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Table 1 Association estimates of stress exposures and methylation of CpG sites using beta regression

From: BNDF methylation in mothers and newborns is associated with maternal exposure to war trauma

CpG Tissue Position Gene regiona Upstream of exon Putative TFBb Regres coeffc p q R 2 Abs beta ∆ beta
War trauma
cg24249411 Venous 27744760 Intergenic 1 CTCF e –3.86 .02 .09 .22 .14 .07
cg16257091 1 Venous 27743580 Core promoter 2 GATA1 f –3.07 .05 .15 .17 .14 .15
cg16257091 1 Placenta 27743580 Core promoter 2 GATA1f 2.08 .02 .27 .18 .29 .51
cg16257091 1 Cord 27743580 Core promoter 2 GATA1f 4.82 .02 .27 .21 .19 .10
cg07704699 Cord 27742833 Intragenic 2 Tfcp2l1f 2.93 .01 .27 .25 .22 .19
cg04106006 Venous 27742455 Proximal promoter/intragenic 2 n/a –1.92 .03 .11 .19 .36 .23
cg10635145 Placenta 27742436 Proximal promoter/intragenic 2 n/a 1.93 .03 .28 .19 .71 .30
cg06684850 Venous 27742369 Proximal promoter/intragenic 2 N-Myc d, f , Myc d , AhR d , Arnt d , HIF-1 d , USF2 f –3.73 .05 .15 .16 .11 .12
cg12448003 Venous 27742366 Proximal promoter/intragenic 2 N-Myc d,f , Myc d , AhR d , Arnt d , HIF-1 d , USF1 d , USF2 d,f , BHLHB2 f –18.16 .01 .09 .26 .03 .02
cg25412831 Venous 27742138 Intragenic 3 n/a –5.61 .03 .17 .18 .09 .10
cg26949694 Venous 27742061 Intragenic 3 CTCF e , Tfcp2l1 f –3.13 .02 .09 .23 .18 .16
cg17413943 Cord 27739827 Intragenic 4 Tfcp2l1 f –8.15 .003 .18 .33 .08 .05
cg11806762 Venous 27732958 Intragenic 4 n/a 7.46 .002 .05 .34 .91 .10
cg268407702 Placenta 27723291 Proximal promoter/intragenic 4 CTCFe, Pol2e, POU3F2g, STAT5Ag 11.97 .03 .28 .21 .04 .04
cg15914769 Cord 27722775 Intragenic 5 n/a 17.97 .03 .28 .17 .03 .02
cg10558494 Placenta 27721280 Proximal promoter/intragenic 8 n/a 5.27 .01 .12 .17 .09 .25
cg15313332 Placenta 27721270 Proximal promoter/intragenic 8 n/a 7.14 .002 .06 .22 .07 .21
cg25962210 Placenta 27721223 Core promoter/intragenic 8 Esrrb f 9.61 .001 .06 .30 .06 .10
cg27193031 Placenta 27721088 Intragenic 9 Esrrbf, Tfcp2l1f 4.48 .05 .38 .12 .09 .16
cg09492354 Placenta 27720710 Intragenic 9 CTCFe, Pol2-4H8e 11.32 .02 .27 .20 .04 .02
cg09492354 Cord 27720710 Intragenic 9 CTCFe, Pol2-4H8e 9.46 .03 .28 .19 .05 .02
cg20108357 Cord 27718979 Intragenic 9 n/a 1.74 .05 .42 .15 .33 .21
cg05189570 Venous 27680481 Intragenic 11 n/a 4.75 .02 .09 .23 .89 .10
Chronic stress
cg16257091 1 Cord 27743580 Core promoter 2 GATA1 f 5.80 .01 .19 .26 .11 .10
cg012256983 Cord 27742355 Proximal promoter/intragenic 2 Spl1f 6.70 .05 .32 .15 .06 .09
cg04106006 Venous 27742454 Proximal promoter/intragenic 2 n/a 1.88 .03 .85 .19 .39 .23
cg06684850 Venous 27742369 Proximal promoter/intragenic 2 N-Mycd,f, Mycd, AhRd, Arntd , HIF-1d, USF2f 4.28 .02 .85 .21 .11 .12
cg26949694 Placenta 27742061 Intragenic 3 CTCFe, Tfcp2l1f 1.70 .05 .42 .15 .34 .54
cg25962210 Placenta 27721223 Core promoter/intragenic 8 Esrrbf 8.15 .02 .42 .20 .06 .10
cg09492354 Placenta 27720710 Intragenic 9 CTCFe, Pol2-4H8e 10.78 .04 .42 .17 .04 .02
cg09492354 Cord 27720710 Intragenic 9 CTCFe, Pol2-4H8e 9.34 .05 .32 .15 .05 .02
cg15014679 Cord 27695210 Intragenic 10 n/a 5.56 .05 .32 .13 .91 .13
cg07238832 Cord 27681475 Intragenic 11 n/a 4.33 .04 .32 .17 .89 .13
  1. Note: Underlined CpGs are significant across tissue. Italicized CpGs are significant across stressor type. Bolded lines have q value <.25. Due to potential error in array data at the extremes of the beta distribution, CpG sites with absolute (mean) methylation <5% or >95% should be interpreted with caution. R 2 values indicate percent variance explained (after controlling for infant sex in cord blood and placenta)
  2. n/a not available
  3. aMultiple regions are indicated if differing according to BDNF transcript
  4. bPutative TFBs were identified for purposes of this study via in silico modeling or molecular assay not specific to tissue source
  5. cRegres coeff refers to the regression coefficient from beta regressions
  6. dTFB identified via MotifMap
  7. eTFB identified via Encode
  8. fTFB identified via PhysBinder (avg precision)
  9. gTFB identified via HMR Conservation
  10. 1Smith et al. [47]
  11. 2Thaler et al. [45]; Fuchikami et al. [77]; Martinowich et al. [76]; Dennis et al. [75]
  12. 3Weder et al. [46]