Fig. 7

lncRNA expression across myofibroblasts from different tissues. a Expression of HSC-specific lncRNAs (Fig. 4) was analyzed in fetal HSCs, adult HSCs, and liver. b PCA and k-mean clustering show that adult and fetal HSC myofibroblasts cluster together (aHSCs and fHSCs, red) compared with pancreatic stellate cell myofibroblasts (PSCs, blue) and dermal fibroblasts (DFs, green) based on lncRNA expressions. Principal component (PC)2 versus PC1 is displayed on the top and PC3 versus PC1 is displayed on the bottom. c Expression of lncRNAs contained in the ECM network (Fig. 6f) was analyzed across eight normal liver samples, two with bridging fibrosis and two with cirrhosis [75]. Sixteen lncRNAs from cluster II (y-axis) were found to be enriched in fibrosis and cirrhosis compared with normal livers. Each row represents expression of one lncRNA and the liver histology is indicated on the x-axis. The Z-score is shown in the upper right. d Identification of lncRNAs that meet criteria of unidirectional eRNAs. The ratio of H3K4me1/H3keme3 was calculated at the TSS (±0.5 kb) of the selected lncRNAs. A ratio >1.2 was used to identify eRNAs (indicated by dotted arrow) [80]