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. 2018 Nov 20;10:144. doi: 10.1186/s13148-018-0579-8

Table 1.

CpG probes mapped in miRNA-coding genes differentially methylated in PTC compared to NT

Probe (ID) miRNA gene Genomic functional distribution CpG context Internal data TCGA data
Delta β P P adj. Delta β P FDR
cg19019198 MIRLET7G TSS200 − 0.36 < 1e-07 < 1e-07 − 0.49 < 1e-07 < 1e-07
cg07181702 MIR21 Body − 0.19 < 1e-07 < 1e-07 − 0.20 < 1e-07 < 1e-07
cg04276626 MIR21 TSS200 − 0.18 < 1e-07 < 1e-07 − 0.16 < 1e-07 < 1e-07
cg02515217 MIR21 TSS200 − 0.17 < 1e-07 < 1e-07 − 0.16 < 1e-07 < 1e-07
cg15759721 MIR21 Body − 0.17 < 1e-07 < 1e-07 − 0.14 < 1e-07 < 1e-07
cg04805065 MIR33B TSS1500 Shore − 0.25 < 1e-07 < 1e-07 − 0.29 < 1e-07 < 1e-07
cg09186408 MIR33B TSS1500 Shore − 0.20 < 1e-07 < 1e-07 − 0.23 < 1e-07 < 1e-07
cg19619576 MIR33B TSS1500 Shelf − 0.16 < 1e-07 1e-07 − 0.21 < 1e-07 < 1e-07
cg01243312 MIR128–1 Body 0.20 < 1e-07 < 1e-07 0.23 < 1e-07 < 1e-07
cg10734581 MIR134 TSS1500 − 0.19 < 1e-07 < 1e-07 NA NA NA
cg15857661 MIR146B TSS200 Shelf − 0.33 < 1e-07 < 1e-07 − 0.34 < 1e-07 < 1e-07
cg05858126 MIR146B TSS200 Shelf − 0.32 < 1e-07 < 1e-07 − 0.33 < 1e-07 < 1e-07
cg05251190 MIR146B TSS200 Shelf − 0.30 < 1e-07 < 1e-07 − 0.29 < 1e-07 < 1e-07
cg13442016 MIR146B Body Shelf − 0.29 < 1e-07 < 1e-07 − 0.29 < 1e-07 < 1e-07
cg09701700 MIR146B TSS1500 Shelf − 0.20 < 1e-07 < 1e-07 − 0.19 < 1e-07 < 1e-07
cg13309012 MIR155 Body − 0.30 < 1e-07 < 1e-07 − 0.30 < 1e-07 < 1e-07
cg13449535 MIR200B TSS1500 Shore − 0.25 < 1e-07 < 1e-07 − 0.37 < 1e-07 < 1e-07
cg14144728 MIR200B TSS1500 Shore − 0.23 < 1e-07 < 1e-07 − 0.21 < 1e-07 < 1e-07
cg08096702 MIR211 TSS1500 − 0.29 < 1e-07 < 1e-07 − 0.34 < 1e-07 < 1e-07
cg11721554 MIR377 TSS1500 Shelf − 0.17 < 1e-07 < 1e-07 − 0.20 < 1e-07 < 1e-07
cg05138957 MIR377 TSS1500 Shelf − 0.15 < 1e-07 < 1e-07 − 0.19 < 1e-07 < 1e-07
cg21513316 MIR410 Body Island − 0.16 < 1e-07 < 1e-07 − 0.14 < 1e-07 < 1e-07
cg20547131 MIR412 TSS1500 Shore − 0.17 < 1e-07 < 1e-07 − 0.15 < 1e-07 < 1e-07
cg14910227 MIR495 Body − 0.19 < 1e-07 < 1e-07 − 0.27 < 1e-07 < 1e-07
cg11978784 MIR512–1 TSS1500 − 0.17 < 1e-07 < 1e-07 NA NA NA
cg10583119 MIR518D TSS1500 − 0.18 < 1e-07 < 1e-07 − 0.22 < 1e-07 < 1e-07
cg17670263 MIR520C TSS1500 − 0.21 < 1e-07 1e-07 − 0.27 < 1e-07 < 1e-07
cg05865548 MIR543 TSS200 − 0.16 < 1e-07 < 1e-07 − 0.22 < 1e-07 < 1e-07
cg04522625 MIR548A2 Body 0.24 < 1e-07 < 1e-07 0.30 < 1e-07 < 1e-07
cg18697991 MIR548A2 Body 0.19 < 1e-07 < 1e-07 0.20 < 1e-07 < 1e-07
cg03221073 MIR548F1 Body − 0.41 < 1e-07 < 1e-07 − 0.34 < 1e-07 < 1e-07
cg25874148 MIR548F5 Body − 0.28 < 1e-07 < 1e-07 NA NA NA
cg01719718 MIR548F5 Body − 0.17 < 1e-07 2e-07 − 0.18 < 1e-07 < 1e-07
cg05878887 MIR548G Body − 0.31 < 1e-07 < 1e-07 − 0.33 < 1e-07 < 1e-07
cg21175685 MIR548G Body − 0.31 < 1e-07 < 1e-07 − 0.24 < 1e-07 < 1e-07
cg02145866 MIR548G Body − 0.29 < 1e-07 < 1e-07 − 0.30 < 1e-07 < 1e-07
cg26664528 MIR548H4 Body Shore − 0.28 < 1e-07 < 1e-07 NA NA NA
cg11539052 MIR548N Body Shore − 0.20 < 1e-07 < 1e-07 NA NA NA
cg05966699 MIR567 TSS1500 − 0.16 < 1e-07 < 1e-07 − 0.24 < 1e-07 < 1e-07
cg06277638 MIR570 TSS1500 − 0.17 < 1e-07 < 1e-07 NA NA NA
cg09031823 MIR575 TSS1500 − 0.17 < 1e-07 7e-04 − 0.25 < 1e-07 < 1e-07
cg18948646 MIR575 TSS200 − 0.16 < 1e-07 < 1e-07 − 0.13 < 1e-07 < 1e-07
cg26620021 MIR641 TSS1500 Shore − 0.28 < 1e-07 < 1e-07 NA NA NA
cg11035122 MIR758 TSS1500 − 0.15 < 1e-07 2e-06 − 0.18 < 1e-07 < 1e-07
cg02558026 MIR762 TSS1500 Shore − 0.20 < 1e-07 < 1e-07 − 0.24 < 1e-07 < 1e-07
cg13204193 MIR942 Body 0.19 < 1e-07 < 1e-07 NA NA NA
cg01940297 MIR1207 TSS1500 0.16 < 1e-07 3e-06 0.25 < 1e-07 < 1e-07
cg25037841 MIR1286 TSS1500 0.15 < 1e-07 < 1e-07 0.18 < 1e-07 < 1e-07
cg25591377 MIR1288 TSS1500 − 0.27 < 1e-07 < 1e-07 − 0.24 < 1e-07 < 1e-07
cg02746110 MIR1301 TSS1500 0.16 < 1e-07 4e-07 0.18 < 1e-07 < 1e-07

NA probes not available in the TCGA processed data (level 3); P Adj Bonferroni P value; FDR false discovery ratio; TSS transcription start sites; Shelf, 2–4 kb from CpG island; Shore, until 2 kb from CpG island