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. Author manuscript; available in PMC: 2016 Apr 1.
Published in final edited form as: Neurobiol Aging. 2015 Jan 6;36(4):1765.e7–1765.e16. doi: 10.1016/j.neurobiolaging.2014.12.028

Table 1.

Single-SNP based association of the AD loci with MRI markers of brain aging

Index
SNPa 		Proxy Closest
gene		 Chr:positionb Distance
from
Genec 		Intra-Cranial Volume
(in cm3)		 Total Brain Volume
(in % ICV)		 Hippocampal Volume
(in cm3)		 WMH burdend Brain Infarcts (yes/no)
β SE p β SE p β SE p Z-
statistics		 p β SE p
rs2075650 APOE 19:45395619 13.39kb 4.405 2.605 0.091 −0.1 0.072 0.168 −0.042 0.015 0.0054 1.089 0.276 −0.081 0.062 0.195
rs9331896 rs2279590 CLU 8:27467686 wg −3.112 1.795 0.083 −0.104 0.051 0.04 −0.009 0.011 0.416 −1.546 0.122 −0.012 0.043 0.771
rs10792832 PICALM 11:85867875 86.95kb 0.763 1.681 0.65 0.064 0.047 0.18 −0.001 0.01 0.863 1.243 0.214 0.003 0.04 0.932
rs6656401 CR1 1:207692049 wg −2.834 2.19 0.196 0.023 0.061 0.713 0.016 0.013 0.211 0.375 0.708 −0.069 0.054 0.197
rs6733839 rs744373 BIN1 2:127892810 27.91kb −1.943 1.862 0.297 −0.07 0.052 0.183 −0.024 0.011 0.027 −0.168 0.867 0.079 0.043 0.064
rs4147929 rs3752246 ABCA7 19:1063443 wg 0.103 2.342 0.965 −0.018 0.065 0.786 −0.017 0.014 0.226 NA NA 0.017 0.058 0.773
rs983392 rs11230161 MS4A6A 11:59923508 15.57kb −3.093 1.675 0.065 −0.059 0.047 0.214 −0.023 0.01 0.021 −1.42 0.156 −0.012 0.043 0.782
rs10948363 CD2AP 6:47487762 wg 1.537 1.845 0.405 −0.017 0.052 0.742 0.003 0.011 0.87 1.089 0.276 −0.035 0.044 0.433
rs11771145 EPHA1 7:143110762 4.78kb 3.353 1.901 0.078 −0.026 0.053 0.625 0.003 0.011 0.912 NA NA −0.023 0.042 0.592
rs3865444 CD33 19:51727962 0.36kb −5.209 1.886 0.0058 0.025 0.053 0.638 −0.019 0.011 0.087 −0.362 0.717 −0.088 0.045 0.048
rs9271192 HLA-DRB1e 6:32578530 20.92kb NA NA NA NA NA NA NA NA NA NA NA NA NA NA
rs28834970 rs2322599 PTK2B 8:27195121 wg 3.675 1.67 0.028 −0.006 0.047 0.898 −0.003 0.01 0.762 −0.824 0.41 −0.006 0.04 0.89
rs11218343 rs7939826 SORL1 11:121435587 wg 4.525 6.239 0.468 −0.165 0.174 0.341 0.011 0.037 0.768 NA NA 0.316 0.155 0.041
rs10498633 SLC24A4 14:92926952 wg −2.052 2.042 0.315 0.01 0.057 0.858 −0.012 0.012 0.329 0.363 0.717 0.049 0.048 0.304
rs35349669 rs7607736 INPP5D 2:234068476 wg −3.625 1.723 0.035 −0.063 0.048 0.196 −0.01 0.01 0.313 0.856 0.392 −0.003 0.041 0.935
rs190982 MEF2C 5:88223420 23.50kb −1.611 1.918 0.401 0.034 0.054 0.525 0.005 0.011 0.687 0.545 0.586 0.046 0.044 0.3
rs2718058 rs12155159 NME8 7:37841534 46.67kb 2.168 1.762 0.218 0 0.05 0.994 0.012 0.01 0.271 −0.438 0.662 0.027 0.042 0.523
rs1476679 ZCWPW1 7:100004446 wg −0.22 1.8 0.903 −0.017 0.051 0.738 −0.01 0.011 0.36 −0.053 0.958 −0.014 0.044 0.754
rs10838725 rs10838726 CELF1 11:47557871 wg −0.433 1.795 0.809 0.085 0.05 0.092 0 0.011 0.992 −1.012 0.312 −0.068 0.043 0.115
rs17125944 FERMT2 14:53400629 wg 0.465 2.767 0.867 −0.025 0.078 0.744 0.015 0.016 0.347 −0.574 0.566 0.069 0.071 0.332
rs7274581 rs927174 CASS4 20:55018260 wg −0.435 2.956 0.883 −0.119 0.083 0.152 −0.014 0.017 0.421 0.055 0.956 0.084 0.07 0.228

Key: β, beta (meta-analysis effect estimate) per allele increase of the risk allele; Z-statistic, meta-analysis of Z-statistics (beta/SE) from each study, weighted by effective sample size (product of the sample size and the ratio of the empirically observed dosage variance to the expected binomial dosage variance for imputed SNPs); WMH, white matter hyperintensities; SE, standard error

a

Index SNP was defined as the SNP with the lowest p at the locus.

b

Chr:position has been provided for the index SNP as per NCBI build 37 (GRCh37.p10).

c

Distance from gene start or end (whichever is shortest) is provided in kilo bases (kb) and if within gene, wg notation used.

d

expressed in cm3 or on a semi-quantitative 10-point scale in the original study.

e

Neither the index SNP nor any SNP in LD with index SNP is available in the HapMap based imputed data meta-analysis results p<0.0025 (α=0.05/20) was considered significant after correcting for number of independent loci tested