Skip to main content
. 2019 Dec 27;11(1):34. doi: 10.3390/genes11010034

Table 1.

Top-ranking 100 differentially methylated genes in warts (W) compared to normal skin (NS).

Gene Category Chromosome Start End Mean.mean β Value (NS) Mean.mean β Value (W) Mean.mean β Value Difference (W-NS) Mean.mean. quot.log2 Comb.p.val Comb.p.adj.fdr Combined Rank
10 104555001 104560000 0.113 0.585 0.472 2.275 6.818 × 10−16 8.614 × 10−11 8
AZIN1-AS1 RNA gene (ncRNA) 8 102975001 102980000 0.157 0.603 0.446 1.878 2.736 × 10−14 4.816 × 10−10 32
EXOC4 Protein coding 7 133390001 133395000 0.642 0.134 −0.509 −2.184 2.139 × 10−13 1.386 × 10−9 39
10 4280001 4285000 0.125 0.538 0.412 2.031 6.565 × 10−15 2.074 × 10−10 48
KCNU1 Protein coding 8 36840001 36845000 0.583 0.147 −0.436 −1.914 9.147 × 10−13 3.350 × 10−9 69
SVIL2P Pseudogene 10 30675001 30680000 0.617 0.163 −0.454 −1.859 1.342 × 10−12 4.403 × 10−9 77
RTN1 Protein coding 14 59720001 59725000 0.151 0.538 0.387 1.768 2.738 × 10−15 1.730 × 10−10 95
4 62330001 62335000 0.561 0.118 −0.443 −2.153 2.391 × 10−12 5.796 × 10−9 104
TBC1D22A Protein coding 22 47045001 47050000 0.098 0.479 0.381 2.180 3.913 × 10−15 1.732 x 10−10 110
PIWIL4, AP000943.3 Protein coding, RNA gene 11 94610001 94615000 0.609 0.162 −0.446 −1.843 3.742 × 10−12 7.253 × 10−9 130
LINC02008 RNA gene (ncRNA) 3 82205001 82210000 0.524 0.137 −0.387 −1.863 3.998 × 10−12 7.488 10−9 134
LGI1 Protein coding 10 93770001 93775000 0.514 0.135 −0.379 −1.856 4.742 × 10−12 8.207 × 10−9 146
VPS16, PTPRA Protein coding 20 2865001 2870000 0.499 0.134 −0.364 −1.819 5.040 × 10−13 2.318 × 10−9 151
5 115915001 115920000 0.513 0.132 −0.381 −1.879 6.570 × 10−12 9.941 × 10−9 167
DPCD Protein coding 10 101590001 101595000 0.579 0.170 −0.409 −1.758 6.785 × 10−12 1.005 × 10−8 170
12 105855001 105860000 0.497 0.126 −0.370 −1.893 6.837 × 10−12 1.005 × 10−8 171
MGC27382 RNA gene (ncRNA) 1 78295001 78300000 0.185 0.586 0.402 1.615 1.534 × 10−13 1.211 × 10−9 177
IRF2 Protein coding 4 184410001 184415000 0.483 0.125 −0.357 −1.864 4.053 × 10−12 7.531 × 10−9 182
SLC22A16 Protein coding 6 110460001 110465000 0.475 0.118 −0.357 −1.916 2.021 × 10−12 5.283 × 10−9 186
2 152330001 152335000 0.171 0.536 0.365 1.593 7.112 × 10−14 8.169 × 10−10 195
CAB39L Protein coding 13 49365001 49370000 0.563 0.095 −0.467 −2.441 9.568 × 10−12 1.229 × 10−8 195
2 220830001 220835000 0.650 0.197 −0.454 −1.677 1.176 × 10−11 1.363 × 10−8 218
3 24080001 24085000 0.218 0.684 0.466 1.607 1.218 × 10−11 1.406 × 10−8 219
