Fig. 4: Transcriptomic correlates of morphological PV types.

a–c Heat maps (upper plots) of differentially expressed genes (using edgeR, fold difference>2, FDR < 0.05) between the five morphological PV types (panel a), three axo-morphological types (panel b), and two dendro-morphological types (panel c). Cells are ordered according to proMMT types. Genes that also appeared in proMMT comparisons (Fig. 2c) are highlighted in red. PCA plots (lower plots) were made using the differentially expressed genes. d PCA plot of cells, colored by the five morphological PV types, using an extended set (with a cutoff of FDR < 0.15) of n = 52 differentially expressed genes from panels a to c. e Comparison of expression rate of genes in PV-INs from this current versus the CA1-IN study¹⁰, displayed as a heatmap. Black line marks the loess regression fit. Black points label the 52 differentially expressed genes (with a cutoff of FDR < 0.15) from a to c. f UMAP-based embedding of PV-INs from the CA1-IN study¹⁰, and mapping the PV-INs of this current study onto the UMAP embedding using the extended set of n = 52 differentially expressed genes (with a cutoff of FDR < 0.15) from panel a to c. Three clusters of mapped cells are shown (labeled as 1, 2, and 3) as determined by K-means clustering. Symbols refer to the following transcriptomic subtypes, as described in the original study: rightward triangle Pvalb.Tac1.Akr1c18, leftward triangle Pvalb.Clql1.Cpne5, upward triangle Pvalb.C1ql1.Npy, downward triangle Pvalb.Clql1.Pvalb, plus sign Pvalb.Tac1.Nr4a2, open circle Pvalb.Tac1.Sst, and star Pvalb.Tac1.Syt2. The dashed line separates Pvalb.Tac1 and Pvalb.C1ql types.