Table 2.
Priority DMRs Based on High Correlation with Bone.
| Nearest Gene | Chr. | Start Position | End Position | Number of Probes | DMR Nominal p Value | DMR FDR p Value | Maximum Bone Correlation | FDR Adj. p Value for Maximum Bone Correlation | Percent Strongly Positively Correlated Probes Across DMR |
|---|---|---|---|---|---|---|---|---|---|
| Discordant DMR Analysis | |||||||||
| WNT10A | chr2 | 219,744,145 | 219,745,748 | 9 | 2.17 × 10−5 | 0.0113 | 0.83 | 0.0307 | 33.3% |
| CRISP2 | chr6 | 49,681,178 | 49,681,774 | 11 | 2.19 × 10−5 | 0.0113 | 0.89 | 0.0128 | 100.0% |
| RBPJL | chr20 | 43,934,854 | 43,935,551 | 12 | 2.20 × 10−5 | 0.0113 | 0.72 | 0.1048 | 66.7% |
| KDM2B | chr12 | 122,018,574 | 122,020,205 | 14 | 2.21 × 10−5 | 0.0113 | 0.83 | 0.0336 | 50.0% |
| IL27 | chr16 | 28,518,114 | 28,519,597 | 9 | 4.34 × 10−5 | 0.0156 | 0.75 | 0.0844 | 33.3% |
| CA14 | chr1 | 150,229,143 | 150,230,345 | 9 | 6.51 × 10−5 | 0.0196 | 0.78 | 0.0585 | 33.3% |
| C9orf47 | chr9 | 91,604,473 | 91,606,140 | 12 | 2.64 × 10−4 | 0.0318 | 0.79 | 0.0518 | 18.2% |
| STAB1 | chr3 | 52,528,714 | 52,529,393 | 8 | 3.04 × 10−4 | 0.0329 | 0.79 | 0.0534 | 12.5% |
| ACY3 | chr11 | 67,415,183 | 67,418,365 | 8 | 3.26 × 10−4 | 0.0329 | 0.72 | 0.1045 | 62.5% |
| MPG | chr16 | 125,896 | 128,009 | 11 | 3.29 × 10−4 | 0.0329 | 0.82 | 0.0368 | 10.0% |
| ESM1 | chr5 | 54,281,198 | 54,282,459 | 13 | 3.97 × 10−4 | 0.0360 | 0.79 | 0.0526 | 61.5% |
| TMEM219 | chr16 | 29,972,752 | 29,974,294 | 6 | 5.57 × 10−4 | 0.0431 | 0.77 | 0.0667 | 66.7% |
| CREBBP | chr16 | 3,930,112 | 3,931,489 | 5 | 6.16 × 10−4 | 0.0457 | 0.76 | 0.0725 | 80.0% |
| Severity DMR Analysis | |||||||||
| GANC | chr15 | 42,565,522 | 42,566,390 | 7 | 3.38 × 10−4 | 0.0357 | 0.88 | 0.0153 | 28.6% |
| NME3 | chr16 | 1,821,559 | 1,822,346 | 8 | 3.59 × 10−4 | 0.0366 | 0.76 | 0.0729 | 37.5% |
| SLC6A5 | chr11 | 20,619,598 | 20,621,109 | 8 | 3.59 × 10−4 | 0.0366 | 0.80 | 0.0489 | 28.6% |
| RAB22A | chr20 | 56,883,532 | 56,885,003 | 8 | 4.38 × 10−4 | 0.0391 | 0.78 | 0.0594 | 25.0% |
| ACTN4 | chr19 | 39,137,911 | 39,138,334 | 7 | 4.89 × 10−4 | 0.0407 | 0.84 | 0.0298 | 33.3% |
| NPY | chr7 | 24,322,873 | 24,324,570 | 8 | 5.58 × 10−4 | 0.0421 | 0.84 | 0.0276 | 37.5% |
| RAB38 | chr11 | 87,908,558 | 87,909,729 | 9 | 6.33 × 10−4 | 0.045 | 0.73 | 0.0995 | 44.4% |
| COPB1 | chr11 | 14,521,639 | 14,522,617 | 6 | 7.79 × 10−4 | 0.0495 | 0.88 | 0.0149 | 50.0% |
Maximum Bone Correlation = maximum correlation coefficient representing strength of correlation between blood and bone CpG sites across all sites included in the DMR (from Ebrahimi et al.), FDR p Value for Maximum Bone Correlation = FDR adjusted p value for maximum correlation coefficient across all sites included in the DMR (from Ebrahimi et al.)., Percent Strongly Correlated Probes Across DMR = Percentage of probes across the entire region where the correlation coefficient representing strength of correlation between blood and bone CpG sites is greater than 75th percentile among all probes tested in Ebrahimi et al.