Knowledge-based analyses reveal new candidate genes associated with risk of hepatitis B virus related hepatocellular carcinoma

Table 1 The top 5 genes according to gene-based p-values by GATES and ECS, respectively

Gene	CHR	Type	#SNP	GATES		ECS
Gene	CHR	Type	#SNP	Nominal p	Corrected p^a	Nominal p	Corrected p^a
*SLC39A8*	4	protein-coding gene	222	1.63E-06	0.04138	0.22495	0.83656
*GOLGA8M*	15	protein-coding gene	11	3.19E-06	0.04138	1.57E-05	0.20422
*SMIM31*	4	protein-coding gene	300	6.43E-06	0.05560	0.00424	0.52238
*WHAMMP2*	15	pseudogene	14	9.03E-06	0.05858	0.00031	0.32182
*CLDN5*	22	protein-coding gene	22	2.76E-05	0.12596	0.01665	0.62074
*RNF157-AS1*	17	non-coding RNA	20	3.84E-05	0.12655	7.50E-06	0.19448
*LRRC9*	14	other	348	0.00249	0.62765	4.46E-05	0.32182
*LINC02062*	5	non-coding RNA	150	0.02402	0.69927	0.00007	0.32182
*TTL*	2	protein-coding gene	101	0.01254	0.65610	7.64E-05	0.32182

Note. CHR: chromosome
^a The p-values are corrected by the Benjamini-Hochberg FDR approach. SLC39A8, GOLGA8M, SMIM31, WHAMMP2 and CLDN5 are the top five genes according to GATES. RNF157-AS1, GOLGA8M, LRRC9, LINC02062 and TTL are the top five genes according to ECS

ISSN: 1471-2407