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Structural and Functional Brain Aging (MRI and Cognitive Testing) Phenotypes† for FHS 100K Project: Results of Association and Linkage Analyses |
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| 2, section a: GEE, Top 25 p-values |
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| Phenotype |
SNP |
Chromosome |
Physical location |
GEE p-value |
FBAT p-value |
Gene Region (within 60 kb) |
|
|
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| ATCBV |
rs1970546 |
20 |
59287333 |
4.0 × 10-8 |
0.005 |
CDH4 |
| F3 |
rs2179965* |
1 |
88514033 |
1.1 × 10-6 |
0.013 |
|
| Nam |
rs1155865 |
4 |
67562623 |
1.6 × 10-6 |
0.554 |
|
| F3 |
rs2832077 |
21 |
29062892 |
1.8 × 10-6 |
0.007 |
|
| F2 |
rs2352904 |
14 |
48442551 |
2.1 × 10-6 |
0.012 |
|
| F2 |
rs6914079* |
6 |
14704344 |
2.2 × 10-6 |
0.018 |
|
| F2 |
rs9325032 |
5 |
146395409 |
2.8 × 10-6 |
0.008 |
|
| ALLV |
rs2847476 |
11 |
113696226 |
3.0 × 10-6 |
0.001 |
NNMT |
| Sim |
rs3891355 |
12 |
105453162 |
3.2 × 10-6 |
0.089 |
POLR3B, RFX4 |
| ATBV |
rs5028798 |
11 |
34562011 |
3.3 × 10-6 |
0.394 |
EHF |
| Nam |
rs530965 |
11 |
78742749 |
3.5 × 10-6 |
0.119 |
|
| Nam |
rs9303401 |
17 |
54202944 |
4.9 × 10-6 |
0.099 |
PPM1E |
| AFBV |
rs952700 |
11 |
99090946 |
5.7 × 10-6 |
0.003 |
CNTN5 |
| F3 |
rs1031381 |
11 |
133593892 |
6.0 × 10-6 |
0.075 |
NCAPD3 |
| F2 |
rs10489896* |
1 |
230890353 |
6.2 × 10-6 |
0.109 |
TARBP1 |
| WRAT |
rs9300212 |
12 |
33592433 |
8.2 × 10-6 |
0.002 |
|
| Nam |
rs1831521 |
9 |
90488911 |
8.4 × 10-6 |
0.002 |
DIRAS2 |
| F3 |
rs934299 |
2 |
137172672 |
9.0 × 10-6 |
0.318 |
|
| ALTHBV |
rs360929 |
4 |
153265305 |
9.1 × 10-6 |
0.055 |
|
| F2 |
rs2893363 |
7 |
29952294 |
9.6 × 10-6 |
0.812 |
C7orf41 |
| WRAT |
rs10502991 |
18 |
50243287 |
1.0 × 10-5 |
0.001 |
|
| APBV |
rs2769965 |
9 |
79048598 |
1.1 × 10-5 |
0.012 |
|
| APBV |
rs719435 |
7 |
31324796 |
1.1 × 10-5 |
0.188 |
CCDC129 |
| F1 |
rs9292769 |
5 |
40433668 |
1.1 × 10-5 |
0.163 |
|
| Nam |
rs10506718 |
12 |
75377929 |
1.1 × 10-5 |
0.402 |
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| 2, section b: FBAT, Top 25 p-values |
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| Trait |
SNP |
Chromosome |
Physical location |
GEE p-value |
FBAT p-value |
Gene Region(s) (within 60 kb) |
|
|
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| ALLV |
rs7124781 |
11 |
42513374 |
0.008 |
2.0 × 10-7 |
|
| Sim |
rs1131497 |
11 |
121007955 |
0.008 |
3.2 × 10-6 |
SORL1 |
| WRAT |
rs10506065 |
12 |
30342307 |
0.050 |
5.0 × 10-6 |
|
| AFBV |
rs3852286 |
7 |
140126618 |
0.145 |
6.5 × 10-6 |
BRAF and MRPS33 |
| WRAT |
rs4529807 |
10 |
22358107 |
0.013 |
1.1 × 10-5 |
DNAJC1 |
| F3 |
rs847342 |
14 |
71805791 |
0.441 |
1.3 × 10-5 |
RGS6 |
| AFBV |
rs719775 |
