Table 6.

Independent confirmation of the association of haplotypes formed by SNPs 22–25 in three additional series from the Mayo Clinic ²⁷,²⁸. The North European Caucasians and the American Caucasians of mixed ancestry in the Mayo datasets have slightly different allele frequencies and haplotype structures. Nevertheless, the CTT haplotype at SNP 23–25, and the overlapping TTC haplotype at SNPs 23–25 (highlighted in black) show increased risk for AD, and are the same haplotypes that show increased risk for AD in North European Caucasians (highlighted in black in Table 4). Haplotypes associated with reduced risk of AD are highlighted in light grey, these are different from the protective haplotypes in the North European datasets, suggesting the potential existence of several protective alleles in this region.

SNP						JS series					RS series					AUT series					Combined Mayo series					Combined Caucasian datasets
SNP#	HAP	Control frequency	Cases frequency	Z Score	Hap p-value	Global sim p	Control frequency	Cases frequency	Z Score	Hap p-value	Global sim p	Control frequency	Cases frequency	Z Score	Hap p-value	Global sim p	Control frequency	Cases frequency	Z Score	Hap p-value	Global sim p	Control frequency	Cases frequency	Z Score	Hap p-value	Global sim p
22	23	24	C	T	T	0.235	0.285	2.641	0.0083	0.015	0.279	0.296	0.926	0.354	0.220	0.248	0.271	1.051	0.293	0.435	0.263	0.284	1.964	0.050	0.332	0.658	0.635	−2.101	0.036	0.0051
22	23	24	T	A	C	0.690	0.644	−2.248	0.025		0.641	0.624	−0.920	0.358		0.666	0.628	−1.566	0.117		0.657	0.633	−2.063	0.039		0.247	0.270	2.258	0.024
22	23	24	C	A	C	0.039	0.034	−0.732	0.464		0.041	0.036	−0.644	0.520		0.038	0.050	1.146	0.252		0.040	0.039	−0.178	0.859		0.042	0.043	0.005	0.996
22	23	24	C	T	C	0.021	0.019	−0.390	0.697		0.022	0.026	0.745	0.456		0.028	0.022	−0.731	0.465		0.023	0.022	−0.171	0.864		0.022	0.022	0.004	0.997
22	23	24	T	T	T	0.008	0.017	1.708	0.088		0.014	0.010	−0.926	0.354		0.015	0.018	0.627	0.530		0.013	0.015	0.846	0.397		0.013	0.017	1.538	0.124
22	23	24	C	A	T	*	*	*	*		*	*	*	*		*	*	*	*		*	*	*	*		0.017	0.010	−2.315	0.0206
23	24	25	T	T	C	0.242	0.300	2.959	0.0031	0.0070	0.293	0.305	0.681	0.496	0.386	0.263	0.288	1.115	0.265	0.432	0.275	0.298	2.039	0.041	0.099	0.663	0.636	−2.443	0.015	0.017
23	24	25	A	C	T	0.700	0.631	−3.261	0.0011		0.646	0.629	−0.913	0.362		0.668	0.633	−1.445	0.148		0.662	0.631	−2.670	0.0076		0.259	0.285	2.504	0.0123
23	24	25	A	C	C	0.029	0.046	1.911	0.056		0.036	0.031	−0.752	0.452		0.036	0.046	0.936	0.349		0.035	0.041	1.361	0.174		0.037	0.042	0.873	0.383
23	24	25	T	C	C	0.022	0.017	−0.767	0.443		0.019	0.026	1.121	0.262		0.022	0.021	−0.208	0.835		0.020	0.021	0.118	0.906		0.019	0.020	0.341	0.733
23	24	25	A	T	C	*	*	*	*		*	*	*	*		*	*	*	*		*	*	*	*		0.017	0.011	−2.208	0.027