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Table 1 The 100 CpG sites with the lowest combined rank scores

From: Genome-wide identification of methylated CpG sites in nongenital cutaneous warts

CpG

Chromosome

Gene

Methylation region

CpG Island

Mean β value (NS)

Mean β value (W)

Mean β value diff (W-NS)

mean.quot. (log2)

P-value

False discovery rate

Combined rank score

Methylation pattern

cg09671951

10

C10orf26

Body

 

0.1129

0.5848

0.4719

2.2753

6.82E-16

5.09E-11

48

Hypermethylation

cg27071672

8

FAM83H- AS1

Body

S_Shelf

0.1290

0.5765

0.4475

2.0772

1.74E-14

1.99E-10

102

Hypermethylation

cg07385604

1

ZNF644

TSS1500

S_Shore

0.1281

0.5720

0.4440

2.0756

9.33E-16

5.09E-11

110

Hypermethylation

cg12432168

10

LINC00702

Body

 

0.1558

0.6389

0.4832

1.9690

6.83E-15

1.31E-10

151

Hypermethylation

cg06305962

7

GSAP

Body

 

0.1249

0.5457

0.4208

2.0421

1.49E-14

1.91E-10

183

Hypermethylation

cg00071017

2

   

0.6112

0.1537

−0.4575

−1.9241

7.83E-16

5.09E-11

186

Hypomethylation

cg16530881

17

   

0.1080

0.5208

0.4127

2.1688

1.99E-13

7.07E-10

236

Hypermethylation

cg08246644

17

STAT5A

TSS1500;5’UTR;TS

S200

N_Shore

0.1009

0.5098

0.4089

2.2286

2.29E-15

7.97E-11

245

Hypermethylation

cg05171197

2

HDAC4

Body

 

0.1973

0.7523

0.5550

1.8785

1.65E-13

6.32E-10

247

Hypermethylation

cg16516970

8

NCALD

5’UTR

 

0.1567

0.6028

0.4461

1.8783

2.74E-14

2.4E-10

248

Hypermethylation

cg03432603

7

EXOC4

Body

 

0.6423

0.1335

−0.5088

−2.1842

2.14E-13

7.24E-10

249

Hypomethylation

cg01890417

1

ZNF644

TSS1500

S_Shore

0.1519

0.5773

0.4254

1.8592

2.75E-14

2.4E-10

274

Hypermethylation

cg00194325

2

TANC1

Body

 

0.1719

0.6446

0.4727

1.8473

5.54E-16

5.09E-11

290

Hypermethylation

cg25894955

9

ABCA1

Body

 

0.5371

0.1351

−0.4021

−1.9151

2.81E-14

2.4E-10

295

Hypomethylation

cg10560060

13

GJB2

5’UTR

N_Shelf

0.6623

0.1799

−0.4824

− 1.8238

2.4E-13

7.66E-10

329

Hypomethylation

cg10144055

2

   

0.1350

0.5324

0.3974

1.9032

7.42E-15

1.34E-10

336

Hypermethylation

cg19342952

13

GJB2

5’UTR

N_Shore

0.6449

0.1770

−0.4679

−1.8080

5.82E-14

3.81E-10

347

Hypomethylation

cg15612257

2

  

N_Shore

0.1547

0.5655

0.4108

1.8048

2.56E-15

7.97E-11

359

Hypermethylation

cg07863022

17

SEPT9;

5’UTR;Body;TSS15

00

 

0.1681

0.6076

0.4395

1.7937

3.99E-15

9.85E-11

375

Hypermethylation

cg02745009

3

ARHGAP3 1

Body

S_Shore

0.1718

0.6135

0.4417

1.7783

2.9E-13

8.24E-10

407

Hypermethylation

cg15782771

5

   

0.7396

0.2096

−0.5299

−1.7709

3.84E-14

3.03E-10

428

Hypomethylation

cg04272613

14

DAAM1

5’UTR

 

0.1508

0.5378

0.3869

1.7680

2.74E-15

7.97E-11

445

Hypermethylation

cg10017626

2

  

