Fig. 1: Amygdala neuron taxonomy.
From: Neuronal types in the mouse amygdala and their transcriptional response to fear conditioning
a, Experiment overview—scRNA-seq of the whole amygdala of 23 mice constructed the cell-type taxonomy that was then spatially mapped to distinct amygdala nuclei and analyzed for CFC response. b, Data structure—of 55,514 whole-cell transcriptomes, 30,184 were neurons. Neuronal cell types by dendrogram order per neurotransmitter type (GABAergic (13,006 cells and 56 clusters) or glutamatergic (17,178 cells)), with amygdala ___location on the right. Glutamatergic cells expressed either vesicle transporter Slc17a6 (VGLUT2, 5,231 cells and 42 clusters) or Slc17a7 (VGLUT1, 11,947 cells and 32 clusters), colored by a branch of highly correlated cell types. c, Heatmap of genes that were differentially expressed between branches of the dendrogram. d, t-SNE visualization of all 130 neuronal types by cluster average, colored by branch; circle area corresponds to cluster size. e, Spatial distribution of neuronal types in the amygdala, shown as weighted cell-type correlation with four anterior–posterior coronal sections ST (Visium), colored by branch. Top: corresponding reference sections, adjusted from Allen Reference Atlas—Mouse Brain (atlas.brain-map.org), with amygdala regions and section numbers (top) annotated.
