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Evaluation of atlas based mouse brain segmentation

Lee, Joohwi and Jomier, Julien and Aylward, Stephen and Tyszka, Mike and Moy, Sheryl and Lauder, Jean and Styner, Martin (2009) Evaluation of atlas based mouse brain segmentation. In: Medical Imaging 2009: Image Processing. Proceedings of SPIE. No.7259. Society of Photo-optical Instrumentation Engineers (SPIE) , Bellingham, WA, Art. No. 725943. ISBN 9780819475107. http://resolver.caltech.edu/CaltechAUTHORS:20180725-095812457

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Abstract

Magentic Reasonance Imaging for mouse phenotype study is one of the important tools to understand human diseases. In this paper, we present a fully automatic pipeline for the process of morphometric mouse brain analysis. The method is based on atlas-based tissue and regional segmentation, which was originally developed for the human brain. To evaluate our method, we conduct a qualitative and quantitative validation study as well as compare of b-spline and fluid registration methods as components in the pipeline. The validation study includes visual inspection, shape and volumetric measurements and stability of the registration methods against various parameter settings in the processing pipeline. The result shows both fluid and b-spline registration methods work well in murine settings, but the fluid registration is more stable. Additionally, we evaluated our segmentation methods by comparing volume differences between Fmr1 FXS in FVB background vs C57BL/6J mouse strains.


Item Type:Book Section
Related URLs:
URLURL TypeDescription
https://doi.org/10.1117/12.812762DOIArticle
ORCID:
AuthorORCID
Tyszka, Mike0000-0001-9342-9014
Additional Information:© 2009 Society of Photo-Optical Instrumentation Engineers (SPIE).
Subject Keywords:segmentation, registration, atlas-based, bspline, fluid, mouse brain
Record Number:CaltechAUTHORS:20180725-095812457
Persistent URL:http://resolver.caltech.edu/CaltechAUTHORS:20180725-095812457
Official Citation:Joohwi Lee, Julien Jomier, Stephen Aylward, Mike Tyszka, Sheryl Moy, Jean Lauder, Martin Styner, "Evaluation of atlas based mouse brain segmentation", Proc. SPIE 7259, Medical Imaging 2009: Image Processing, 725943 (27 March 2009); doi: 10.1117/12.812762; https://doi.org/10.1117/12.812762
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:88239
Collection:CaltechAUTHORS
Deposited By: George Porter
Deposited On:25 Jul 2018 17:49
Last Modified:25 Jul 2018 17:49

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