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Segmentation of ascidian notochord cells in DIC timelapse images

Lookup NU author(s): Professor Boguslaw ObaraORCiD


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We have developed a method to automatically segment notochord cell boundaries from differential interference contrast (DIC) timelapse images of the elongating ascidian tail. The method is based on a specialized parametric active contour, the network snake, which can be initialized as a network of arbitrary but fixed topology and provides an effective framework for simultaneously segmenting multiple touching cells. Several modifications to the original network snake were necessary for high-quality segmentation, including linear Gaussian derivative filtering to reconstruct edge maps from DIC images and a new energy function to improve the segmentation of critical cell-cell vertices. We find that post-intercalation ascidian notochord cells exhibit two distinct cell behaviors: lateral cell edges expand along the AP axis while showing a rapid pulsatile behavior, whereas anterior and posterior cell edges contract smoothly. © 2010 Wiley-Liss, Inc.

Publication metadata

Author(s): Obara B, Veeman M, Choi JH, Smith W, Manjunath BS

Publication type: Article

Publication status: Published

Journal: Microscopy Research and Technique

Year: 2011

Volume: 74

Issue: 8

Pages: 727-734

Print publication date: 01/08/2011

Online publication date: 20/10/2010

ISSN (print): 1059-910X

ISSN (electronic): 1097-0029

Publisher: John Wiley & Sons, Inc.


DOI: 10.1002/jemt.20950

PubMed id: 20963785


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