Fig. 3
Differential gene expression analysis in frontal cortex of Neat1-/- mice. a PCA of gene expression in frontal cortex between control (red) and Neat1-/- (blue) mice. b Hierarchical cluster tree of RNA-seq samples shows separate clustering of samples from Neat1-/- mice (N = 4) and controls (N = 5). c Volcano plot of mRNA expression. The DEGs located in Neat1 genomic region are marked. d, e DEGs in mouse (chr.19) and human (chr.11q13.1) genomic loci of NEAT1 from Neat1-/- mice and in SZ. Genes are organized based on the chromosome location, centered on NEAT1. Parentheses signs indicate DNA strand of transcription. Data are summarized in Tables S5–S6. Homologous genes are marked in bold (blue-downregulated; red-upregulated). f Hierarchical cluster tree of module’s eigengenes (top) co-expression network in murine frontal cortex and the topological overlap matrix (TOM) plot. The rows and columns represent the same set of genes sorted by the hierarchical clustering tree of TOM with modules represented by colored labels. The top affected modules highlighted by the rectangle. g Top affected modules associations with Neat1 deletion. Numbers correspond to Pearson’s correlation (green to red gradient) and p-values (in brackets)
