Risk of gastric cancer is associated with PRKAA1 gene polymorphisms in Koreans

Table 1 Frequencies of PRKAA1 polymorphisms in cases and controls

SNP	Position	Genotype				Case		Control
		case/control				Freq1	HWE2	Freq1	HWE2
rs6882903	40801619	CC	CA	AA	N	0.183	0.034	0.148	0.371
		311/342	156/125	9/8	476/475
rs10074991	40826308	AA	AG	GG	N	0.541	0.573	0.456	0.412
		97/136	242/244	136/94	475/474
rs13361707	40827641	TT	TC	CC	N	0.542	0.632	0.459	0.510
		97/135	241/242	137/96	475/473
rs154268	40831625	TT	TC	CC	N	0.239	0.020	0.188	0.576
		267/311	192/149	18/15	477/475
rs3805486	40831802	TT	TC	CC	N	0.224	0.474	0.296	0.786
		283/233	170/199	21/40	474/472

¹Freq: Allele frequency;

²P value deviation from Hardy-Weinberg Equilibrium (HWE). SNP: Single nucleotide polymorphism.

Table 2 Association between PRKAA1 polymorphisms and gastric cancer

SNP	Dominant model			Recessive model
	OR (95%CI)	Pvalue1	Q2	OR (95%CI)	Pvalue1	Q2
rs6882903	1.48 (1.09-2.00)	0.0121	0.0230	1.21 (0.60-2.46)	0.5906	0.7383
rs10074991	1.53 (1.09-2.16)	0.0139	0.0230	1.47 (1.15-1.88)	0.0021	0.0045
rs13361707	1.51 (1.07-2.11)	0.0184	0.0230	1.13 (0.43-2.92)	0.8085	0.8085
rs154268	1.65 (1.22-2.22)	0.0012	0.0060	1.66 (1.22-2.26)	0.0012	0.0045
rs3805486	0.61 (0.34-1.09)	0.0916	0.0916	0.63 (0.46-0.85)	0.0027	0.0045
VEGAS statistics (P)	30.0356 (0.0054)			56.0515 (0.0001)

Reference alleles of each single nucleotide polymorphism (SNP) in logistic analysis are as follows; CC for rs6882903, AA for rs10074991, and TT for rs13361707, rs154268 and rs3805486.

¹P values for logistic analysis of two alternative models (dominant and recessive) adjusted with calorie intake, smoking history, alcohol intake and educational level; ²False discovery rate Q value.

Table 3 Codominant model odds ratios of the PRKAA1 polymorphisms for gastric cancer

SNPs		Adjusted OR (95%CI)	Pvalue1	Q2
rs6882903	CC	1.00	0.0123	0.0123
	CA	1.46 (1.07-2.00)
	AA	1.75 (0.60-5.08)
rs10074991	AA	1.00	0.0005	0.0023
	AG	1.30 (0.90-1.87)
	GG	2.15 (1.40-3.30)
rs13361707	TT	1.00	0.0009	0.0023
	TC	1.29 (0.90-1.85)
	CC	2.05 (1.35-3.14)
rs154268	TT	1.00	0.0017	0.0028
	TC	1.63 (1.20-2.22)
	CC	1.77 (0.82-3.83)
rs3805486	TT	1.00	0.0099	0.0123
	TC	0.72 (0.40-1.32)
	CC	0.54 (0.30-0.98)
VEGAS statistics (P)		46.0927 (0.0004)

¹P values for logistic analysis of codominant model adjusted with age, sex, calorie intake, smoking history, alcohol intake and educational level; ²False discovery rate Q value. SNP: Single nucleotide polymorphism; VEGAS: Versatile gene-based association study.

Table 4 Association between PRKAA1 haplotypes and gastric cancer

Haplotypes		Codominant			Dominant			Recessive
		OR (95%CI)	Pvalue1	Q2	OR (95%CI)	Pvalue1	Q2	OR (95%CI)	Pvalue1	Q2
PRKAA1	CGCTT	1.57 (0.93-2.65)	0.205	0.980	1.18 (0.92-1.53)	0.195	0.980	1.48 (0.89-2.47)	0.126	1.000
haplotype	CATTT	0.79 (0.46-1.36)	0.574	0.980	1.02 (0.79-1.32)	0.895	0.980	0.77 (0.45-1.32)	0.339	1.000
block 1	CATTC	0.44 (0.25-0.77)	0.002	0.062	0.67 (0.52-0.87)	0.002	0.063	0.50 (0.29-0.87)	0.012	0.346
	CGCCT	1.44 (0.53-3.90)	0.032	0.456	1.45 (1.10-1.92)	0.009	0.124	1.29 (0.48-3.50)	0.614	1.000

¹P values for logistic analysis of three alternative models (codominant, dominant and recessive), the P values for haplotype association were calculated by the single nucleotide polymorphism Analyzer™ 2.0 software; ²False discovery rate Q value.