Alzheimer's Disease Genes Are Associated with Measures of Cognitive Ageing in the Lothian Birth Cohorts of 1921 and 1936

Table 2

Significant haplotype results.

Gene	dbSNP ID (rs)	Haplotype	Cohort	Sample	𝑁	Frequency	Cognitive phenotype	Beta	𝑟^2	P	max(T)
BIN1	3768857/17014873/2276575	GAG	LBC1936	Overall	941	0.13	GCA11	−0.24	0.012	.00048*	0.21
		GAG	LBC1921	Overall	453	0.13	GCA11	−0.11	0.0031	.24
		GAG	Both	Overall	1394	0.13	GCA11	−0.19	0.0091	.00036	0.14
	17014873/2276575/13430599	AGT	LBC1936	Overall	941	0.13	GCA11	−0.24	0.014	.0003*	0.16
		AGT	LBC1921	Overall	453	0.13	GCA11	−0.12	0.003	.23
		AGT	Both	Overall	1394	0.13	GCA11	−0.2	0.0096	.00025	0.1
APP	2829997/440666/2014146	GTG	LBC1936	APOEε4 positive	287	0.013	LM	−1.3	0.043	.0004*	0.18
		GTG	LBC1921	APOEε4 positive	134	0.011	LM	−0.051	0.00004	.94
		GTG	Both	APOEε4 positive	421	0.012	LM	−1	0.023	.0017	0.49
APP	1783025/380417/1787438	TTG	LBC1936	APOEε4 positive	287	0.053	LM	0.72	0.048	.00017*	0.072
		TTG	LBC1921	APOEε4 positive	134	0.053	LM	0.042	0.00016	.88
		TTG	Both	APOEε4 positive	421	0.053	LM	0.516	0.024	.0014	0.43
TRAPPC6A	7247764/28555639/12460041	TTT	LBC1936	APOEε4 negative	669	0.7	MR	−0.21	0.018	.00043*	0.24
		TTT	LBC1921	APOEε4 negative	369	0.71	MR	−0.18	0.013	.024**
		TTT	Both	APOEε4 negative	1039	0.7	MR	−0.2	0.016	.000036	0.019***

A result is significant with the LBC1936 cohort if 𝑃≤.00056 (*) and with the LBC1921 cohort if 𝑃≤.05 (**). A result is significant postpermutation analysis if 𝑃≤.05 (***). The following abbreviations are used: 𝑁, sample number; Beta, regression coefficient of the trait value; 𝑟², proportion of the variance explained; GCA11, general cognitive ability at age 11 (MHT adjusted for age); LM, logical memory; MR, matrix reasoning. max(T) 𝑃 value is controlled for all SNPs tested.