N_Shore

0.0988

0.4854

0.3866

2.1870

2.02E-13

7.07E-10

449

Hypermethylation

cg18248499

11

ROBO4

TSS1500

 

0.5057

0.1193

−0.3865

−1.9961

3.43E-13

9.24E-10

451

Hypomethylation

cg10841463

14

   

0.1646

0.5798

0.4153

1.7566

7.01E-17

1.69E-11

457

Hypermethylation

cg19497037

11

   

0.5188

0.1328

−0.3860

−1.8891

7.48E-13

1.37E-09

459

Hypomethylation

cg13800897

2

   

0.5754

0.1613

−0.4141

−1.7727

8.99E-13

1.55E-09

490

Hypomethylation

cg13632752

8

   

0.5831

0.1474

−0.4357

−1.9140

9.15E-13

1.56E-09

494

Hypomethylation

cg27277339

15

MYO5C

Body

 

0.1561

0.5455

0.3894

1.7417

9.65E-14

4.88E-10

496

Hypermethylation

cg19158326

22

GRAMD4

Body

 

0.0980

0.4793

0.3813

2.1796

3.91E-15

9.85E-11

514

Hypermethylation

cg20400915

17

STAT5A

TSS1500;5’UTR;TS

S200

N_Shore

0.0555

0.4492

0.3937

2.8086

1.02E-12

1.66E-09

519

Hypermethylation

cg20392201

1

FAM129A

Body

 

0.1263

0.5848

0.4585

2.1258

1.04E-12

1.69E-09

521

Hypermethylation

cg21879102

12

CIT

Body

N_Shore

0.1946

0.6605

0.4659

1.7127

2.61E-13

7.91E-10

549

Hypermethylation

cg14384093

9

C9orf5

Body

N_Shelf

0.1256

0.5097

0.3841

1.9381

1.25E-12

1.9E-09

557

Hypermethylation

cg18813270

2

HS1BP3-

IT1

TSS1500

 

0.6868

0.1911

−0.4957

−1.7929

1.3E-12

1.95E-09

564

Hypomethylation

cg19449565

2

HDAC4

Body

 

0.1691

0.6536

0.4845

1.8898

1.33E-12

1.96E-09

570

Hypermethylation

cg09187774

10

   

0.6165

0.1627

−0.4538

−1.8593

1.34E-12

1.98E-09

572

Hypomethylation

cg07980148

4

  

S_Shelf

0.6475

0.1624

−0.4852

−1.9317

1.36E-12

1.99E-09

573

Hypomethylation

cg03304533

11

   

0.6668

0.1977

−0.4690

−1.7040

3.09E-13

8.67E-10

576

Hypomethylation

cg08569613

17

STAT5A

TSS1500;5’UTR;TS

S200

N_Shore

0.0692

0.4453

0.3761

2.5226

6.22E-15

1.25E-10

578

Hypermethylation

cg06848849

1

ARHGEF10

L

Body

 

0.1451

0.5204

0.3753

1.7737

2.84E-14

2.4E-10

591

Hypermethylation

cg17164954

6

ARID1B

Body

S_Shelf

0.1656

0.5604

0.3948

1.6997

6.39E-13

1.24E-09

591

Hypermethylation

cg13733684

15

ZNF106

TSS200;Body

 

0.1724

0.5807

0.4083

1.6954

1.72E-14

1.99E-10

603

Hypermethylation

cg05669832

2

PRKD3

TSS1500

 

0.2068

0.6911

0.4843

1.6934

2.72E-13

8.02E-10

611

Hypermethylation

cg06382539

12

BHLHE41

Body

N_Shore

0.1759

0.5882

0.4123

1.6864

1.58E-12

2.14E-09

629

Hypermethylation

cg16303737

20

   

0.5411

0.1618

−0.3793

−1.6819

7.37E-13

1.36E-09

642

Hypomethylation

cg27335585

5

LOC101929

710

Body

 

0.7606

0.2298

−0.5308

− 1.6840

1.78E-12

2.31E-09

652

Hypomethylation

cg09185727

6

   

0.5467

0.1642

−0.3825

−1.6763

2.73E-13

8.02E-10

652

Hypomethylation

cg15350314

3

LOC101928

992

Body

 

