Extended Data Fig. 2: Quality controls of neuronal subtypes and their cortical layer specificity.
From: Multicellular communities are perturbed in the aging human brain and Alzheimer’s disease
(a) Distinct expression of known and de novo marker genes in excitatory neuronal subtypes (top) and inhibitory neuronal subtypes (bottom) as assigned by our clustering analysis. Mean expression level in expressing cells (color) and percent of expressing cells (circle size) of selected markers in each neuronal subtype (rows) of marker genes. (b-c) Distribution of neuronal subtype frequencies across sex or batch for n = 24 independent sample. Boxplots showing the fraction of nuclei per neuronal subtype for sex (b, n = 12 per group) or batch (c, n = 8 per group): For box plots, the bottom and upper borders show the first and third quartiles. The central line indicates the median. The whiskers are extended to the extrema values (without accounting for outliers). Dots show outliers samples. (d) Marker genes of neuronal subtypes exhibit a spatial organization at distinct layers within DLPFC slices. Spatial transcriptomics across 6 slices from 3 individuals for five marker genes (RORB, TOX, CUX2, PVALB, SLC17A7). Note variable orientation of slices. Complementary images to Fig. 2c.
