Extended Data Fig. 6: Molecular diversity within the cerebral cortex and the cerebellar cortex granular layer.
From: Spatial atlas of the mouse central nervous system at molecular resolution
a, Spatial expression heatmap of representative marker genes for molecular cerebral cortical regions. b, Molecular tissue regions, molecular cell types and anatomical definition maps (from the Allen Mouse Brain Atlas18,19) at the cerebellar cortex granule layer (top), spatial maps of molecular cerebellar cortex granule layer coloured by the value of the first eigenvector of the diffusion map (DC1) (bottom left), and DC embeddings of spatial niche gene expression coloured by molecular tissue region identities (bottom middle) or molecular cell type identities (bottom right). IV-V, culmen lobules IV-V; FL, flocculus. c, STARmap PLUS, Allen ISH23 and smFISH-HCR images of Adcy1 and Nrep that are enriched in the dorsal and ventral parts of the cerebellar cortex granular layer (CBX_1-[CBXd_gr] versus CBX_3-[CBXv_gr]), respectively. smFISH-HCR images are representative of two experiments. d, Comparison of the molecular and anatomical tissue layer composition in various cortical regions covering the anterior-posterior, lateral-medial, and dorsal-ventral axes. Anatomical maps were shown as the registered tissue slices in CCFv320. Anatomical tissue region abbreviations: MO, somatomotor areas; MOs, secondary motor area; MOp, primary motor area; ACA, anterior cingulate area; ACAd, anterior cingulate area, dorsal part; PL, prelimbic area; AId, agranular insular area, dorsal part; AIp, agranular insular area, posterior part; ORB, orbital area; ILA, infralimbic area; RSP, retrosplenial area; RSPv, retrosplenial area, ventral part; RSPagl, retrosplenial area, lateral agranular part; RSPd, retrosplenial area, dorsal part; SSp, primary somatosensory area; SSs, supplemental somatosensory area; VISC, visceral area; GU, gustatory areas; PIR, piriform area; VISam, anteromedial visual area; VISpm, posteromedial visual area; VISp, primary visual area; VISrl, rostrolateral visual area; VISl, lateral visual area; VISli, laterointermediate area; VISpor, postrhinal area; AUDd, dorsal auditory area; AUDp, primary auditory area; AUDv, ventral auditory area; TEa, temporal association areas; ECT, ectorhinal area; PERI, perirhinal area; ENT, entorhinal area; ENTl, entorhinal area, lateral part; TR, postpiriform transition area; COA, cortical amygdalar area; PRE, presubiculum; POST, postsubiculum. Molecular tissue region abbreviations, see Supplementary Notes and Supplementary Table 5.
