Fig. 3

Li-rescued/induced H3K27ac peaks and their association with Li-rescued/induced gene expression changes: differential H3K27ac and gene expression modifications in Het-AKAP11-KO-Li vs. WT-UNT and Het-AKAP11-KO-UNT vs. WT-UNT. (a, b) Number of differentially elevated and decreased H3K27ac peaks in intergenic and intronic regions, respectively, in Het-AKAP11-KO-UNT vs. WT-UNT and Het-AKAP11-KO-Li vs. WT-UNT; p.adj < 0.05 and |log2FC| > 0.25. Red: differentially increased peaks, blue: differentially decreased peaks. (c, d) Tables showing Li-rescued/induced differential H3K27ac peaks that changed in the same direction as the Li-rescued/induced DEGs, respectively, following chronic Li treatment of Het-AKAP11-KO (Het-AKAP11-KO-Li vs. WT-UNT relative to Het-AKAP11-KO-UNT vs. WT-UNT). For both gene expression and H3K27ac: differentially marked (P.adj < 0.05 and |log2FC| > 0.25) in one comparison but not the other (i.e., in either Het-AKAP11-KO-UNT vs. WT-UNT or Het-AKAP11-KO-Li vs. WT-UNT); |log2FC difference| > 0.3 between the two sets of comparisons [(Het-AKAP11-KO-Li vs. WT-UNT) – (Het-AKAP11-KO-UNT vs. WT-UNT)] was also set as a condition. Red circle shows a negative value of Log2FC difference as a result of (Het-AKAP11-KO-Li vs. WT-UNT) – (Het-AKAP11-KO-UNT vs. WT-UNT); green circle shows a positive value of Log2FC difference as a result of (Het-AKAP11-KO-Li vs. WT-UNT) – (Het-AKAP11-KO-UNT vs. WT-UNT). Li-induced (non-differential-> differential) DEG/differential peaks are colored in orange and Li-rescued (differential-> non-differential) are colored in blue. (e) UCSC Genome Browser H3K27ac and gene expression averaged tracks of Het-AKAP11-KO clones and WT replicates, Li-treated and untreated. Demonstrating RAMP3, as an example, with Li-rescued expression profile and an intergenic Li-rescued H3K27ac peak. Blue rectangles highlight enhancers with differential binding strength and red squares mark gene expression profiles of the genes.