Table 3.

List of genes specifically upregulated or downregulated in each EpiG subgroup

TCGA-LIHC		EpiG1-T	EpiG2-T	EpiG3-T	EpiG4-T	EpiG5-T
	Up	ASH1L, BAZ2A, BAZ2B, BPTF, BRD3, CBX3, CHD8, DEK, DIDO1, DNMT1, GTF3C4, KAT7, KDM3B, KMT2E, MSH6, NAA50, NCOA3, NSD1, NSD2, PHIP, POGZ, SETDB1, SPIN1, SPIN3, SPIN4, SUZ12, TET1, TET3, TP53BP1, TRIM33 [n = 30]	DPF3, KDM8 [n = 2]	BRD9, CBX3, EED, HDAC1, HDAC2, KAT2A, KDM1A, L3MBTL1, PHF19, PYGO2, SETD4, SMYD3 [n = 12]	CHD4, JMJD6, SIRT2, ZCWPW1 [n = 4]	BRD7, BRPF3, CBX7, GATAD1, HDAC6, KAT2B, MORC4, PHF20L1, PRMT5, SETD3, SIRT1, SIRT5, SMYD2, TRIM24, ZBTB33 [n = 15]
	Down		BRD9, CBX3, CBX4, CHTOP, DNMT3A, DPF2, EHMT2, EZH2, HDAC11, JMJD6, KAT2A, KDM1A, PYGO2, SMYD3, SMYD5, SUV39H1, SUV39H2, TRIM28, UBTF, WDR5 [n = 20]	DPF3, HDAC6, KDM8, SETD7, SIRT5 [n = 5]	ARID4A, ASH1L, ATF2, ATRX, BAZ1B, BAZ2A, BAZ2B, BPTF, BRD3, BRPF1, BRPF3, CBX3, CHD8, DEK, DIDO1, DNMT1, DNMT3B, GTF3C4, JMJD1C, KAT7, KDM3A, KDM3B, KDM6B, KMT2E, L3MBTL1, MORC3, MSH6, NAA50, NCOA3, NSD1, NSD2, ORC3, PHF20, PHIP, POGZ, PRMT3, PRMT5, SETD2, SETDB1, SIRT1, SPIN1, SPIN3, SPIN4, SUZ12, TAF1, TET3, TP53BP1, TRIM33 [n = 48]
LIRI-JP		EpiG1-L	EpiG2-L	EpiG3-L	EpiG4-L	EpiG5-L
	Up	ASH1L, BRPF3, CBX3, CBX7, KAT2B, KDM3B, MORC4, PHF20, PHF20L1, PRMT5, SETD7, SIRT1, SIRT5, SMYD2, TAF1, ZBTB33 [n = 16]	JMJD6, SIRT2 [n = 2]	BAZ2B, JMJD1C, MECOM [n = 3]	ATAD2, BRPF1, CBX1, CBX2, CBX3, CBX5, CHD4, CHD8, DIDO1, DNMT1, DNMT3A, DPF2, EZH2, HDAC2, NCOA3, ORC1, SMARCA4, SPIN1, SPIN4, SUV39H2, SUZ12, TET1, UHRF1 [n = 22]	DNMT3L, HDAC6, KAT2 A, KDM4B, KDM8, ORC3, SETD4, SIRT7, ZMYND8 [n = 9]
	Down	HDAC9, HR, TET1 [n = 3]	ARID4A, ASH1L, BAZ2A, BAZ2B, BPTF, BRPF1, CHD8, DPF3, KDM3 A, KDM3B, KDM6B, KMT2E, MORC3, NSD1, PHIP, SETD2, SPIN1, SPIN3, SPIN4, TAF1, TET3, TP53BP1, TRIM33, ZMYND8 [n = 24]	BRD9, CBX8, CHTOP, EHMT2, KAT2A, PYGO2, SIRT7, SMYD5, SUV39H1, TRIM28, UBTF, WDR5 [n = 12]	SIRT2 [n = 1]	BRD7, CBX1, CBX3, CDYL, DEK, DPF2, GTF3 C4, HDAC2, KAT7, MSH6, NAA50, ORC5, PHF20, PRMT5, SMYD3, SUV39H2 [n = 16]