Evaluation of atlas based mouse brain segmentation

Joohwi Lee; Julien Jomier; Stephen Aylward; Mike Tyszka; Sheryl Moy; Jean Lauder; Martin Styner

doi:10.1117/12.812762

27 March 2009 Evaluation of atlas based mouse brain segmentation

Joohwi Lee, Julien Jomier, Stephen Aylward, Mike Tyszka, Sheryl Moy, Jean Lauder, Martin Styner

Author Affiliations +

Proceedings Volume 7259, Medical Imaging 2009: Image Processing; 725943 (2009) https://doi.org/10.1117/12.812762
Event: SPIE Medical Imaging, 2009, Lake Buena Vista (Orlando Area), Florida, United States

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.

Citation Download Citation

Joohwi Lee, Julien Jomier, Stephen Aylward, Mike Tyszka, Sheryl Moy, Jean Lauder, and Martin Styner "Evaluation of atlas based mouse brain segmentation", Proc. SPIE 7259, Medical Imaging 2009: Image Processing, 725943 (27 March 2009); https://doi.org/10.1117/12.812762

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