NRG1 Protein coding 8 32280001 32285000 0.171 0.530 0.360 1.580 1.266 × 10−11 1.434 × 10−8 223
FAAHP1 Pseudogene 1 46465001 46470000 0.507 0.159 −0.348 −1.613 5.414 × 10−12 9.001 × 10−9 228
L3HYPDH, AL121694.1, JKAMP Protein coding, RNA gene, Protein coding 14 59480001 59485000 0.494 0.139 −0.355 −1.756 1.410 × 10−11 1.543 × 10−8 231
BPIFA4P Pseudogene 20 33205001 33210000 0.785 0.243 −0.543 −1.655 1.472 × 10−11 1.569 × 10−8 237
CUZD1 Protein coding 10 122835001 122840000 0.124 0.469 0.346 1.843 1.675 × 10−12 4.809 × 10−9 242
LINC02241 RNA gene (ncRNA) 5 20675001 20680000 0.506 0.148 −0.358 −1.707 1.547 × 10−11 1.608 × 10−8 243
6 14050001 14055000 0.530 0.136 −0.394 −1.889 1.587 × 10−11 1.630 × 10−8 246
FER1L6, FER1L6-AS1 Protein coding, RNA gene (ncRNA) 8 123990001 123995000 0.503 0.160 −0.344 −1.596 2.420 × 10−12 5.796 × 10−9 251
DDAH1, AC092807.3 Protein coding, RNA gene 1 85555001 85560000 0.549 0.143 −0.407 −1.873 1.752 × 10−11 1.710 × 10−8 258
15 86070001 86075000 0.172 0.515 0.342 1.526 8.259 × 10−12 1.116 × 10−8 266
1 232655001 232660000 0.421 0.080 −0.341 −2.263 5.031 × 10−12 8.532 × 10−9 269
KLHL7 Protein coding 7 23135001 23140000 0.525 0.150 −0.375 −1.738 1.938 × 10−11 1.814 × 10−8 270
TANGO6 Protein coding 16 69070001 69075000 0.614 0.208 −0.406 −1.519 4.213 × 10−14 6.654 × 10−10 273
LINC01090 RNA gene (ncRNA) 2 188220001 188225000 0.569 0.193 −0.376 −1.510 3.271 × 10−12 6.621 × 10−9 285
CASC2 RNA gene (ncRNA) 10 118190001 118195000 0.485 0.142 −0.343 −1.700 2.307 × 10−11 1.971 × 10−8 295
20 5040001 5045000 0.685 0.236 −0.450 −1.500 2.152 × 10−11 1.915 × 10−8 298
ARHGAP24 Protein coding 4 85610001 85615000 0.500 0.153 −0.346 −1.640 2.522 × 10−11 2.096 × 10−8 304
CCR3 Protein coding 3 46235001 46240000 0.542 0.188 −0.354 −1.480 8.227 × 10−12 1.116 × 10−8 322
THOC2 Protein coding X 123630001 123635000 0.652 0.208 −0.444 −1.603 3.058 × 10−11 2.321 × 10−8 333
FBXL17 Protein coding 5 108135001 108140000 0.717 0.221 −0.497 −1.658 3.152 × 10−11 2.351 × 10−8 338
VPS13D, SNORA59A Protein coding, RNA gene (snoRNA) 1 12505001 12510000 0.190 0.517 0.328 1.576 2.859 × 10−14 4.816 × 10−10 346
5 141905001 141910000 0.491 0.166 −0.326 −1.513 3.232 × 10−12 6.621 × 10−9 357
1 173115001 173120000 0.491 0.164 −0.327 −1.523 3.557 × 10−11 2.495 × 10−8 358
5 57295001 57300000 0.576 0.174 −0.401 −1.669 3.617 × 10−11 2.525 × 10−8 362
ERBIN Protein coding 5 66010001 66015000 0.495 0.161 −0.334 −1.563 3.822 × 10−11 2.592 × 10−8 371