3 |
64366493 |
0.001 |
1.8 × 10-5 |
|
| Sim |
rs936111 |
15 |
99376659 |
0.014 |
2.1 × 10-5 |
LRRK1 |
| ATBV |
rs2143881 |
6 |
50960846 |
0.077 |
2.1 × 10-5 |
TFAP2B |
| AHPV |
rs9293140 |
5 |
24643203 |
0.092 |
2.1 × 10-5 |
CDH10 |
| AFBV |
rs9288446* |
2 |
212907533 |
0.001 |
2.3 × 10-5 |
ERBB4 |
| APBV |
rs1472962 |
4 |
95949555 |
0.004 |
3.1 × 10-5 |
PDLIM5 |
| ATBV |
rs2793772 |
13 |
99029574 |
0.047 |
3.3 × 10-5 |
CLYBL |
| F2 |
rs1333583 |
13 |
82037151 |
0.031 |
3.4 × 10-5 |
|
| ATBV |
rs10497352 |
2 |
170781278 |
0.005 |
3.6 × 10-5 |
ZNF650 |
| F1 |
rs497836 |
13 |
93605509 |
0.020 |
3.8 × 10-5 |
GPC6 |
| APBV |
rs6459928 |
7 |
158428045 |
0.271 |
4.0 × 10-5 |
VIPR2 |
| AHPV |
rs1963442 |
3 |
75872661 |
0.046 |
4.3 × 10-5 |
ZNF717 |
| APBV |
rs10503238 |
8 |
4027465 |
0.002 |
4.4 × 10-5 |
|
| F2 |
rs2861215 |
2 |
77958447 |
0.006 |
4.7 × 10-5 |
|
| Nam |
rs9311168 |
3 |
37952421 |
0.067 |
4.9 × 10-5 |
CTDSPL |
| F2 |
rs2029395 |
2 |
1.8 × 10-8 |
0.027 |
4.9 × 10-5 |
TTN, FLJ39502 |
| ATCBV |
rs10510717 |
3 |
41307494 |
0.005 |
5.0 × 10-5 |
CTNNB1 |
| ATBV |
rs1433527 |
2 |
1.8 × 10-8 |
0.028 |
5.1 × 10-5 |
DDX18 |
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| 2, section c: Linkage Peaks with LOD scores ≥ 2.0. |
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| Trait |
SNP closest to linkage peak |
Chromosome |
Physical location |
1.5 – LOD support interval start |
1.5 – LOD support interval end |
LOD score |
|
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| WATBV† |
rs1547275 |
9 |
79548023 |
76128637 |
86702472 |
2.81 |
| WF3† |
rs2975420 |
8 |
19534278 |
12651557 |
22836499 |
2.20 |
| WNam† |
rs2765241 |
1 |
62439617 |
59085658 |
67006164 |
2.95 |
| WNam† |
rs293966 |
11 |
26536069 |
21237681 |
33363547 |
2.14 |
| WWRAT† |
rs10512187 |
9 |
87400439 |
84893406 |
110115339 |
2.04 |
| WWRAT† |
rs1328822 |
13 |
93605666 |
87815515 |
97536766 |
2.50 |
| WWRAT† |
rs1846090 |
18 |
14573728 |
13423610 |
19583575 |
5.10 |
| WWRAT† |
rs10518241 |
19 |
3540074 |
1888178 |
6189414 |
2.33 |
| BMRIZLWMHVMV |
rs4426714 |
4 |
5052671 |
105905 |
9505355 |
2.20 |
| BMRIZLWMHVMV |
rs236535 |
17 |
65788911 |
59677087 |
68475624 |
2.09 |
|
Autosomal SNPs with genotypic call rate ≥ 80%, minor allele frequency ≥ 10%, Hardy-Weinberg test p ≥ 0.001, and ≥10 informative families for FBAT. Genes in bold are highlighted in discussion *Indicates a similar result for this trait was observed (but not shown) for a SNP with r2 = 1 to the reported SNP †Winsorized residuals were analyzed, hence trait names are prefixed with a 'W'; linkage results in bold are highlighted in the discussion | ||||||
Seshadri et al. BMC Medical Genetics 2007 8(Suppl 1):S15 doi:10.1186/1471-2350-8-S1-S15 |
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