Integrative molecular analysis of metastatic hepatocellular carcinoma

BMC Medical Genomics

Table 1 The recurrently differentially expressed genes between matched primary tumors and PVTTs

Gene	Function	PvT	Freq	FDR	EdgeR	OS	VI
DCN		Down	11	< 1e-05	No	0	1
CYP2E1	Xenobiotics metabolism	Down	8	8.75E-05	No	1	1
LUM		Down	8	8.75E-05	No	0	1
TNC	Focal adhesion	Up	8	< 1e-05	No	0	0
TAT	AA metabolism	Down	8	8.75E-05	No	2	3
LAMA2	Focal adhesion	Down	8	8.75E-05	Yes	0	1
SFRP4		Down	8	8.75E-05	No	0	0
CPS1	AA metabolism	Down	8	8.75E-05	No	1	3
CYP3A4	Xenobiotics metabolism	Down	8	8.75E-05	No	1	3
IGJ		Down	7	1.44E-03	No	0	1
CYP2C8	Xenobiotics metabolism	Down	7	1.44E-03	No	0	3
CYP1B1	Xenobiotics metabolism	Down	7	1.44E-03	Yes	0	0
COLEC11		Down	7	1.44E-03	No	0	1
IGLL5		Down	7	1.44E-03	Yes	0	0
ASPN		Down	7	1.44E-03	No	0	0
PDGFRA	Focal adhesion	Down	7	1.44E-03	No	0	1
ACTG2		Up	7	3.00E-04	Yes	0	0
INHBA		Down	7	1.44E-03	No	0	0
HPD	AA metabolism	Down	7	1.44E-03	No	1	1
LAMC3	Focal adhesion	Down	7	1.44E-03	Yes	0	1

“PvT” denotes the direction of the differential expressions by comparing PVTTs to primary tumors; “Freq” denotes the number of patients with differentially expressed genes; “FDR” denotes the one-sided FDR calculated by permutation test; “EdgeR” denotes whether the gene is detected by EdgeR differential analysis (paired test, q-value < 0.1); “OS” denotes the number of datasets (two cohorts in total) in which the gene is significantly associated with overall survivals (KM test, p-value < 0.05); and, “VI” denotes the number of datasets (three cohorts in total) in which the gene is significantly associated with vascular invasion (ANOVA test, p-value < 0.05)

ISSN: 1755-8794