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. Author manuscript; available in PMC: 2010 Sep 15.
Published in final edited form as: Neuroscience. 2009 May 30;162(4):1339–1350. doi: 10.1016/j.neuroscience.2009.05.070

Figure 4.

Figure 4

The 2nd level shrinkage- and distortion-corrected atlas of the adult C57BL/6J mouse brain. (A) Population-averaged in vivo ‘master’ atlas of the C57BL/6J brain. Three orthogonal sections are shown, with contours outlining the overall brain volume and the ventricular volume. (B) The anatomical variability magnitude map (AVM) of the sections in panel A. The grey scale intensities represent distances in micrometers. (C) The distortion-corrected ex vivo atlas after warping to the in vivo master atlas. The contour lines of the in vivo atlas are overlaid on T2-weighted images of the corrected ex vivo atlas. (D) Coronal sections from the corrected ex vivo atlas, showing the color-coded orientation maps derived from DTI, with overlaid contours from the in vivo atlas.