Table 3 Combination of FBAT and GEE, for grouped BMD phenotypes*
From: Genome-wide association with bone mass and geometry in the Framingham Heart Study
3a: Combination of FBAT and GEE, for grouped BMD phenotypes in men and women combined | |||||||
|---|---|---|---|---|---|---|---|
Chrom | Physical Position | SNP | Min p-value by GEE | Min p-value by FBAT | % Significant P-values by GEE & FBAT** | Function | Gene symbol |
1 | 177,489,285 | rs7544774 | 3.34 × 10-4 | 7.55 × 10-3 | 67 | intron | XPR1 |
1 | 231,181,475 | rs7554650 | 1.67 × 10-4 | 5.93 × 10-3 | 67 | unknown |  |
2 | 6,719,916 | rs7584788 | 7.55 × 10-3 | 5.19 × 10-4 | 67 | unknown |  |
2 | 15,963,228 | rs2380707 | 1.14 × 10-3 | 5.22 × 10-4 | 67 | unknown |  |
2 | 79,078,098 | rs1261226 | 1.19 × 10-5 | 4.47 × 10-3 | 67 | unknown |  |
4 | 177,742,191 | rs9312601 | 2.22 × 10-3 | 7.03 × 10-4 | 67 | unknown |  |
4 | 181,139,118 | rs10520437 | 5.23 × 10-4 | 7.72 × 10-5 | 100 | unknown |  |
4 | 181,162,903 | rs922028 | 8.45 × 10-4 | 1.53 × 10-5 | 100 | unknown |  |
5 | 26,917,842 | rs1479679 | 1.13 × 10-4 | 2.38 × 10-4 | 67 | intron | CDH9 |
5 | 53,527,854 | rs16882423 | 1.65 × 10-3 | 2.38 × 10-3 | 67 | intron | ARL15 |
7 | 9,739,152 | rs1557978 | 1.73 × 10-4 | 3.97 × 10-4 | 33 | intron |  |
7 | 11,301,740 | rs10486135 | 1.67 × 10-4 | 5.95 × 10-4 | 67 | intron |  |
7 | 18,183,021 | rs10486301 | 1.94 × 10-4 | 9.43 × 10-4 | 67 | unknown |  |
8 | 114,092,330 | rs1156075 | 5.55 × 10-3 | 8.51 × 10-3 | 67 | intron | CSMD3 |
11 | 95,219,586 | rs546809 | 1.41 × 10-3 | 7.10 × 10-5 | 67 | intron | MTMR2 |
12 | 103,526,872 | rs10507180 | 7.18 × 10-4 | 4.16 × 10-3 | 100 | intron | CHST11 |
16 | 76,268,225 | rs8051539 | 2.08 × 10-3 | 5.80 × 10-3 | 67 | unknown |  |
18 | 48,132,968 | rs768207 | 1.94 × 10-3 | 2.99 × 10-3 | 67 | intron | DCC |
19 | 42,607,072 | rs1465434 | 1.51 × 10-3 | 7.17 × 10-4 | 67 | intron | ZNF569 |
21 | 39,078,994 | rs1209926 | 2.51 × 10-4 | 3.21 × 10-5 | 33 | unknown | C21orf24/ETS2 |
3b: Sex-specific results for grouped BMD phenotypes †| |||||||
Chrom | Physical Position | SNP | Sex | Min p-value by GEE ‡ | Min p-value by FBAT ‡ | Function | Gene symbol |
1 | 48,261,693 | rs560004 | Males | 8.91 × 10-4 | 3.48 × 10-3 | unknown |  |
1 | 200,641,877 | rs1935588 | Females | 6.14 × 10-4 | 7.62 × 10-4 | unknown |  |
2 | 125,809,045 | rs1215318 | Males | 1.23 × 10-4 | 2.96 × 10-4 | unknown |  |
4 | 181,162,903 | rs922028 | Females | 1.61 × 10-4 | 6.16 × 10-3 | unknown |  |
5 | 26,917,842 | rs1479679 | Females | 4.36 × 10-5 | 6.96 × 10-3 | intron | CDH9 |
6 | 47,657,085 | rs9296566 | Females | 2.27 × 10-4 | 5.08 × 10-4 | intron | CD2AP |
6 | 83,666,784 | rs9294266 | Males | 5.32 × 10-4 | 2.01 × 10-3 | intron | C6orf157 |
7 | 33,440,554 | rs10486541 | Males | 1.54 × 10-5 | 1.95 × 10-3 | unknown |  |
7 | 35,084,096 | rs10486661 | Females | 9.34 × 10-6 | 9.98 × 10-5 | unknown | TBX20 |
9 | 20,592,188 | rs7867710 | Females | 6.96 × 10-4 | 2.97 × 10-3 | intron | MLLT3 |
9 | 88,679,511 | rs1779308 | Males | 3.09 × 10-3 | 4.94 × 10-3 | unknown |  |
11 | 96,720,041 | rs10501872 | Females | 4.03 × 10-4 | 1.02 × 10-3 | unknown |  |
12 | 20,059,354 | rs10505843 | Females | 2.02 × 10-4 | 7.38 × 10-3 | unknown |  |
13 | 52,997,850 | rs9316628 | Females | 2.51 × 10-3 | 5.22 × 10-4 | unknown |  |
13 | 107,573,163 | rs1223978 | Males | 3.42 × 10-4 | 5.07 × 10-4 | unknown |  |
15 | 55,974,260 | rs10518945 | Females | 6.19 × 10-5 | 6.15 × 10-4 | unknown | ALDH1A2 |
17 | 11,054,857 | rs2024134 | Males | 4.75 × 10-3 | 6.31 × 10-5 | unknown |  |
17 | 53,546,007 | rs181224 | Males | 2.15 × 10-5 | 2.90 × 10-3 | unknown | Dlc2/OR4D1/OR4D2 |
18 | 48,132,968 | rs768207 | Females | 1.35 × 10-4 | 2.57 × 10-4 | intron | DCC |
20 | 18,310,297 | rs2328293 | Females | 7.74 × 10-4 | 4.35 × 10-3 | locus | C20orf12 |