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Proceedings Paper

Automated segmentation of the ex vivo mouse brain
Author(s): Alize E. H. Scheenstra; Jouke Dijkstra; Rob C. G. van de Ven; Louise van der Weerd; Johan H. C. Reiber
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Paper Abstract

In biological image processing the segmentation of a volume is, although tedious, required for many applications, like the comparison of structures and annotation purposes. To automate this process, we present a segmentation method for various structures of the mouse brain. The segmentation consists of two parts; first a rough affine atlas-based registration was performed and second, the edges between structures were refined by an adapted Markov random field clustering approach. The segmentations results were compared to manual segmentations from two experts. The presented automatic segmentation method is quick, intuitive and suitable for registration purposes, but also for biological objectives, like comparison and annotation.

Paper Details

Date Published: 29 March 2007
PDF: 8 pages
Proc. SPIE 6511, Medical Imaging 2007: Physiology, Function, and Structure from Medical Images, 651106 (29 March 2007); doi: 10.1117/12.708867
Show Author Affiliations
Alize E. H. Scheenstra, Leiden Univ. Medical Ctr. (Netherlands)
Jouke Dijkstra, Leiden Univ. Medical Ctr. (Netherlands)
Rob C. G. van de Ven, Leiden Univ. Medical Ctr. (Netherlands)
Louise van der Weerd, Leiden Univ. Medical Ctr. (Netherlands)
Johan H. C. Reiber, Leiden Univ. Medical Ctr. (Netherlands)

Published in SPIE Proceedings Vol. 6511:
Medical Imaging 2007: Physiology, Function, and Structure from Medical Images
Armando Manduca; Xiaoping P. Hu, Editor(s)

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