Table 4.
Haplotype-based association of FAM3C gene locus with BMD
| Window name | Haplotypes |
|||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rs4727922 | rs2707461 | rs1803389 | rs2536165 | rs2536163 | rs2707479 | rs1990446 | rs2707496 | rs12706341 | rs718766 | rs7792993 | rs7776725 | |
| WIN1 | T | C | A | T | G | T | T | C | C | C | A | C |
| T | C | A | T | G | T | T | C | C | T | A | T | |
| C | T | T | C | A | C | C | T | T | T | C | T | |
| WIN2 | T | C | A | T | G | T | T | C | C | – | – | – |
| C | T | T | C | A | C | C | T | T | – | – | – | |
| WIN3 | – | – | – | – | – | – | – | – | – | C | A | C |
| – | – | – | – | – | – | – | – | – | T | A | T | |
| – | – | – | – | – | – | – | – | – | T | C | T | |
| WIN4 | – | – | – | – | – | – | – | – | – | C | – | C |
| – | – | – | – | – | – | – | – | – | T | – | T | |
| – | – | – | – | – | – | – | – | – | T | – | T | |
| WIN5 | – | – | – | – | – | – | – | – | – | C | – | C |
| – | – | – | – | – | – | – | – | – | T | – | T | |
| Window name | Haplotypes |
Hap. frequency | Hip BMD |
Spine BMD |
UD BMD |
WB BMD |
||||
|---|---|---|---|---|---|---|---|---|---|---|
| rs7793554 | BETA | p Value | BETA | p Value | BETA | p Value | BETA | p Value | ||
| WIN1 | C | 0.264 | 0.016 | 2.83×10−5 | 0.014 | 1.35×10−3 | 0.015 | 1.12×10−15 | 0.017 | 1.70×10−8 |
| T | 0.532 | −0.014 | 4.17×10−5 | −0.007 | 0.065 | −0.009 | 4.99×10−8 | −0.014 | 2.25×10−7 | |
| C | 0.151 | −0.002 | 0.571 | −0.007 | 0.245 | −0.008 | 3.54×10−4 | −0.002 | 0.582 | |
| WIN2 | – | 0.808 | −0.001 | 0.883 | 0.007 | 0.157 | 0.005 | 0.012 | 0.000 | 0.950 |
| – | 0.160 | −0.003 | 0.563 | −0.008 | 0.125 | −0.008 | 8.14×10−4 | −0.002 | 0.527 | |
| WIN3 | C | 0.266 | 0.016 | 2.24×10−5 | 0.014 | 2.20×10−3 | 0.015 | 7.76×10−16 | 0.017 | 2.09×10−8 |
| T | 0.534 | −0.013 | 1.65×10−4 | −0.007 | 0.093 | −0.009 | 5.26×10−8 | −0.014 | 4.07×10−7 | |
| C | 0.177 | −0.002 | 0.680 | −0.007 | 0.198 | −0.006 | 3.33×10−3 | −0.001 | 0.805 | |
| WIN4 | C | 0.266 | 0.016 | 2.33×10−5 | 0.014 | 2.30×10−3 | 0.015 | 7.99×10−16 | 0.017 | 2.20×10−8 |
| T | 0.543 | −0.012 | 3.65×10−4 | −0.006 | 0.124 | −0.008 | 1.37×10−7 | −0.013 | 9.35×10−7 | |
| C | 0.179 | −0.002 | 0.646 | −0.007 | 0.195 | −0.006 | 6.04×10−3 | −0.001 | 0.841 | |
| WIN5 | – | 0.266 | 0.017 | 1.77×10−5 | 0.014 | 1.83×10−3 | 0.015 | 9.36×10−16 | 0.017 | 1.21×10−8 |
| – | 0.721 | −0.016 | 1.41×10−5 | −0.012 | 4.84×10−3 | −0.015 | 4.50×10−16 | −0.017 | 1.35×10−8 | |
Boldface SNPs (rs4727922, rs1803389, rs718766, rs7776725 and rs7793554) are those identified to be associated with at least one BMD trait BETA regression coefficient