AC105758.1 Pseudogene 4 126105001 126110000 0.468 0.145 −0.324 −1.628 1.828 × 10−11 1.743 × 10−8 374
17 25850001 25855000 0.206 0.573 0.367 1.431 1.336 × 10−13 1.206 × 10−9 410
FAM76B Protein coding 11 95775001 95780000 0.226 0.623 0.397 1.429 2.820 × 10−13 1.738 × 10−9 415
1 209490001 209495000 0.635 0.201 −0.434 −1.614 5.365 × 10−11 3.172 × 10−8 426
EFCAB13, AC040934.1 Protein coding, RNA gene 17 47415001 47420000 0.092 0.410 0.317 2.034 9.620 × 10−12 1.229 × 10−8 430
PHC2 Protein coding 1 33405001 33410000 0.515 0.186 −0.329 −1.422 2.189 10−12 5.477 × 10−9 435
AGO4 Protein coding 1 35835001 35840000 0.203 0.559 0.356 1.418 4.086 × 10−11 2.675 × 10−8 443
AC079160.1 RNA gene 4 84235001 84240000 0.503 0.163 −0.341 −1.572 5.979 × 10−11 3.410 × 10−8 443
PAK4 Protein coding 19 39160001 39165000 0.180 0.498 0.318 1.417 1.745 × 10−14 4.009 × 10−10 448
AP003100.2 RNA gene 11 112700001 112705000 0.510 0.185 −0.325 −1.413 2.551 × 10−11 2.114 × 10−8 456
CLEC4C Protein coding 12 7750001 7755000 0.433 0.119 −0.314 −1.777 2.365 × 10−11 1.998 × 10−8 456
12 92635001 92640000 0.222 0.614 0.392 1.429 6.703 × 10−11 3.642 × 10−8 465
6 164210001 164215000 0.475 0.137 −0.337 −1.717 6.867 × 10−11 3.716 × 10−8 467
METTL15 Protein coding 11 28160001 28165000 0.724 0.267 −0.456 −1.404 3.133 × 10−13 1.885 × 10−9 477
RTKN2 Protein coding 10 62205001 62210000 0.158 0.474 0.315 1.522 7.807 × 10−11 4.119 × 10−8 479
LINC00824 RNA gene (ncRNA) 8 128535001 128540000 0.439 0.127 −0.312 −1.709 3.343 × 10−12 6.660 × 10−9 482
MSANTD3-TMEFF1, TMEFF1 Protein coding 9 100550001 100555000 0.564 0.209 −0.355 −1.392 1.378 × 10−12 4.408 × 10−9 500
MBNL1 Protein coding 3 152310001 152315000 0.121 0.447 0.326 1.804 9.367 × 10−11 4.669 × 10−8 507
AC092106.2 Pseudogene 2 106205001 106210000 0.486 0.170 −0.316 −1.461 9.531 × 10−11 4.677 × 10−8 515
13 106570001 106575000 0.424 0.113 −0.311 −1.822 9.607 × 10−11 4.705 × 10−8 516
FKBP5 Protein coding 6 35690001 35695000 0.219 0.605 0.386 1.424 1.015 × 10−10 4.858 × 10−8 528
ARFGAP3 Protein coding 22 42805001 42810000 0.243 0.647 0.405 1.379 2.067 × 10−13 1.386 × 10−9 529
DDAH1, AL078459.1 Protein coding, RNA gene 1 85370001 85375000 0.456 0.150 −0.306 −1.540 1.696 × 10−11 1.689 × 10−8 540
HDAC2 Protein coding 6 113930001 113935000 0.241 0.640 0.398 1.371 1.476 × 10−13 1.211 × 10−9 545
10 4925001 4930000 0.427 0.123 −0.304 −1.719 3.638 × 10−11 2.533 × 10−8 555
AC011287.1 RNA gene 7 13235001 13240000 0.429 0.125 −0.304 −1.699 1.148 × 10−10 5.173 × 10−8 562
