. Author manuscript; available in PMC: 2009 Feb 4.

Published in final edited form as: Neurogenetics. 2008 Mar 14;9(2):127–138. doi: 10.1007/s10048-008-0122-8

Table 5. Haplotype analysis results: Family and case-control studies.

Results of the haplotype analysis in the North European case-control dataset and Caribbean Hispanic familial dataset with p-value<0.05. Haplotypes in bold were positively associated with AD. ^aGlobal p-values are based on permutation. In the Caribbean Hispanic dataset, SNP 14 was not informative.

1 rs2532501	2 rs2532500	3 rs2008134	4 rs2072373	5 rs7311174	6 rs2072374	7 rs740850	8 rs3741916	9 rs3741918	10 rs1060620	11 rs1060619	12 rs740852	13 rs1639122	14 rs3741924	Haplotype frequency	Z-Score	Haplo-specific empirical p	Global p^a
North European Case-control Dataset
	C	T												0.365	-1.89	0.04500	0.08600
				T	C	G								0.359	-2.24	0.03200	0.08000
					C	G								0.362	-2.33	0.02600	0.08900
						G	G							0.175	-2.54	0.01257	0.01547
					C	G	G							0.174	-2.25	0.02100	0.17800
							G	A						0.049	-2.50	0.01300	0.02500
							C	A						0.794	2.63	0.01000	0.02500
						G	G	A						0.049	-2.47	0.01412	0.00753
						A	G							0.006	1.73	0.03578	0.01547
						A	G	T						0.006	1.87	0.01365	0.00753
							G	A	T					0.050	-2.55	0.01300	0.03700
							C	A	T					0.762	2.00	0.04600	0.03700
											G	C		0.291	-2.25	0.02800	0.07700
											G	A		0.634	1.97	0.05000	0.07700
												C	C	0.013	-2.43	0.00386	0.00617
												A	T	0.707	2.48	0.01620	0.00617
											G	C	C	0.013	-2.43	0.00500	0.02200
											G	A	T	0.632	2.12	0.03400	0.02200
*Caribbean Hispanic Family Dataset*
	C	T												0.397	-2.46	0.01395	0.05340
C	C	T												0.396	-2.29	0.02216	0.05880
	C	T	C											0.249	-2.16	0.03063	0.16380
					C	A								0.409	1.96	0.04953	0.01320
					C	G								0.400	-2.72	0.00650	0.01320
				T	C	A								0.419	1.96	0.04985	0.00740
				T	C	G								0.408	-2.80	0.00504	0.00740
						A	C							0.377	2.06	0.03985	0.01100
						G	G							0.157	-2.37	0.01787	0.01100
					C	A	C							0.377	2.12	0.03406	0.02860
						A	C	A						0.355	2.19	0.02845	0.02060
								A	T					0.728	2.08	0.03719	0.09100
								T	C					0.146	-2.06	0.03948	0.09100
							C	A	T					0.698	2.37	0.01656	0.09340
							G	T	C					0.110	-2.33	0.01968	0.09340
									T	A				0.731	2.16	0.03094	0.02180
									C	A				0.022	-1.98	0.04781	0.02180
								T	C	A				0.015	-1.97	0.04898	0.17501
									C	A	G			0.022	-1.96	0.04722	0.06060
											G	C		0.468	2.07	0.03841	0.18920

Haplotypes with nominal p≤0.05 are shown; SNP 14 uninformative

Global p-values are based on permutation.