Fig. 2 | Nature Communications

Fig. 2

From: Single cardiomyocyte nuclear transcriptomes reveal a lincRNA-regulated de-differentiation and cell cycle stress-response in vivo

Fig. 2

LincRNAs in nodal hubs of gene regulatory networks. a, b WGCNA identifies three distinct gene modules (Healthy, Disease 1 and Disease 2) (a) in Sham and TAC nuclei that represent expression signatures of specific Sham or TAC nuclear subgroups (b). c–e WGCNA reveals candidate lincRNAs in nodal hubs bearing the highest connectivity with other genes within the gene regulatory network modules. Gas5 and Sghrt are in nodal hubs within disease module 2 (e) and highly correlated with expression of other genes in the network such as Nppa, Dstn, Ccng1, and Ccnd2. Size and color of bubbles represent strength and significance of connectivity. Key enriched gene ontology (GO) terms are listed for each module (p < 0.05 Fisher’s exact test). f–h Scatterplots showing the expression of genes from the 3 gene modules at the single-nuclear level (f), at pooled nuclei level (g) and matched bulk left ventricle tissue RNA-seq (h). i Significant differential expression of genes from the three gene modules between Sham and TAC samples is detected only by single nuclear RNA-seq, and not by pooled nuclei or bulk tissue RNA-seq

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