Table 3 Differentially methylated CpGs
From: DNA methylation in cord blood in association with prenatal depressive symptoms
Group 1 | Group 2 | Gene | Location | Probe | Log2 fold change | Mean SD | Adjusted p-value | Regulatory feature |
|---|---|---|---|---|---|---|---|---|
Anxiety and prenatal depressive symptoms | Healthy control | ATP Binding Cassette Subfamily F Member 1(ABCF1) | chr6. 30539063 | cg05385119 | − 0.21 | − 3.80 (0.35), − 3,60(0,26) | 0.037 | Promoter Associated |
Located upstream of Homo sapiens integrator complex subunit 10 gene (INTS10) | chr8. 19711803 | cg00017362 | 0.18 | 3.04(0,29), 2,89(0.26) | 0.037 | |||
Healthy controls | Prenatal depressive symptoms with SSRI | Nuclear Factor I A (NFIA) | chr1. 61549982 | cg18946602 | − 0.91 | 2.05(0.50), 2.82 (0.96) | 0.005 | |
Chromosome 2 open reading frame 40 (C2orf40) | chr2 106682209 | cg17161250 | − 0.71 | − 3.83(0.38), − 3.14(1.10) | 0.004 | Unclassified cell-type specific | ||
Immunoglobulin Superfamily Member 11 (IGSF11) | chr3 118864895 | cg20675391 | − 0.70 | 3.74(0.43), 4.35(1.11) | 0.024 | Unclassified | ||
Cereblon (CRBN) | chr3 3221595 | cg20787969 | − 0.57 | − 4.39(0.26), − 3.83(1.39) | 0.020 | Promoter Associated | ||
Cyclin-Dependent Kinase 11B (CDK11B) | chr1 1655867 | cg00669623 | − 0.29 | − 3.32 (0.12), − 3.04(0.74) | 0.021 | Promoter Associated | ||
WD Repeat Containing. Antisense To TP73 (WRAP73) | chr1 3551807 | cg04386615 | − 0.54 | 3.64(0.37), 4.15(0.46) | 0.048 | |||
G Protein-Coupled Receptor Kinase 4 (GRK4) | chr4 3033304 | cg03178823 | 0.43 | 2.47(0.20), 1.99(0.93) | 0.010 | |||
MyoD Family Inhibitor Domain Containing (MDFIC) | chr7 114562316 | cg02239805 | 0.44 | − 1.52(0.09), − 1.96(1.42) | 0.010 | Promoter Associated | ||
Potassium Voltage-Gated Channel Modifier Subfamily S Member 2 (KCNS2) | chr8 99441950 | cg02143496 | 0.49 | 3.19(0.29), 2.71(0.88) | 0.010 | |||
LRRN4 C-Terminal Like (LRRN4CL) | chr11 62455369 | cg03353995 | 0.49 | − 2,38(0.32), − 2,80(0.33) | 0.041 | |||
Mitogen-Activated Protein Kinase Kinase Kinase Kinase 5 (MAP4K5) | chr14 50999680 | cg21062897 | 0.49 | − 0.85 (0.15),—1.33(1.61) | 0.018 | Promoter Associated | ||
chr3 169476270 | cg16056894 | 0.56 | − 1.33(0.35), − 1.82(0.67) | 0.029 | ||||
SOX2 Overlapping Transcript (SOX2OT) | chr3 181444989 | cg17202313 | 0.57 | − 3.76(0.36), − 4.24(0.70) | 0.030 | Unclassified cell-type specific | ||
Chromosome 10 open reading frame 11 (C10orf11) | chr10 77871958 | cg24280832 | 0.98 | 1.54(0.39), 0.51(1.72) | < 0.000 | |||
Nuclear Factor I A (NFIA) | chr1 61549982 | cg18946602 | − 0.80 | 2.11(0.56), 2.82(0.95) | 0.041 | |||
Prenatal depressive symptoms without SSRI | Prenatal depressive symptoms with SSRI | Chromosome 2 open reading frame 40 (C2orf40) | chr2 106682209 | cg17161250 | − 0.72 | − 3.87(0.41), − 3.14(1.10) | 0.003 | Unclassified cell-type specific |
Cereblon (CRBN) | chr3 3221595 | cg20787969 | − 0.57 | − 4.38(0.25), − 3.83(1.39) | 0.026 | Promoter Associated | ||
Primary Ciliary Dyskinesia Protein 1 (PCDP1) | chr2 120301847 | cg23747904 | − 0.55 | − 4.17(0.27), − 3.67(1.37) | 0.040 | |||
WD Repeat Containing. Antisense To TP73 (WRAP73) | chr1 3551807 | cg04386615 | − 0.54 | 3.66(0.33), 4.15(0.46) | 0.040 | |||
chr1 1712021 | cg23678594 | − 0.34 | − 4.31(0.19), − 3.98(0.43) | 0.038 | Promoter Associated | |||
Cyclin-Dependent Kinase 11B (CDK11B) | chr1 1655867 | cg00669623 | − 0.29 | − 3.32(0.13), − 3.05(0.73) | 0.037 | Promoter Associated | ||
Solute Carrier Family 16 Member 11 (SLC16A11) | chr17 6947200 | cg15639045 | − 0.28 | − 3.54(0.14), − 3.26(0.49) | 0.011 | |||
Uncharacterized LOC284930 | chr22 48182596 | cg00331486 | 0.36 | 1.69(0.23), 1.35(0.59) | 0.043 | |||
MyoD Family Inhibitor Domain Containing (MDFIC) | chr7 114562316 | cg02239805 | 0.45 | − 1.51(0.08), 1.96(1.42) | 0.007 | Promoter Associated | ||
G Protein-Coupled Receptor Kinase 4 (GRK4) | chr4 3033304 | cg03178823 | 0.45 | 2.47(0.21), 1.99(0.93) | 0.004 | |||
Mitogen-Activated Protein Kinase Kinase Kinase Kinase 5 (MAP4K5) | chr14 50999680 | cg21062897 | 0.48 | − 0.90(0.15), − 1.33(1.61) | 0.036 | Promoter Associated | ||
chr3 169476270 | cg16056894 | 0.56 | − 1.33(0.36), − 1.82(0.67) | 0.038 | ||||
Chromosome 10 open reading frame 11 (C10orf11) | chr10 77871958 | cg24280832 | 0.94 | 1.48(0.39), 0.51(1.72) | < 0.000 |