Fig. 4: Brain-wide analysis of section images using the QUINT workflow with DeMBA.

a–d Coronal example section images from the Allen Institute in situ hybridisation database, showing calbindin expression at four ages (P4, P14, P28 and P56). The presented analysis includes one brain-wide series per age. a’–d’ Magnified images from the isocortex. a”–d” Segmented images corresponding to (a’–d’). e–l Atlas maps from the VisuAlign software, corresponding to (a–d) used for quantification. e–h Segmentation maps derived from the Allen Common Coordinate Framework version 3, 2017 edition (CCFv3-2017) and (i–l) the Developmental Common Coordinate Framework version 001 (DevCCFv001) atlas. e’–l’ Magnified atlas maps, corresponding to the inset in (e-l). m, n Line graphs showing the calbindin load (area fraction; y-axis) across development (x axis), quantified by use of atlas maps from the CCFv3-2017 (m) and DevCCFv001 (n). Note that the colours in panels m and n are selected based on the colours used in the two atlases. Thus, similar colours in these two graphs do not represent the same regions. Abbreviations: CB cerebellum, CNU cerebral nuclei, D dorsal, ft fibre tracts, HPF hippocampal formation, HYP hypothalamus, ISO isocortex, L lateral, M medial MB-HBMY midbrain-hindbrain-medulla, OLF olfactory areas, TH thalamus, V ventral, VS ventricular system.