Fig. 3: Bivalent regions are deregulated in ULs.

a Bivalent regions change the most from myometrium in UL annotation. Each square shows the percentage of the myometrium annotation with the respective UL annotation shown in x-axis. b 15-state annotations of myometrium bivalent chromatin (TssBiv, BivFlnk, EnhBiv) in UL subclasses. c Heatmap of the expression of myometrium bivalent genes (n = 2087) in myometrium and MED12, HMGA2, and FH ULs. d Myometrium bivalent genes with a chromatin state change to activated (TssA, TssAFlnk) or repressed (ReprPC, ReprPCWk) chromatin in ULs show differences also on the gene expression level. Centre line, median; box limits, 25% and 75% quartiles; whiskers, 1.5 × interquartile range (IQR) past the quartiles. MED12 ActiveTSS n = 781, ReprPC n = 155 genes. HMGA2 ActiveTSS n = 267, RepressedPC n = 47 genes. FH Active TSS n = 463, ReprPC n = 69 genes. Gene expression log2 fold change calculated previously using 38 MED12, 44 HMGA2 and 15 FH ULs, and 162 myometrium biological replicates. TssA Active TSS, TssAFlnk Flanking active TSS, TxFlnk Transcr. at gene 5’ and 3’, Tx Strong transcription, TxWk Weak transcription, EnhG Genic enhancers, Enh Enhancers, ZNF/Rpts ZNF genes + repeats, Het Heterochromatin, TssBiv: Bivalent/poised TSS, BivFlnk Flanking bivalent TSS/Enh, EnhBiv Bivalent enhancer, ReprPC Repressed Polycomb, ReprPCWk Weak repressed Polycomb, Quies Quiescent/low. Source data are provided as a Source Data file.