Table 3.
Results of association analysis with femoral neck BMD
| SNP | Chr | Position (bp)a | Geneb | Minor allele | EA women
|
AA women
|
|||
|---|---|---|---|---|---|---|---|---|---|
| MAFc | P value | Effectd | MAFc | P value | |||||
| rs11914434 | 3 | 195,157,275 | · | T | 0.08 | 7.0E-07 | − | 0.11 | 0.84 |
| rs3805941 | 6 | 43,165,559 | CUL7/MRPL2/KLC4/PTK7 | C | 0.37 | 2.1E-06 | + | 0.41 | 0.40 |
| rs9827714 | 3 | 128,383,182 | LOC729455/C3orf56 | C | 0.47 | 6.9E-06 | − | 0.43 | 0.65 |
| rs1826601 | 16 | 76,059,687 | ADAMTS18 | T | 0.43 | 1.0E-05 | + | 0.34 | 0.25 |
| rs6459375 | 6 | 14,849,285 | · | G | 0.10 | 1.1E-05 | − | 0.29 | 0.74 |
| rs6667721 | 1 | 76,640,441 | ST6GALNAC3 | A | 0.15 | 1.3E-05 | + | 0.03 | 0.70 |
| rs1215494 | 1 | 89,839,394 | LRRC8B/LRRC8C | T | 0.36 | 1.6E-05 | + | 0.38 | 0.57 |
| rs333616 | 8 | 56,963,551 | LYN | C | 0.43 | 1.7E-05 | − | 0.10 | 0.78 |
| rs2327672 | 6 | 136,269,912 | PDE7B | A | 0.14 | 1.8E-05 | + | 0.15 | 0.82 |
| rs2038016 | 6 | 14,845,488 | · | A | 0.10 | 1.9E-05 | − | 0.28 | 1.00 |
| rs4887348 | 15 | 86,372,538 | NTRK3 | G | 0.29 | 2.2E-05 | + | 0.10 | 0.06 |
| rs2627690 | 4 | 88,872,640 | · | T | 0.30 | 2.3E-05 | − | 0.25 | 0.44 |
| rs2152319 | 1 | 177,581,980 | SOAT1/C1orf125 | G | 0.42 | 2.3E-05 | + | 0.46 | 0.73 |
| rs1298989 | 14 | 91,156,466 | CATSPERB | T | 0.25 | 2.7E-05 | + | 0.37 | 0.006e |
| rs1285635 | 14 | 91,158,608 | CATSPERB | A | 0.25 | 3.0E-05 | + | 0.38 | 0.003e |
| rs8090593 | 18 | 69,667,938 | · | G | 0.37 | 3.1E-05 | − | 0.10 | 0.40 |
| rs2472793 | 6 | 14,856,654 | · | T | 0.10 | 3.2E-05 | − | 0.40 | 0.93 |
| rs4651024 | 1 | 177,578,725 | SOAT1/C1orf125 | T | 0.49 | 3.3E-05 | + | 0.40 | 0.85 |
| rs4712240 | 6 | 14,860,852 | · | C | 0.10 | 3.6E-05 | − | 0.21 | 0.32 |
| rs2505780 | 10 | 86,450,149 | LOC648354 | G | 0.45 | 3.6E-05 | − | 0.50 | 0.25 |
| rs1591687 | 9 | 105,219,667 | · | A | 0.04 | 3.6E-05 | + | 0.17 | 0.41 |
| rs4240241 | 4 | 37,443,327 | · | G | 0.04 | 3.6E-05 | − | 0.29 | 0.28 |
| rs13336488 | 16 | 76,197,733 | · | G | 0.05 | 3.7E-05 | + | 0.09 | 0.97 |
| rs6479168 | 9 | 105,217,183 | · | T | 0.04 | 3.78E-05 | + | 0.17 | 0.52 |
| rs11722802 | 4 | 28,332,952 | · | A | 0.25 | 3.9E-05 | + | 0.04 | 0.29 |
| rs6443126 | 3 | 7,826,708 | · | T | 0.49 | 4.0E-05 | − | 0.29 | 0.48 |
| rs2637502 | 5 | 124,792,046 | · | A | 0.49 | 4.0E-05 | + | 0.19 | 0.07 |
| rs9563646 | 13 | 58,232,735 | · | C | 0.33 | 4.1E-05 | + | 0.32 | 0.27 |
| rs11651617 | 17 | 14,351,933 | · | G | 0.21 | 4.3E-05 | − | 0.23 | 0.63 |
| rs2323284 | 17 | 14,350,891 | · | T | 0.21 | 4.3E-05 | − | 0.33 | 0.90 |
| rs2080115 | 17 | 14,345,391 | · | G | 0.19 | 5.2E-05 | − | 0.19 | 0.53 |
| rs7783471 | 7 | 51,958,833 | · | A | 0.07 | 5.3E-05 | + | 0.09 | 0.75 |
| rs1360003 | 9 | 77,473,244 | · | C | 0.25 | 5.3E-05 | − | 0.30 | 0.24 |
| rs489659 | 18 | 7,547,909 | PTPRM | G | 0.17 | 6.2E-05 | + | 0.33 | 0.05 |
| rs772492 | 4 | 90,591,589 | · | T | 0.32 | 6.3E-05 | + | 0.28 | 0.85 |
| rs10223929 | 7 | 48,374,319 | ABCA13 | A | 0.10 | 7.2E-05 | − | 0.03 | 0.42 |
| rs8057501 | 16 | 76,116,178 | · | G | 0.39 | 7.5E-05 | + | 0.40 | 0.88 |
| rs2126650 | 4 | 88,929,611 | IBSP/MEPE | A | 0.28 | 7.7E-05 | − | 0.08 | 0.38 |
| rs1431381 | 18 | 6,802,509 | ARHGAP28 | A | 0.12 | 7.8E-05 | + | 0.03 | 0.46 |
| rs4686162 | 3 | 7,833,150 | · | C | 0.21 | 8.8E-05 | + | 0.06 | 0.02 |
| rs1385320 | 16 | 76,099,924 | · | A | 0.41 | 1.1E-04 | + | 0.39 | 0.69 |
| rs1873873 | 11 | 128,984,385 | LOC731658 | C | 0.48 | 1.1E-04 | + | 0.48 | 0.52 |
| rs6654021 | X | 17,665,929 | NHS/SCML1 | G | 0.01 | NA | NA | 0.49 | 0.77 |
| rs12387240 | X | 143,324,556 | · | A | 0.16 | NA | NA | 0.13 | 0.61 |
| rs2006793 | X | 29,394,774 | IL1RAPL1 | G | 0.49 | NA | NA | 0.10 | 0.61 |
| rs1801412 | X | 114,048,960 | HTR2C | G | 0.04 | NA | NA | 0.01 | 0.32 |
a
Position obtained from build 130;
b
defined as any gene within 25 kb of the SNP. If there is no gene within 25 kb of the SNP, a dot (.) is indicated;
c
minor allele frequency;
d
+, minor allele increases BMD;
e
direction of effect is the same as in the GWAS cohort; bold P value indicates P value less than adjusted replication threshold.