Fig. 8

Clustering of gene expression changes induced by transcription factor (TF) overexpression in DRG neurons, and Gene Ontology (GO) over-presentation analysis of three primary clusters. Genes were clustered by Weighted Gene Correlation Network Analysis (WGCNA). (A) WGCNA-derived clusters with changes in expression indicated per group for each cluster. Gene expression changes were similar between TF groups (excluding MEF2) and only small clusters of genes specific for different TF groups were identified. Clusters U1, U2 and U3 were the major clusters of genes that were upregulated in TF groups and/or by axotomy. (B) U1 contains genes going up after axotomy and in the TF groups excluding MEF2, and contains genes related to biosynthesis, cell death, immune/inflammatory processes, signalling, translation, and regeneration amongst other categories. (C) Cluster U3 contain genes only induced by TF expression and contains many genes related to immune and inflammation responses, signalling, cytokine production amongst others. (D) Cluster U2 contains genes induced by axotomy and not by TF delivery, i.e. parts of the RAG program missing from the TF-induced responses. Most prominently it contains genes related to metabolic processes, signalling and responses to various molecules. Other clusters are illustrated in Supp. Fig. S7