Table 1.

Association of marker d19s876 and −219/+113/APOE haplotype with MS

Allele	Allele	Transmit	Transmit	Transmit
	Frequencya	(1df) p-value	(1df) p-value	(1df) p-value
	(n=733 families)	Dataset-1 (n=418 families)	Dataset-2 (n=315 families)	Pooled (n=733 families)
A) Family-based association analysis of marker D19S867
1	0.006	na	na	na
2	0.010	na	na	0.69
3	0.034	0.85	0.77	0.91
4	0.112	0.84	0.06b	0.32
5	0.236	0.007b	0.86	0.05b
6	0.331	0.24	0.67	0.31
7	0.219	0.27	0.39	0.12
8	0.014	0.48	0.82	0.54
11	0.035	0.96	0.34	0.51
		Global p=0.43 (12df)	Global p=0.57 (10df)	Global p=0.45 (12df)

B) Family-based association analysis of APOE haplotypes
Haplotype	Haplotype frequency1	Transmit	Transmit	Transmit
	(n=753 families)	(1df) p-value	(1df) p-value	(1df) p-value
		Dataset-1 (n=440 families)	Dataset-2 (n=317 families)	Pooled (n=753 families)
G-G-ε2	0.053	0.07c	0.78c	0.11c
G-C-ε2	0.001	na	na	na
G-G-ε3	0.474	0.58	0.86	0.74
T-G-ε3	0.008	na	na	na
G-C-ε3	0.004	na	na	na
T-C-ε3	0.280	0.007b	0.30b	0.22b
G-G-ε4	0.032	0.21	0.51	0.13
T-G-ε4	0.149	0.11	0.55	0.37
		Global p=0.03 (7df)	Global p=0.64 (9df)	Global p=0.08 (9df)

C) Case-control association analysis of APOE haplotypes
Haplotype	MS patients %	Controls %
	(n=737d)	(n=1156)
G-G-ε2	0.059	0.062
G-C-ε2	0	0
G-G-ε3	0.478	0.447
T-G-ε3	0.006	0.004
G-C-ε3	0.005	0.003
T-C-ε3	0.271	0.295
G-G-ε4	0.022	0.022
T-G-ε4	0.157	0.161
		Global p=0.16 (8df)

^aThe haplotype frequency estimate in parental chromosomes.

^bUnder-transmission.

^cOver-transmission.

^dOnly patients with 100% complete genotype information were included.