Table 2.
CHARGe European ancestry CAC meta-analysis [22]SNP top hits with nominal significance in the African American CAC meta-analysis
| |
|
|
|
|
EA CHARGE meta-analysis results (n = 9,992) |
AA CAC meta-analysis look-up (n = 5,823) |
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|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| SNP | Chrom | Position | Closest gene | Role† | Coded allele | Coded allele freq | Effect | SE‡ | p‡ | Direction of point estimate for the association § | Coded allele | Coded allele freq | Effect | SE | p | Direction of point estimate for the association § |
| rs3218020 |
9 |
21997872 |
CDKN2A |
|
A |
0.34 |
0.19 |
0.03 |
2.53E-09 |
+ + + + + |
A |
0.15 |
0.15 |
0.05 |
0.002 |
+ + + - + + - - |
| rs1537375 |
9 |
22116071 |
CDKN2B |
|
T |
0.50 |
−0.24 |
0.03 |
5.06E-16 |
- - - - - |
T |
0.33 |
−0.08 |
0.04 |
0.03 |
+ - - - - - - + |
| rs9349379 |
6 |
12903957 |
PHACTR1 |
intron |
A |
0.59 |
−0.21 |
0.03 |
2.65E-11 |
- - - + - |
A |
0.90 |
−0.14 |
0.08 |
0.07 |
- + ? + - - + + |
| rs4977575 |
9 |
22124744 |
CDKN2B |
|
C |
0.52 |
−0.27 |
0.03 |
9.93E-19 |
- - - - - |
C |
0.12 |
−0.09 |
0.05 |
0.08 |
- - - + - - - + |
| rs1333042 |
9 |
22103813 |
CDKN2B |
|
A |
0.51 |
−0.24 |
0.03 |
4.54E-16 |
- - - - - |
A |
0.12 |
−0.09 |
0.05 |
0.09 |
+ - - - + - - - |
| rs10511701 | 9 | 22112599 | CDKN2B | T | 0.49 | −0.24 | 0.03 | 4.48E-16 | - - - - - | T | 0.28 | −0.07 | 0.04 | 0.09 | + - - - + - - + | |
†If no role indicated, then is outside known gene boundaries.
‡SE: Standard error; p: p-value.
§Order of studies: for EA CHARGE: Age, Gene/Environment Susceptibility Study—Reykjavik (AGES), Rotterdam Study-II, Framingham Heart Study, GENOA, Rotterdam Study-I; and for AA CAC: FamHS, JHS, CARDIA, JHS-ARIC, MESA, MESA Family/Air, GeneSTAR, GENOA. GWAS results from each study were completed independently, thus data availability varied by study depending on study specific imputation quality and genotyping quality control for each SNP. Therefore not all studies had results for all SNPs.