TABLE 2.
CpG a | Newborn blood DNA methylation | Childhood blood DNA methylation | |||||||||
---|---|---|---|---|---|---|---|---|---|---|---|
Estimate | SE | p‐Value | Chr | Position | Gene | Direction b | Estimate | SE | p‐Value | Direction c | |
cg00528572 | 0.001341 | 0.000191 | 2.41E‐12 | 11 | 92,703,433 | MTNR1B | ++++++−+++−++++++ | 0.00097 | 0.00033 | 0.003 | −+++ |
cg07105285 | 0.001011 | 0.000157 | 1.13E‐10 | 11 | 92,702,663 | MTNR1B | +++++++−++−++++++ | 0.00034 | 0.0002 | 0.097 | −−++ |
cg03970229 | 0.000626 | 0.000106 | 3.42E‐09 | 11 | 92,702,507 | MTNR1B | +++++++++++++++++ | 0.00033 | 0.00015 | 0.027 | −+++ |
cg03292743 | −0.00095 | 0.000162 | 5.03E‐09 | 2 | 74,642,838 | C2orf81 | −−−−−−−−−−−−+−+−− | −0.00042 | 0.00027 | 0.129 | − |
cg15559898 | 0.000622 | 0.000107 | 6.53E‐09 | 11 | 92,703,185 | MTNR1B | +++++++−++−++++++ | 0.00048 | 0.00018 | 0.008 | −+++ |
cg07609862 | 0.001325 | 0.00023 | 8.77E‐09 | 11 | 92,702,912 | MTNR1B | +++++++−++−++++++ | 0.00054 | 0.00024 | 0.023 | −+++ |
cg26352652 | 0.000857 | 0.000153 | 2.17E‐08 | 12 | 133,013,600 | ++?++++−−−+++++++ | 0.00068 | 0.00025 | 0.007 | ++++ | |
cg01722932 | 0.000608 | 0.000111 | 4.62E‐08 | 11 | 92,702,653 | MTNR1B | +++++++−++−++++++ | 0.00026 | 0.00014 | 0.064 | −+++ |
cg12082025 | 0.000674 | 0.000128 | 1.44E‐07 | 19 | 1,064,218 | ABCA7 | +++++−−−++−++++−+ | −0.00001 | 0.00007 | 0.843 | +−++ |
cg14898611 | 0.000684 | 0.00013 | 1.53E‐07 | 7 | 25,608,673 | −++−+++++++++++++ | 0.00064 | 0.00022 | 0.003 | −+++ | |
cg00538458 | 0.000928 | 0.000178 | 1.83E‐07 | 16 | 22,959,868 | −+++−++++++++++++ | 0.00072 | 0.0003 | 0.015 | −+−+ | |
cg14503935 | 0.000712 | 0.00014 | 3.53E‐07 | 12 | 131,864,894 | −++−++++−?+++++++ | 0.00022 | 0.00024 | 0.372 | +++− | |
cg12965344 | 0.000375 | 0.000074 | 3.91E‐07 | 19 | 48,898,160 | GRIN2D | −++++++++−+++++++ | 0.00043 | 0.00014 | 0.002 | +++− |
cg22968966 | 0.00086 | 0.000171 | 5.04E‐07 | 16 | 22,959,875 | ++−+−++++++++++++ | 0.0008 | 0.00028 | 0.004 | −+++ | |
cg07887168 | 0.000561 | 0.000112 | 5.28E‐07 | 16 | 4,263,893 | SRL | ++++−+++++++−−++? | −0.00009 | 0.00015 | 0.563 | +−−+ |
cg26709300 | −0.00041 | 0.000082 | 5.80E‐07 | 16 | 30,106,682 | YPEL3, BOLA2B | −−+−−−−+−−−+−+−−− | −0.00037 | 0.00014 | 0.008 | − |
cg08918020 | 0.000386 | 0.000078 | 8.25E‐07 | 20 | 30,225,706 | COX4I2 | −++++++−+++++++++ | 0.00041 | 0.00016 | 0.011 | ++++ |
cg16702083 | 0.001556 | 0.000316 | 8.46E‐07 | 20 | 62,328,427 | RTEL1‐TNFRSF6B | ++++−++−++++−++++ | 0.00229 | 0.00053 | 0.00001 | ++++ |
cg05803237 | 0.000508 | 0.000103 | 8.97E‐07 | 11 | 92,702,628 | MTNR1B | ++++++++++−++++++ | 0.00006 | 0.00014 | 0.642 | −−++ |
cg24536250 | 0.000611 | 0.000125 | 9.43E‐07 | 5 | 50,218,625 | +−−+−+++++++++++− | 0.00021 | 0.00021 | 0.322 | −+−+ | |
