Table 4.
Differentially methylated sites for PM2.5 and NOX with FDR<0.05
| CpG | Chr | Nearest Gene | Distance |
Location Relative to Gene (hg19) |
CD14+ Chromatin State a | DNase HS CD14 + b | TFBS Any Cell c | β (95% CI) | P-value | FDR Cut-Off |
|---|---|---|---|---|---|---|---|---|---|---|
| PM2.5 | ||||||||||
| cg05926640 | 1 | TOMM20 | 181,469 | Downstream | Strong enhancer | Yes | Yes | 0.049 (0.032, 0.067) | 5.6x10−8 | 1.8x10−7 |
| cg04310517 | 16 | KREMEN2 | 3,954 | Upstream | Heterochromatin/low | No | No | 0.052 (0.033, 0.072) | 2.2x10−7 | 3.5x10−7 |
| cg09509909 | 10 | FGFBP3 | 3,489 | Upstream | Heterochromatin/low | Yes | Yes | 0.079 (0.049, 0.110) | 4.6x10−7 | 5.3x10−7 |
| NOX | ||||||||||
| cg11756214 | 19 | ZNF347 | 0 | 5' UTR | Weak promoter | Yes | Yes | 0.078 (0.050, 0.106) | 5.6x10−8 | 1.8x10−7 |
PM2.5, fine particulate matter; NOX, oxides of nitrogen; FDR, false discovery rate; chr, chromosome; DNAse HS, DNase hypersensitivity; TFBS, transcription factor binding site; ENCODE, The Encyclopedia of DNA Elements; CI, confidence interval.
aPrediction based on histone modifications in monocyte samples from the BLUEPRINT (H3K27ac, H3K4me1, H3K4me3) and ENCODE (H3K36me3) projects
bDNase hypersensitivity reported in a CD14+ monocyte sample (ENCODE).
cTFBS reported in any cell type available from the UCSC Genome Browser.