Table 3.

p-values of all the methods at six SNPs in cross-sectional XWAS.^a

SNP	Trait	ADNI cohort	QMVXcat	QMVZmax	QXcat	QZmax	Tchenw	Tplinkw	wM3VNA3.3
rs5927116	FS entorhinal	GO/2	1.35 × 10−5	2.04 × 10−5	1.74 × 10 −6	2.71 × 10−6	2.28 × 10−5	1.18 × 10−4	5.20 × 10−1
rs4596772	FS MidTemp	1	1.39 × 10−5	1.07 × 10−5	9.94 × 10 −7	7.75 × 10 −7	2.28 × 10−5	4.38 × 10−5	9.37 × 10−1
rs5929538	FDG PETc	1	2.39 × 10−4	1.15 × 10−1	6.05 × 10−5	7.34 × 10−2	2.28 × 10 −6	1.06 × 10−3	3.34 × 10−1
rs2213488b	FS Hippocampus	GO/2	1.30 × 10 −6	7.23 × 10 −7	3.70 × 10−4	1.99 × 10−4	8.20 × 10−4	2.39 × 10−4	2.02 × 10−4
rs5920524	FDG PETc	GO/2	1.72 × 10 −6	6.06 × 10−6	5.57 × 10 −7	2.12 × 10−6	5.97 × 10 −7	3.82 × 10−6	1.81 × 10−1
rs5945306	FAQc	1/GO/2	1.82 × 10 −6	9.42 × 10−5	7.67 × 10 −7	5.29 × 10−5	9.22 × 10 −8	4.17 × 10−6	1.39 × 10−1

^aThe p-values less than the significance level of 2.54 ×10^–6 are highlighted in bold. ^bSNP rs2213488 is an overlapping variant in both ADNI cohorts 1 and GO/2. However, it demonstrates the statistical significance only in the analysis of ADNI cohort GO/2 with 792 subjects, while it is not statistically significant in the analysis of ADNI cohort 1/GO/2 with 1,546 subjects ( $p_{{\mathrm{QMVX}}_{\mathrm{cat}}}=6.16\times {10}^{-5},$ $p_{{\mathrm{QMVZ}}_{\max }}=1.13\times {10}^{-4},$ $p_{\mathrm{QXcat}}=5.06\times {10}^{-4},$ $p_{{\mathrm{QZ}}_{\max }}=9.77\times {10}^{-4},$ $p_{{\mathrm{T}}_{\mathrm{chenw}}}=7.86\times {10}^{-4},$ $p_{{\mathrm{T}}_{\mathrm{plinkw}}}=3.56\times {10}^{-4}$ and $p_{\mathrm{wM}3\mathrm{VNA}3.3}=9.17\times {10}^{-3}$ ). ^cFDG PET and FAQ are transformed using the rank-based inverse normal transformation.