0.1552

0.5574

0.4021

1.7797

1.85E-12

2.36E-09

658

Hypermethylation

cg11508674

14

FOXN3

Body

 

0.1648

0.6344

0.4696

1.8820

2.02E-12

2.49E-09

683

Hypermethylation

cg06610988

18

SETBP1

5’UTR

S_Shore

0.1684

0.5546

0.3862

1.6622

3.94E-14

3.06E-10

684

Hypermethylation

cg18492160

15

   

0.5276

0.1311

−0.3965

−1.9299

2.03E-12

2.49E-09

690

Hypomethylation

cg02921273

20

   

0.0980

0.4645

0.3664

2.1349

3.95E-14

3.06E-10

699

Hypermethylation

cg14167109

11

MAML2

Body

 

0.1594

0.5381

0.3787

1.6939

2.13E-12

2.55E-09

703

Hypermethylation

cg06373653

12

CD163L1

Body

 

0.4932

0.1277

−0.3656

−1.8699

2.3E-13

7.47E-10

709

Hypomethylation

cg09403144

18

SETBP1

Body

 

0.1549

0.5202

0.3653

1.6847

3.68E-14

2.96E-10

714

Hypermethylation

cg06746371

6

DCBLD1

Body

 

0.7344

0.2249

−0.5095

−1.6641

2.31E-12

2.68E-09

727

Hypomethylation

cg14002969

20

PTPRA

5’UTR

 

0.4985

0.1342

−0.3644

−1.8187

5.04E-13

1.11E-09

727

Hypomethylation

cg07076915

16

PKD1

Body

N_Shelf

0.2112

0.6851

0.4739

1.6517

2.48E-14

2.32E-10

728

Hypermethylation

cg27341747

6

   

0.2010

0.6524

0.4514

1.6503

5.21E-14

3.61E-10

732

Hypermethylation

cg20964957

4

   

0.5612

0.1185

−0.4428

−2.1527

2.39E-12

2.74E-09

736

Hypomethylation

cg19917507

18

ALPK2

Body

 

0.5863

0.1813

−0.4050

−1.6401

4.78E-13

1.08E-09

757

Hypomethylation

cg00925616

1

  

Island

0.0781

0.5172

0.4392

2.5818

2.61E-12

2.89E-09

762

Hypermethylation

cg13515269

12

BHLHE41

3’UTR

N_Shore

0.2078

0.6886

0.4809

1.6818

2.71E-12

2.96E-09

772

Hypermethylation

cg18638180

21

C21orf70

Body

S_Shore

0.1734

0.6318

0.4584

1.8073

2.93E-12

3.13E-09

791

Hypermethylation

cg17967134

17

MPRIP

Body

 

0.1283

0.4884

0.3601

1.8495

1.19E-12

1.83E-09

804

Hypermethylation

cg06373648

6

SYNGAP1

Body

 

0.1564

0.5160

0.3596

1.6604

4.57E-13

1.06E-09

818

Hypermethylation

cg14825152

1

   

0.1422

0.5010

0.3588

1.7475

4.83E-13

1.09E-09

828

Hypermethylation

cg08966889

6

TRAM2

Body

N_Shore

0.1747

0.5588

0.3840

1.6224

1.16E-12

1.81E-09

828

Hypermethylation

cg09443467

5

TENM2

Body

 

0.5807

0.1623

−0.4185

−1.7779

3.44E-12

3.49E-09

833

Hypomethylation

cg17758398

18

   

0.6251

0.1850

−0.4401

−1.7035

3.48E-12

3.51E-09

836

Hypomethylation

cg01821452

12

   

0.2138

0.6779

0.4641

1.6198

1.44E-12

2.06E-09

840

Hypermethylation

cg19663114

3

MED12L

Body

 

0.7670

0.2279

−0.5390

−1.7073

3.64E-12

3.6E-09

853

Hypomethylation

cg10624729

1

FAM73A

Body

 

0.1847

0.5864

0.4017

1.6152

1.53E-13

6.05E-10

857

Hypermethylation

cg26586287

11

   

