PCA-based bootstrap confidence interval tests for gene-disease association involving multiple SNPs

BMC Genomic Data

Table 3 PCA-BCIT, PCA-LRT and permutation test on real data

Study	Strategy†	99%CI	95%CI	P-value‡
				PCA-LRT	Permutation test
PTPN22	2	(-5.4E-01,-4.7E-03)** (-7.5E-16,6.9E-16)	(-4.8E-01,-8.6E-02)* (-4.6E-16,4.2E-16)	0.006**	0.002**
	3	(1.7E-02,3.3E-01)** (-2.5E-01,-1.3E-02)	(4.9E-02,3.0E-01)* (-2.2E-01,-3.7E-02)	0.007**	0.002**
OPRM1	2	(-1.2E+00,-1.1E-02)** (-4.7E-16,5.0E-16)	(-1.1E+00,-1.8E-01)* (-3.7E-16,3.4E-16)	0.107	0.002**
	3	(5.3E-02,1.4E+00)** (-4.9E-01,-1.7E-02)	(2.4E-01,1.2E+00)* (-4.2E-01,-8.0E-02)	0.012*	0.004**

† 2 control-only extracting strategy (COES), 3 case-control extracting strategy (CES)
‡* significant at levels α = 0.05(*) and α = 0.01 (**).

ISSN: 2730-6844