Table 2.
Significant differential methylated sites in placenta and cord blood
| CpG sites | ALL Mean(SD) |
sPTB Mean(SD) |
FT-NBW Mean(SD) |
p-valuea | Association coefficient (SD)b | Chrom-osome | Position | Relation to CpG island | Gene | Region | 450 K Loci |
|---|---|---|---|---|---|---|---|---|---|---|---|
| Placenta | |||||||||||
| cg21093945 | 0.340 (0.05) | 0.352 (0.05) | 0.316 (0.04) | 2.57E-08 | 0.08 (0.03) | chr1 | 56,107,046 | OpenSea | RP11-466 L17.1 | 5’UTR | NO |
| Cord Blood | |||||||||||
| cg03245099 | 0.663 (0.05) | 0.691 (0.03) | 0.607 (0.03) | 5.41E-08 | 0.07 (0.03) | chr1 | 28,201,862 | Shelf | THEMIS2 | Body | NO |
| cg24824128 | 0.658 (0.04) | 0.682 (0.03) | 0.610 (0.03) | 6.90E-09 | 0.07 (0.02) | chr1 | 28,202,085 | Shelf | THEMIS2 | Body | NO |
| cg20217899 | 0.741 (0.03) | 0.726 (0.03) | 0.771 (0.03) | 4.79E-08 | −0.05 (0.02) | chr2 | 218,890,650 | OpenSea | / | / | NO |
| cg18736928 | 0.560 (0.04) | 0.542 (0.04) | 0.597 (0.03) | 6.01E-08 | −0.07 (0.03) | chr2 | 219,303,519 | OpenSea | VIL1 | Body | NO |
| cg23039807 | 0.559 (0.08) | 0.557 (0.08) | 0.562 (0.07) | 8.58E-08 | −0.07 (0.03) | chr2 | 240,425,897 | OpenSea | / | / | YES |
| cg18623216 | 0.648 (0.08) | 0.690 (0.05) | 0.564 (0.03) | 2.73E-08 | 0.10 (0.04) | chr3 | 155,421,970 | OpenSea | PLCH1 | 5’UTR | YES |
| cg26690511 | 0.774 (0.06) | 0.809 (0.04) | 0.703 (0.04) | 2.71E-09 | 0.09 (0.03) | chr3 | 155,422,103 | OpenSea | PLCH1 | TSS200 | YES |
| cg11932158 | 0.755 (0.07) | 0.795 (0.04) | 0.675 (0.04) | 1.63E-09 | 0.11 (0.04) | chr3 | 155,422,129 | OpenSea | PLCH1 | TSS200 | YES |
| cg21262198 | 0.756 (0.06) | 0.791 (0.03) | 0.686 (0.03) | 2.66E-09 | 0.09 (0.03) | chr3 | 155,422,159 | OpenSea | PLCH1 | TSS200 | NO |
| cg13245626 | 0.620 (0.07) | 0.659 (0.05) | 0.543 (0.03) | 6.83E-08 | 0.10 (0.04) | chr4 | 75,558,301 | OpenSea | / | / | NO |
| cg05573014 | 0.081 (0.02) | 0.074 (0.01) | 0.095 (0.01) | 5.16E-10 | −0.03 (0.01) | chr6 | 150,255,468 | OpenSea | RP11-244 K5.4 | TSS200 | NO |
| cg23208717 | 0.651 (0.06) | 0.646 (0.06) | 0.661 (0.05) | 2.75E-08 | −0.06 (0.02) | chr7 | 150,082,688 | OpenSea | ZNF775 | 5’UTR | YES |
| cg25975961 | 0.711 (0.07) | 0.746 (0.05) | 0.641 (0.03) | 6.15E-09 | 0.11 (0.04) | chr7 | 150,600,818 | OpenSea | / | / | NO |
| cg14368221 | 0.233 (0.05) | 0.262 (0.04) | 0.176 (0.02) | 6.61E-08 | 0.08 (0.04) | chr9 | 18,260,702 | OpenSea | / | / | NO |
