Gene networks and transcriptional regulators associated with liver cancer development and progression

BMC Medical Genomics

Table 6 Top three master regulators upstream of dysregulated genes in GE1-HCC and GE2-HCC

Gene regulation in HCC compared with NT	HCC subtype	Master molecule name	Reached from input set	FDR	Median FC gene expression in GE1-HCC	Median FC gene expression in GE2-HCC
		TGM2	10	0.001	NC	NC
	GE1	MMP15	9	0.001	NC	NC
UP		E2F1	8	0.003	1.97	6.43
		CCNB2	225	0.001	NC	8.02
	GE2	APC/C	219	0.001	NC^a	2.20^a
		PKMYT1	232	0	NC	4.05
		SOCS3	51	0	− 2.03	− 1.95
	GE1	CD4	40	0	− 2.03	NC
DOWN		IL10	56	0	NC	NC
		TNF	147	0	NC	NC
	GE2	GRK5	96	0	NC	− 2.51
		IL10	134	0	NC	NC

“Reached from input set”—the number of genes from the input list present in the network of this master molecule.
FC fold change, FDR false discovery rate, HCC hepatocellular carcinoma, NC no change, NT non-tumourous
^aFC is shown for APC subunit ANAPC11

ISSN: 1755-8794