Fig. 2

Transcriptome analysis of PKAi-GFP mice at baseline. Total mRNA was isolated from the livers of 3 PKAi and 3 control mice of 16-week old fed with chow diet, and then used to construct library for RNA sequencing. a The heatmap of differentially expressed genes (DEGs) of PKAi and control mice. b The top 10 enriched Gene ontology (GO) terms (ranked by q-value, i.e. a modified Fisher exact P-value) of the DEGs. Rich factor indicates the ratio of input gene number to background gene number of each term. c Clustered pathways of the DEGs based on KEGG and Reactome database. Each node represents a pathway, and the nodes in one color represent a cluster of pathways. The nodes in red circle were the enriched pathways of up-regulated DEGs, and the nodes in blue circle were the enriched pathways of down-regulated DEGs. The thickness of lines between nodes represents the kappa score of overlapping genes of the linking nodes, calculated by Metascape online tool. d The top 1 term (ranked by false discovery rate (FDR) q-value) in GSEA enrichment of Control versus PKAi mice, running with the hallmark gene sets of Molecular Signatures Database (MSigDB). The top portion of the plot shows the enrichment scores (ES) for each gene, whereas the bottom portion of the plot shows the value of the ranking metric moving down the list of ranked genes. NES: normalized enrichment score; FWER p-value: family wise-error rate. (N = 3)