Figure 10. Bioinformatics analysis of RNA seq. data from acutely and chronically denervated nerves.

(A) GO terms downregulated and (B) upregulated in WT nerves during chronic denervation. (C) When chronically denervated c-Jun OE/+ and WT nerves were compared, GO terms associated with Schwann cell differentiation (FDR = 0.00397) and PNS development (FDR = 0.0173) were enriched in c-Jun OE/+ nerves. (D) Venn diagram showing numbers of differentially expressed genes between WT nerves following acute (1 week) and chronic (10-week) denervation and c-Jun OE/+ nerves following chronic denervation, compared to their uninjured counterparts. (E) Mean expression of five c-Jun-regulated genes with significantly different expression between acute and chronic WT nerves, but not between acute WT and chronic c-Jun OE/+ nerves (absolute fold change >2 and FDR < 0.05).

Figure 10—figure supplement 1. Bioinformatics analysis of nerves after chronic injury.

(A) PCA showing the key sources of variance in our chronic injury analysis are not only injury dependent but also time post-injury dependent, with samples clustering based on length of denervation regardless of genotype. (B) GSEA of WT chronically denervated nerves showed that c-Jun genes were some of the most downregulated genes during chronic denervation NES = −2.5, q-value = 0.0.