Fig. 6: Gene expression correlation identifies cell types with CFC-activated learning gene modules.
From: Neuronal types in the mouse amygdala and their transcriptional response to fear conditioning
a, Pearson pairwise correlation (green, low and yellow, high) of 18 IEGs for four cell types, resolved by post-CFC sampling timepoint and batch-specific HC control. For each cell type; top row, batch B (HC-2 h-recall); bottom row, batch A (HC-8 h-24 h); genes ordered by hierarchical clustering. b, Pairwise correlation of 156 learning-related genes, in VGLUT1 type 2, 24 h post CFC, with three correlated gene expression modules highlighted. Pearson coefficient (green, low and yellow, high), genes are ordered by hierarchical clustering. c, Time-resolved correlation, per experimental group (post-CFC, HC controls), for large clusters (smallest group in cluster \(\ge\)20 cells), for gene modules indicated, or all genes combined (‘correlation summary’). d, CFC-induced correlation across the full amygdala taxonomy, visualized as heatmap on t-SNE (as in Fig. 1b). Pairwise correlation score (gray, no score (smallest group in cluster <20 cells)). Circle size represents cluster size. c,d, Pearson pairwise correlation score (blue, low and red, high). e, Multiplex fluorescent in situ hybridization validates two Pvalb+ interneuron populations GABA-41 and GABA-44 (with different transcriptional responses to CFC) had similar spatial distributions primarily in the BLA. f, Targeting strategy for validation of NLOT participation in CFC via retrograde labeling of MOB-projecting neurons with GCaMP6f, and fiberphotometry recording in NLOT, during CFC and recall. Mean z score of NLOT calcium activity recorded in seven CFC tone-shock pairings (left), and four no-shock tone recall events (right), visualized as heatmap 5 seconds before and after the event, for five mice (rows).