8 92330001 92335000 0.476 0.164 −0.312 −1.479 1.154 × 10−10 5.173 × 10−8 564
CD96 Protein coding 3 111620001 111625000 0.468 0.153 −0.316 −1.557 1.178 × 10−10 5.233 × 10−8 569
8 8945001 8950000 0.456 0.143 −0.313 −1.607 1.183 × 10−10 5.233 × 10−8 571
MRPL33, BABAM2 Protein coding 2 27980001 27985000 0.467 0.165 −0.302 −1.449 1.378 × 10−11 1.514 × 10−8 573
TEX15 Protein coding 8 30855001 30860000 0.561 0.212 −0.349 −1.361 1.055 x 10−10 4.956 x 10−8 574
14 51125001 51130000 0.116 0.417 0.301 1.763 3.558 × 10−11 2.495 × 10−8 581
AC008676.3, ADAM19 Protein coding 5 157425001 157430000 0.598 0.160 −0.437 −1.835 1.322 × 10−10 5.680 × 10−8 588
4 184025001 184030000 0.433 0.133 −0.300 −1.634 8.532 × 10−11 4.382 × 10−8 590
COG2 Protein coding 1 230645001 230650000 0.409 0.087 −0.323 −2.117 1.358 × 10−10 5.756 × 10−8 596
ATF2 Protein coding 2 175125001 175130000 0.414 0.115 −0.300 −1.767 4.230 × 10−12 7.608 × 10−9 599
7 134975001 134980000 0.406 0.107 −0.298 −1.825 5.356 × 10−11 3.172 × 10−8 610
LINC01320 RNA gene (ncRNA) 2 34325001 34330000 0.525 0.156 −0.369 −1.691 1.510 × 10−10 6.206 × 10−8 615
ADAMTS6 5 65405001 65410000 0.443 0.134 −0.309 −1.654 1.531 × 10−10 6.251 × 10−8 619
AC013356.1 Pseudogene 15 40480001 40485000 0.432 0.129 −0.303 −1.667 1.554 × 10−10 6.314 × 10−8 621
AL050403.2 RNA gene 20 10735001 10740000 0.554 0.171 −0.383 −1.640 1.555 × 10−10 6.314 × 10−8 622
MANSC1 Protein coding 12 12345001 12350000 0.482 0.172 −0.310 −1.434 1.571 × 10−10 6.354 × 10−8 625
UAP1 Protein coding 1 162575001 162580000 0.410 0.114 −0.296 −1.762 6.338 × 10−12 9.887 × 10−9 628
AP000311.1, ITSN1 Protein coding 21 33710001 33715000 0.408 0.112 −0.296 −1.773 9.062 × 10−11 4.580 × 10−8 630
NRG1 Protein coding 8 32550001 32555000 0.421 0.125 −0.296 −1.675 1.996 × 10−12 5.283 × 10−9 632
LINC01470 RNA gene (ncRNA) 5 152940001 152945000 0.483 0.160 −0.323 −1.538 1.668 × 10−10 6.602 × 10−8 638
FOXN3 Protein coding 14 89165001 89170000 0.566 0.208 −0.359 −1.404 1.672 × 10−10 6.602 × 10−8 640
GPM6B Protein coding X 13840001 13845000 0.528 0.152 −0.376 −1.730 1.729 × 10−10 6.795 × 10−8 643
7 158605001 158610000 0.200 0.519 0.319 1.333 3.342 × 10−11 2.427 × 10−8 651
12 59475001 59480000 0.273 0.687 0.414 1.332 1.031 × 10−14 2.605 × 10−10 653
FOXN3 Protein coding 14 89345001 89350000 0.479 0.131 −0.348 −1.796 1.893 × 10−10 7.201 × 10−8 664
LINC01098 RNA gene (ncRNA) 4 177930001 177935000 0.609 0.212 −0.397 −1.478 1.914 × 10−10 7.261 × 10−8 666