A comprehensive evaluation of interaction between genetic variants and use of menopausal hormone therapy on mammographic density

Table 2 Ten SNPs with the lowest P values for association with percent mammographic density

SNP	SNP type	Chr	Gene, RefSeq	Feature	Percent density^a			Dense area, cm^2a		Non-dense area, cm^2a
SNP	SNP type	Chr	Gene, RefSeq	Feature	Beta^b (95 % CI)	P	P _adj ^c	Beta^b (95 % CI)	P	Beta^b (95 % CI)	P
rs181042206	Imputed	15	5.2kb 3′ of CYP1A1		−0.10 (−0.16, −0.04)	0.0006	2.51	−0.10 (−0.18, −0.02)	0.01	0.14 (0.05, 0.23)	0.002
rs12258125	Genotyped	10	272kb 5′ of ANKRD30A		0.09 (0.04, 0.14)	0.0008	1.53	0.10 (0.03, 0.17)	0.004	−0.07 (−0.14, 0.00)	0.07
rs11616761	Genotyped	13	CDC16	Intronic	0.14 (0.05, 0.23)	0.0022	2.83	0.18 (0.06, 0.29)	0.004	−0.11 (−0.24, 0.02)	0.09
rs4632572	Genotyped	3	254kb 5′ of ALCAM		0.08 (0.03, 0.14)	0.0027	2.59	0.14 (0.07, 0.21)	0.0002	0.00 (−0.08, 0.08)	0.96
rs11896627	Genotyped	2	241kb 5′ of NCKAP5		−0.08 (−0.13, −0.03)	0.0032	2.49	−0.10 (−0.17, −0.03)	0.003	0.03 (−0.05, 0.10)	0.51
rs2446585	Genotyped	10	FRMD4A	Intronic	−0.07 (−0.12, −0.02)	0.0038	2.46	−0.08 (−0.15, −0.02)	0.01	0.07 (−0.01, 0.14)	0.07
rs273352	Genotyped	18	MAPRE2	Intronic	−0.08 (−0.13, −0.02)	0.0058	3.22	−0.08 (−0.15, −0.01)	0.04	0.10 (0.02, 0.18)	0.01
rs477705	Genotyped	18	MAPRE2	Intronic	−0.08 (−0.13, −0.02)	0.0058	2.82	−0.08 (−0.15, −0.01)	0.03	0.10 (0.02, 0.18)	0.01
rs10776775	Genotyped	1	LOC100287722	Intronic	−0.07 (−0.12, −0.02)	0.0062	2.64	−0.09 (−0.15, −0.02)	0.009	0.01 (−0.06, 0.08)	0.78
rs2057469	Genotyped	9	RAB14	3′-UTR	−0.07 (−0.12, −0.02)	0.0066	2.55	−0.08 (−0.15, −0.01)	0.02	0.08 (0.00, 0.16)	0.04

^aSquare-root-transformed. ^bAdjusted for study, reference age, case status, current use of menopausal hormone therapy (MHT), former use of MHT, body mass index, number of pregnancies and principal components. ^cAdjusted P value, calculated by multiplying P value by number of tests (here n = 3,868) and dividing by assigned rank. SNP single nucleotide polymorphism, Chr chromosome, UTR untranslated region

ISSN: 1465-542X