htSNP haplotypes | UK PSP | US PSP | US CBD | ||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
ID | rs1467967 | rs242557 | rs3785883 | rs2471738 | del-In9 | rs7521 | Frequency (%) | Association (LRT) | Frequency (%) | Association (LRT) | Frequency (%) | Association (LRT) | |||
Control | PSP | p (p corrected) | Control | PSP | p (p corrected) | Control | CBD | p (p corrected) | |||||||
The above analysis was based on the output of all haplotypes (>90%), but only those with a frequency >2% were tested for association through the likelihood ratio test (LRT). After adjustment of p values, in parentheses, for correction of multiple testing, only haplotypes A and C in both PSP studies remain significant. No haplotype is significantly associated with CBD after correction for multiple testing. | |||||||||||||||
CBD, corticobasal degeneration; PSP, progressive supranuclear palsy. | |||||||||||||||
A | A | G | G | C | H2 | G | 20.7 | 6.3 | 1.46ex-5 (2.77ex-4) | 22.0 | 6.3 | 9.55ex-9 (2.01ex-7) | 22.0 | 8.2 | 0.020 (0.367) |
B | G | G | G | C | H1 | A | 16.5 | 13.9 | 0.378 (1.000) | 12.2 | 15.8 | 0.562 (1.000) | 12.2 | 15.4 | 0.914 (1.000) |
C | A | A | G | T | H1 | G | 11.3 | 24.3 | 0.001 (0.022) | 7.8 | 24.0 | 6.42ex-9 (1.35ex-7) | 7.8 | 17.7 | 0.066 (1.000) |
D | A | A | G | C | H1 | A | 8.9 | 3.7 | 0.110 (1.000) | 4.0 | 7.9 | 0.077 (1.000) | 4.0 | 7.5 | 0.489 (1.000) |
E | A | G | G | C | H1 | A | 6.4 | 8.4 | 0.949 (1.000) | 15.7 | 6.5 | 0.014 (0.294) | 15.7 | 4.6 | 0.148 (1.000) |
F | G | G | A | C | H1 | A | 4.0 | 1.0 | 0.291 (1.000) | 1.4 | 0.0 | … | 1.4 | 4.6 | 0.588 (1.000) |
G | G | A | A | C | H1 | A | 3.9 | 5.1 | 0.691 (1.000) | 2.6 | 3.5 | 0.937 (1.000) | 2.6 | 3.4 | 0.834 (1.000) |
H | A | G | A | C | H1 | A | 2.6 | 6.5 | 0.010 (0.173) | 0.0 | 3.8 | 0.404 (1.000) | 0.0 | 0.0 | … |
I | G | A | G | C | H1 | A | 2.6 | 3.8 | 0.960 (1.000) | 4.4 | 5.2 | 0.376 (1.000) | 4.4 | 3.3 | 0.610 (1.000) |
J | A | G | G | C | H1 | G | 2.4 | 0.0 | 0.033 (0.621) | 0.0 | 3.0 | 0.055 (1.000) | 0.0 | 3.4 | 0.237 (1.000) |
K | A | A | A | C | H1 | G | 2.2 | 0.9 | 0.378 (1.000) | 0.0 | 0.0 | … | 0.0 | 0.0 | … |
L | A | G | A | C | H1 | G | 2.2 | 4.1 | 0.496 (1.000) | 3.8 | 3.4 | 0.338 (1.000) | 3.8 | 0.0 | 0.759 (1.000) |
M | G | A | G | C | H1 | G | 2.0 | 2.6 | 0.744 (1.000) | 3.5 | 3.4 | 0.930 (1.000) | 3.5 | 5.0 | 0.319 (1.000) |
N | G | G | A | C | H1 | G | 0.9 | 3.7 | 0.331 (1.000) | 4.3 | 0.6 | 0.005 (0.105) | 4.3 | 0.0 | 0.018 (0.322) |
O | A | A | A | C | H1 | A | 0.0 | 3.6 | 0.070 (1.000) | 3.4 | 1.3 | 0.350 (1.000) | 3.4 | 5.0 | 0.386 (1.000) |
P | G | G | G | T | H1 | G | 1.2 | 3.4 | 0.509 (1.000) | 0.4 | 1.4 | 0.628 (1.000) | 0.4 | 0.0 | … |
Q | A | A | G | T | H1 | A | 0.7 | 2.8 | 0.040 (0.760) | 0.0 | 1.6 | 0.003 (0.073) | 0.0 | 1.2 | … |
R | A | G | G | T | H1 | G | 0.7 | 2.7 | 0.114 (1.000) | 2.4 | 1.6 | 0.386 (1.000) | 2.4 | 1.5 | 0.493 (1.000) |
S | G | G | G | C | H1 | G | 1.4 | 2.4 | 0.599 (1.000) | 2.6 | 2.0 | 0.920 (1.000) | 2.6 | 0.0 | 0.621 (1.000) |
T | A | G | A | T | H1 | G | 0.3 | 0.0 | … | 1.1 | 0.0 | … | 1.1 | 7.0 | 0.713 (1.000) |
U | A | A | G | C | H1 | G | 1.1 | 0.0 | … | 1.1 | 1.7 | 0.270 (1.000) | 1.1 | 3.5 | 0.170 (1.000) |
v | G | G | A | T | H1 | G | 1.3 | 0.0 | … | 1.9 | 1.0 | 0.207 (1.000) | 1.9 | 2.8 | 0.699 (1.000) |
w | G | G | G | C | H2 | G | 0.0 | 0.0 | … | 0.0 | 0.0 | … | 0.0 | 2.9 | 0.326 (1.000) |
x | G | A | A | T | H1 | G | 0.0 | 0.0 | … | 2.7 | 0.5 | 0.205 (1.000) | 2.7 | 0 | 0.174 (1.000) |