Dynamic protein interaction modules in human hepatocellular carcinoma progression

BMC Systems Biology

Table 3 Transition-wise differential co-expression protein interaction subnetworks

Transition	# nodes	# edges	HCC-related genes^a			Hub genes^b
			HCB	CGC	HCR
N-C	307	310	28***	29***	154*	ARRB1, APC, CDKN2A, CSNK2A1, CSNK2A2, *EP300, ESR1, GRB2, HCK, MCC, PIK3R1, PPP1CC, SRRM2, SUMO2, TSC22D1, YWHAG, YWHAZ*
C-D	102	103	13***	10*	44	APC, GFI1B, NEDD4, UBE2D3
D-E	104	103	10*	13***	58*	IKBKE, PIK3R1, YWHAZ
E-A	103	102	9*	11*	60*	EGFR, FYN, IKBKG, PRMT1,YWHAG

^aSee Materials and methods for explanation of the three HCC-related gene sets. Significance levels of HCC-related gene enrichment are labeled by *(p < 0.01) and ***(p < 0.0001).
^bHubs are genes with six or more connected neighbors. Hepatitis C virus -binding genes (italicized) and cancer-mutated genes (bold) are marked.

ISSN: 1752-0509