inspired by distance maps, our method is capable to utilize not only touching cells but also close cells in the training process. Furthermore, this representation is notably robust to annotation errors and shows promising results for the segmentation of microscopy images containing in the training data underrepresented or not included cell types. For the prediction of the proposed neighbor distances, an adapted U-Net convolutional neural network (CNN) with two decoder paths is used. In addition, we adapt a graph-based cell tracking algorithm to evaluate our proposed method on the task of cell tracking. The adapted tracking algorithm includes a movement estimation in the cost function to re-link tracks with missing segmentation masks over a short sequence of frames. Our combined tracking by detection method has proven its potential in the IEEE ISBI 2020 Cell Tracking Challenge (http://celltrackingchallenge.net/) where we achieved as team KIT-Sch-GE multiple top three rankings including two top performances using a single segmentation model for the diverse data sets.

Registration, segmentation, and visualization of confocal microscopy images of arterial thrombus

2004 ◽  
Author(s):  
Ishita Garg ◽  
Jon J. Camp ◽  
Robert McBane ◽  
Waldemar Wysokinski ◽  
Richard A. Robb
Keyword(s):  
Confocal Microscopy ◽  
Arterial Thrombus ◽  
Microscopy Images
Sign in / Sign up

Export Citation Format

Share Document