Table 2.

Structural and Functional Brain Aging (MRI and Cognitive Testing) Phenotypes† for FHS 100K Project: Results of Association and Linkage Analyses

2, section a: GEE, Top 25 p-values
Phenotype	SNP	Chromosome	Physical location	GEE p-value	FBAT p-value	Gene Region (within 60 kb)
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
2, section b: FBAT, Top 25 p-values
Trait	SNP	Chromosome	Physical location	GEE p-value	FBAT p-value	Gene Region(s) (within 60 kb)
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
2, section c: Linkage Peaks with LOD scores ≥ 2.0.
Trait	SNP closest to linkage peak	Chromosome	Physical location	1.5 – LOD support interval start	1.5 – LOD support interval end	LOD score
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