0.6087

0.1625

−0.4463

−1.8430

3.74E-12

3.67E-09

859

Hypomethylation

cg23983887

1

VPS13D

Body

 

0.1546

0.5113

0.3567

1.6629

1.65E-12

2.21E-09

866

Hypermethylation

cg08921063

6

WASF1

5’UTR

 

0.4750

0.1185

−0.3565

−1.9164

2.02E-12

2.49E-09

871

Hypomethylation

cg14359656

17

SPAG9

Body

 

0.5856

0.1477

−0.4380

−1.9176

3.98E-12

3.81E-09

883

Hypomethylation

cg26754187

3

   

0.5241

0.1368

−0.3873

−1.8634

4E-12

3.81E-09

885

Hypomethylation

cg10126884

4

   

0.4827

0.1254

−0.3573

−1.8635

4.05E-12

3.85E-09

888

Hypomethylation

cg13355857

16

   

0.6967

0.1872

−0.5096

−1.8418

4.06E-12

3.85E-09

889

Hypomethylation

cg13568540

7

PKD1L1

Body

 

0.6599

0.1847

−0.4752

−1.7828

4.22E-12

3.95E-09

901

Hypomethylation

cg08611640

1

VPS13D

Body;Body

 

0.1109

0.4654

0.3546

1.9757

7.7E-15

1.34E-10

912

Hypermethylation

cg25322618

2

RAPGEF4

TSS200;Body

 

0.2041

0.6388

0.4347

1.5994

1.22E-13

5.62E-10

913

Hypermethylation

cg16669099

6

   

0.1801

0.5652

0.3851

1.5971

3.77E-12

3.69E-09

919

Hypermethylation

cg19712663

6

SLC22A23

Body

 

0.1017

0.4711

0.3694

2.1069

4.47E-12

4.07E-09

927

Hypermethylation

cg13720639

14

SIPA1L1

Body

 

0.1299

0.4946

0.3646

1.8502

4.5E-12

4.08E-09

929

Hypermethylation

cg04394003

12

C12orf75

TSS1500

N_Shore

0.1172

0.4703

0.3531

1.9170

3.46E-12

3.51E-09

931

Hypermethylation

cg17356718

2

HDAC4

Body

 

0.1435

0.5270

0.3835

1.8066

4.51E-12

4.08E-09

931

Hypermethylation

cg26639076

2

RIF1

3’UTR

 

0.1710

0.5360

0.3650

1.5930

7.11E-14

4.2E-10

936

Hypermethylation

cg07969739

10

BTAF1

Body

 

0.5137

0.1346

−0.3791

−1.8564

4.74E-12

4.17E-09

958

Hypomethylation

cg26125625

3

SLC12A8

Body

Island

0.1074

0.4587

0.3513

1.9968

2.24E-12

2.64E-09

965

Hypermethylation

cg18251218

1

   

0.0952

0.4461

0.3510

2.1169

1.17E-16

1.69E-11

967

Hypermethylation

cg23909079

10

GRID1

Body

 

0.6723

0.2146

−0.4577

−1.6031

4.92E-12

4.25E-09

977

Hypomethylation

cg24117274

1

RAP1GAP

Body

N_Shelf

0.1260

0.4766

0.3505

1.8387

7.37E-14

4.29E-10

979

Hypermethylation

cg09262171

16

ADCY9

Body

 

0.1896

0.5865

0.3970

1.5796

3.41E-14

2.78E-10

992

Hypermethylation

cg14600452

10

   

0.6088

0.1865

−0.4223

−1.6550

5.44E-12

4.53E-09

1014

Hypomethylation

cg24088496

11

MAML2

Body

 

0.1856

0.5727

0.3871

1.5747

1.73E-13

6.44E-10

1016

Hypermethylation

cg06968781

1

GMEB1

5’UTR

 

0.5323

0.1666

−0.3657

−1.6189

5.65E-12

4.63E-09

1030

Hypomethylation

cg03133881

1

MAST2

Body

 

0.5066

0.1589

−0.3477

−1.6128

5.41E-12

4.52E-09

1035

Hypomethylation

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