P7 Mouse Brain Atlas Construction and Application

<div><p>(A) Standard Nissl-stained P7 sagittal standard section number 4 with major anatomical boundaries drawn in red: amygdala (am), basal forebrain (bf), cerebellum (cb), cortex (ctx), globus pallidus (gp), hippocampus (hi), medulla (med), midbrain (mb), olfactory bulb (ob), pons (p), striatum (st), thalamus (th), and ventral striatum (vst).</p><p>(B) The coarse mesh, shown here for the thalamus, is constructed by defining vertices of quadrilaterals.</p><p>(C) Iterative application of subdivision generates smooth boundary curves and a smooth internal representation of smaller quadrilaterals. Fixed vertices (large squares) allow crease angles to be added to the otherwise smooth boundary curve.</p><p>(D) The atlas for standard section number 4. Each coarse quadrilateral is associated with a particular anatomical structure, an association inherited during subdivision.</p><p>(E) Expression pattern of <i>Cannabinoid receptor 1</i> in a section similar to standard map 4.</p><p>(F) The atlas (D) is deformed by moving vertices so that the anatomical boundaries match those in the <i>Cannabinoid receptor 1</i> section (E).</p><p>(G) Quadrilaterals overlying the DG (insert) were marked in 59 fitted maps using a mesh generated after two rounds of subdivision. In every section, the same four quadrilaterals were found to overlap the bulk of the DG.</p>