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Table 1 Twenty-three differentially methylated sites corresponding to 9 genes

From: Identification of differentially methylated genes as diagnostic and prognostic biomarkers of breast cancer

Site

CHR

MAPINFO

Gene

Relation to CpG island

McaM

McoM

p value

BH.adjust

DMR

cg27429080

1

171810300

DNM3

N_Shore

0.5053

0.0615

9.76E−25

3.94E−24

DMR_94

cg17154724

1

171810322

DNM3

N_Shore

0.5041

0.0359

7.13E−25

2.90E−24

DMR_94

cg04399751

1

171810376

DNM3

N_Shore

0.4987

0.0487

1.43E−24

5.75E−24

DMR_94

cg04986015

1

171810433

DNM3

N_Shore

0.4563

0.0678

3.25E−25

1.34E−24

DMR_94

cg17816394

1

235814009

GNG4

Island

0.4519

0.0852

6.46E−29

3.12E−28

DMR_179

cg09649610

1

235814039

GNG4

Island

0.5248

0.0813

1.26E−30

6.61E−30

DMR_179

cg00384539

8

70983567

PRDM14

Island

0.4421

0.0848

1.01E−28

4.83E−28

DMR_612

cg13267264

8

70983600

PRDM14

Island

0.4375

0.0826

3.64E−26

1.56E−25

DMR_612

cg14416371

11

43602847

mir129-2

Island

0.4446

0.0395

6.48E−30

3.28E−29

DMR_166

cg01939477

11

43602879

mir129-2

Island

0.4054

0.0260

1.98E−30

1.03E−29

DMR_166

cg16407471

11

43602914

mir129-2

Island

0.4381

0.0688

5.40E−29

2.62E−28

DMR_166

cg05376374

11

43602920

mir129-2

Island

0.4158

0.0452

2.27E−33

1.36E−32

DMR_166

cg23179456

14

24803873

ADCY4

Island

0.4366

0.0623

7.06E−20

2.29E−19

DMR_181

cg12265829

14

24804022

ADCY4

Island

0.4506

0.0883

4.94E−22

1.77E−21

DMR_181

cg03217795

16

23847556

PRKCB

Island

0.4211

0.0246

1.49E−32

8.54E−32

DMR_224

cg05436658

16

23847568

PRKCB

Island

0.3785

0.0173

1.11E−29

5.53E−29

DMR_224

cg08065231

19

9473684

ZNF177

Island

0.4413

0.0755

1.61E−27

7.33E−27

DMR_244

cg09578475

19

9473688

ZNF177

Island

0.5619

0.1547

1.38E−29

6.86E−29

DMR_244

cg08305551

19

12978611

MAST1

Island

0.4241

0.0545

3.83E−30

1.96E−29

DMR_340

cg02776664

19

12978624

MAST1

Island

0.4069

0.0455

4.54E−33

2.68E−32

DMR_340

cg06537894

19

12978706

MAST1

Island

0.4117

0.0575

3.50E−24

1.38E−23

DMR_340

cg22304612

20

2781241

CPXM1

Island

0.4544

0.0626

2.41E−32

1.37E−31

DMR_97

cg07113642

20

2781262

CPXM1

Island

0.4436

0.0294

3.51E−29

1.72E−28

DMR_97

  1. CHR and MAPINFO represent chromosome and position information; McaM represents the mean methylation percentage of the cases, and the McoM represents the mean methylation percentage of the controls; DMR represents differentially methylated region; p value is calculated through the Wilcoxon rank-sum test followed by FDR (false discovery rate) adjustment for multiple correction