Application of microRNA and mRNA expression profiling on prognostic biomarker discovery for hepatocellular carcinoma

Table 1 Gene sets associated to postoperative survival time with DEG expression profile (validated in [GEO:GSE14520]).

Gene set	Enriched with DEG group	DEG Count	DEG	Profile*
chr1q32	C/N_up	9	BATF3, C1orf106, CENPF, MDM4, NEK2, RABIF, TLR5, TRAF5, UBE2T	C
KAUFFMANN_MELANOMA_RELAPSE_UP	C/N_up	12	CENPF, CHEK1, CHEK2, FANCD2, GINS2, MCM6, MSH2, RAD54L, RFC4, RRM2, SMC2, TOP2A	C
PETROVA_PROX1_TARGETS_UP	C/N_up & C/P_up	5	BUB1B, CCNE2, CDK1, MCM6, TOP2A	C & C/P
BROWNE_HCMV_INFECTION_2HR_UP	P/N_up	4	EGR1, FOS, NR4A2, NR4A3	P/N
ENK_UV_RESPONSE_EPIDERMIS_DN	P/N_up	10	AREG, CH25H, EGR1, EGR2, FJX1, GSN, LXN, NR4A2, PTGS2, STK17B	P/N
GSE9988_LOW_LPS_VS_CTRL_TREATED_MONOCYTE_UP	P/N_up	8	AREG, EGR1, IL6, NR4A2, NR4A3, PTGS2, RGS1, SERPINB8	P/N
MODULE_43	C/N_down	17	ACADL, ACADSB, CAT, CYP1A1, CYP26A1, CYP2C8, CYP3A4, CYP3A7, CYP4A11, DAO, ETFDH, FMO3, GYS2, LEPR, PPP1R1A, QDPR, TREH	C
MODULE_99	C/N_down	17	ABAT, AFM, BBOX1, BCHE, CRHBP, F11, FETUB, IGF1, LEPR, LIFR, MARCO, NAT2, OTC, PCK1, SLC10A1, SLC22A1, UGT8	C/N
PKCA_DN.V1_UP	C/N_down	17	ADRA1A, BBOX1, CYP2C18, CYP2C8, DIO1, FBP1, LECT2, NR1I3, PCK1, PIPOX, PRODH2, RDH16, RDH5, SEC14L2, SLC2A2, TREH, UPB1	C

*"Profile": the expression profile used for prognosis; "C" means the absolute expression value of genes in cancer; while "C/P" and "P/N" mean the relative gene expression level of cancer/pericancerous liver and pericancerous/normal liver respectively.

ISSN: 1471-2164