cg24354818 | 0.001391 | 0.000287 | 1.27E‐06 | 20 | 62,328,094 | RTEL1‐TNFRSF6B | ++++−++−++++−++++ | 0.00177 | 0.00037 | 0.000002 | ++++ |
cg01817364 | −0.00041 | 0.000084 | 1.45E‐06 | 5 | 43,037,411 | −−−−−−++−+−−−−−−− | 0.00005 | 0.0002 | 0.8 | −−+− | |
cg24129222 | −0.00097 | 0.000202 | 1.68E‐06 | 2 | 74,643,251 | C2orf81 | −−−−−−−−−−−−+−−−− | −0.00039 | 0.00036 | 0.279 | − |
cg12600858 | 0.000643 | 0.000134 | 1.76E‐06 | 11 | 92,702,530 | MTNR1B | +++++++++++++++−+ | 0.00049 | 0.00023 | 0.03 | −+++ |
cg13728287 | 0.000626 | 0.000131 | 1.90E‐06 | 7 | 25,608,634 | ++−−++++++−++++++ | 0.00059 | 0.00021 | 0.005 | −+++ | |
cg09405380 | 0.000453 | 0.000095 | 1.93E‐06 | 19 | 19,730,109 | PBX4 | −+++++−−+++++++++ | −0.00003 | 0.00013 | 0.817 | −+−− |
cg06741367 | 0.000857 | 0.00018 | 1.94E‐06 | 2 | 128,453,108 | +++++++++++++++++ | 0.00053 | 0.00023 | 0.022 | ++++ | |
cg24488001 | 0.00053 | 0.000112 | 2.42E‐06 | 1 | 238,644,629 | LINCO1139 | ++−+−+−−+++++?+?? | −0.00004 | 0.00016 | 0.79 | +−−+ |
cg18473455 | 0.000755 | 0.00016 | 2.52E‐06 | 19 | 47,333,922 | SNAR‐E | ++−+++++++++−++++ | −0.00013 | 0.00032 | 0.681 | −+−− |
cg23773946 | 0.001299 | 0.000277 | 2.76E‐06 | 20 | 62,327,968 | RTEL1‐TNFRSF6B | ++++−++−+−++++++? | 0.00242 | 0.00062 | 0.00009 | ++++ |
cg05372495 | 0.000413 | 0.000088 | 2.88E‐06 | 19 | 1,063,624 | ABCA7 | ++−+++−++++++++++ | 0.00002 | 0.00007 | 0.719 | +−++ |
cg15829826 | −0.00034 | 0.000072 | 3.13E‐06 | 11 | 65,153,860 | FRMD8 | −−−−−−+−−−−−+−−−− | −0.00011 | 0.00007 | 0.125 | −−−+ |
cg25594486 | 0.000589 | 0.000127 | 3.51E‐06 | 19 | 51,165,441 | SHANK1 | ++++−++++++++++++ | 0.00073 | 0.00029 | 0.013 | −++− |
Note: The 33 CpGs associated at birth (PFDR < 0.05) with original p‐values shown above. Maternal age was modeled in years and adjusted for cell types, maternal smoking, maternal education, maternal race/ethnicity/ancestry, parity, batch, and selection (as applicable, see Data S1). These 33 CpGs were also reviewed in childhood analyses adjusting for the same covariates. Estimates represent the difference in DNA methylation levels (i.e., beta values) per year of maternal age. See Table S3 for full annotation including location information and heterogeneity statistics.
Abbreviations: Chr, chromosome; SE, standard error.
Bolding indicates remained significant (PFDR < 0.05) in model 3 (after additional adjustment for maternal BMI).
Cohorts listed in the following order for newborn associations: EAGeR, Gen3G, DCHS, ALSPAC, NORTHPOP, GenR, POSEIDON, EARLI, MARBLES, CHAMACOS, INMA, MoBa1, MoBa2, MoBa4, MoBa8, Upstate KIDS, and CHS.
Cohorts listed in the following order for childhood associations: Upstate KIDS, HELIX, MMNP, and PMMST.