| cg11387576 | 0.186 (0.06) | 0.219 (0.05) | 0.121 (0.02) | 1.96E-08 | 0.08 (0.04) | chr9 | 18,260,848 | OpenSea | / | / | NO |
| cg06652484 | 0.612 (0.05) | 0.601 (0.05) | 0.635 (0.04) | 7.25E-08 | −0.07 (0.03) | chr9 | 129,242,893 | Shore | FAM125B | TSS200 | NO |
| cg24337090 | 0.687 (0.05) | 0.680 (0.06) | 0.702 (0.03) | 6.74E-09 | −0.06 (0.02) | chr11 | 11,578,126 | OpenSea | GALNT18 | Body | NO |
| cg08943494 | 0.728 (0.07) | 0.769 (0.04) | 0.648 (0.04) | 2.43E-09 | 0.11 (0.04) | chr11 | 36,422,615 | OpenSea | PRR5L | 5’UTR | YES |
| cg19333758 | 0.494 (0.06) | 0.526 (0.04) | 0.430 (0.03) | 5.74E-08 | 0.09 (0.04) | chr12 | 48,135,549 | OpenSea | RAPGEF3 | Body | NO |
| cg04347477 | 0.636 (0.09) | 0.689 (0.06) | 0.529 (0.04) | 2.75E-09 | 0.14 (0.05) | chr12 | 125,002,007 | Island | NCOR2 | 5’UTR | YES |
| cg02306236 | 0.803 (0.04) | 0.821 (0.02) | 0.765 (0.03) | 1.78E-08 | 0.06 (0.02) | chr12 | 123,570,372 | OpenSea | PITPNM2 | 5’UTR | NO |
| cg01928516 | 0.606 (0.07) | 0.597 (0.08) | 0.622 (0.06) | 5.27E-08 | −0.08 (0.03) | chr17 | 2,208,377 | Shore | SMG6 | TSS1500 | NO |
| cg18183624 | 0.343 (0.07) | 0.309 (0.06) | 0.412 (0.04) | 5.99E-09 | −0.12 (0.05) | chr17 | 47,076,904 | Shore | IGF2BP1 | Body | YES |
| cg19748455 | 0.390 (0.04) | 0.408 (0.04) | 0.355 (0.03) | 2.04E-08 | 0.07 (0.02) | chr17 | 76,274,856 | OpenSea | LOC100996291 | TSS1500 | NO |
| cg10922498 | 0.489 (0.06) | 0.459 (0.04) | 0.549 (0.04) | 6.64E-08 | −0.08 (0.03) | chr18 | 70,900,410 | OpenSea | LOC400655 | Body | NO |
| cg02001279 | 0.648 (0.08) | 0.690 (0.07) | 0.566 (0.03) | 5.02E-08 | 0.13 (0.05) | chr19 | 940,967 | Island | ARID3A | Body | YES |
| cg18598117 | 0.864 (0.06) | 0.890 (0.05) | 0.810 (0.03) | 7.49E-08 | 0.09 (0.04) | chr19 | 941,126 | Island | ARID3A | Body | YES |
| cg01727435 | 0.086 (0.02) | 0.079 (0.02) | 0.102 (0.01) | 7.04E-08 | −0.03 (0.01) | chr20 | 3,767,756 | Shore | CDC25B | 5’UTR | NO |
| cg24797865 | 0.505 (0.05) | 0.531 (0.04) | 0.452 (0.02) | 5.99E-09 | 0.08 (0.03) | chr21 | 46,331,470 | OpenSea | ITGB2 | 5’UTR | NO |
| cg16015397 | 0.523 (0.06) | 0.553 (0.05) | 0.462 (0.03) | 1.10E-10 | 0.10 (0.03) | chr21 | 46,331,472 | OpenSea | ITGB2 | 5’UTR | NO |
| cg04752284 | 0.787 (0.04) | 0.810 (0.03) | 0.741 (0.02) | 3.39E-08 | 0.06 (0.02) | chr21 | 46,386,748 | Shore | FAM207A | Body | NO |
ap values were generated based on M-values of the CpG sites in the limma regression model
b The association coefficients were generated based on β-values of the CpG sites within the same model