Table 3 |
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|
Validation of eight BW-MVPs and the PTPN7 CpG using DBS in the 17 discordant MZ twins |
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|
Infinium |
DBS |
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|
|
|
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|
CpG number |
Gene |
Meana ± SD |
Range |
Meanb ± SD |
Range |
Mean number of reads (range) |
rPearson |
P |
|
|
|
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|
cg14123607 |
APBA1 |
0.19 ± 0.08 |
0.06-0.43 |
0.09 ± 0.05 |
0.04-0.24 |
950 (440-1670) |
0.61 |
0.0001 |
|
|
cg12170649 |
APPL2 |
0.83 ± 0.05 |
0.71-0.91 |
0.97 ± 0.02 |
0.93-0.99 |
1,120 (785-1,725) |
-0.23 |
0.18 |
|
|
cg26404226 |
NA |
0.52 ± 0.07 |
0.38-0.72 |
0.35 ± 0.08 |
0.21-0.54 |
1,201 (716-2,345) |
0.73 |
<0.0001 |
|
|
cg15487251 |
IGF2BP2 |
0.57 ± 0.08 |
0.30-0.69 |
0.55 ± 0.10 |
0.24-0.68 |
1,156 (531-1,824) |
0.80 |
<0.0001 |
|
|
cg10362113 |
PAPOLA |
0.83 ± 0.12 |
0.41-0.98 |
0.84 ± 0.16 |
0.25-0.95 |
997 (188-1,689) |
0.87 |
<0.0001 |
|
|
cg02409150 |
PHKG2 |
0.91 ± 0.05 |
0.80-0.98 |
0.93 ± 0.02 |
0.87-0.97 |
749 (294-1,301) |
0.37 |
0.03 |
|
|
cg15049370 |
PPARGC1B |
0.78 ± 0.07 |
0.62-0.98 |
0.96 ± 0.02 |
0.93-1.00 |
1,019 (522-1,792) |
0.32 |
0.06 |
|
|
cg18384097c |
PTPN7c |
0.40 ± 0.17 |
0.16-0.89 |
0.28 ± 0.20 |
0.09-0.98 |
848 (383-1,334) |
0.91 |
<0.0001 |
|
|
cg22768222 |
RUNX2 |
0.32 ± 0.09 |
0.05-0.55 |
0.20 ± 0.05 |
0.02-0.26 |
853 (302-1,347) |
0.55 |
0.0008 |
|
|
|
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|
Pearson's correlation coefficients (rPearson) between the (unadjusted) Infinium and the (unadjusted) DBS data are given as well as the overall mean methylation, standard deviation (SD) and the overall methylation range observed for the Infinium and the DBS data. aInfinium data (unadjusted) are expressed as mean β-value ± SD. bDBS data (unadjusted) are expressed as mean methylation level ± SD, where the methylation level is calculated by dividing the number of reads in which the particular CpG is methylated by the total number of sequenced reads. cBuccal marker. 'Mean number of reads (range)' is the average number of sequenced bisulfite reads per amplicon (minimum to maximum number of sequenced bisulfite reads per amplicon). P = P-value under H0: rPearson = 0. BW-MVP, birth weight-associated methylation variable position; DBS, deep bisulfite sequencing; MZ, monozygotic. |
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|
Souren et al. Genome Biology 2013 14:R44 doi:10.1186/gb-2013-14-5-r44 |
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