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Table 1 Genes associated with probes identified by Infinium HumanMethylation27K BeadChip array as significantly differentially methylated (a) between all cases and controls (20 most significant loci shown – for a full list refer to Additional file 1 : Table S2), and (b) between MTX-naïve cases and controls

From: Genome-scale case-control analysis of CD4+ T-cell DNA methylation in juvenile idiopathic arthritis reveals potential targets involved in disease

 

Gene

p value

Adjusted p value*

B

Case relative to control

Median controls

Median cases

Difference

(a)

ALDOB

6.64E-05

0.069

1.727

Higher

0.715

0.791

0.075

 

C8ORFK32

4.09E-05

0.067

2.146

Higher

0.754

0.794

0.040

 

DGKH

6.38E-05

0.069

1.762

Lower

0.114

0.089

0.025

 

FLJ20581

2.65E-05

0.067

2.519

Higher

0.877

0.924

0.047

 

FLJ36004

4.65E-05

0.067

2.036

Higher

0.738

0.823

0.085

 

GCET2

5.88E-06

0.067

3.803

Lower

0.152

0.107

0.044

 

GRM5

3.36E-05

0.067

2.317

Higher

0.78

0.846

0.066

 

GYPE

1.72E-05

0.067

2.893

Higher

0.688

0.781

0.093

 

LILRB4

3.39E-05

0.067

2.309

Higher

0.823

0.866

0.043

 

LOC90826

1.22E-05

0.067

3.185

Lower

0.142

0.091

0.051

 

MEF2C

3.57E-05

0.067

2.263

Lower

0.075

0.056

0.019

 

MRPL28

4.03E-05

0.067

2.159

Lower

0.875

0.685

0.190

 

NR1I2

3.38E-05

0.067

2.311

Higher

0.842

0.89

0.047

 

PRH1

2.84E-05

0.067

2.461

Higher

0.813

0.875

0.062

 

RAD51L3

4.58E-05

0.067

2.049

Lower

0.277

0.202

0.075

 

Rgr

4.12E-06

0.067

4.102

Higher

0.894

0.931

0.037

 

SCOC

4.74E-05

0.067

2.019

Higher

0.765

0.825

0.060

 

SLC13A3

2.35E-05

0.067

2.624

Higher

0.712

0.784

0.073

 

TIMM8B

1.56E-05

0.067

2.972

Lower

0.124

0.079

0.045

 

TRAM1L1

4.51E-05

0.067

2.063

Lower

0.224

0.142

0.083

(b)

PRKRA

7.51E-07

0.019

4.225

Higher

0.061

0.063

0.002

 

HOXB4

3.46E-06

0.044

3.177

Lower

0.073

0.064

0.009

 

C6orf203

1.02E-05

0.049

2.415

Lower

0.095

0.084

0.011

 

HCRTR1

1.20E-05

0.049

2.300

Higher

0.659

0.716

0.057

 

C9orf43

1.23E-05

0.049

2.281

Higher

0.043

0.046

0.003

 

LIN37

1.31E-05

0.049

2.239

Higher

0.031

0.032

0.001

 

MEP1A

1.63E-05

0.049

2.084

Higher

0.882

0.927

0.045

 

NDUFB10

1.79E-05

0.049

2.018

Higher

0.026

0.027

0.001

 

RCAN2

1.82E-05

0.049

2.003

Higher

0.879

0.906

0.027

 

IL32

1.91E-05

0.049

1.969

Lower

0.335

0.298

0.037

 

SOCS2

2.35E-05

0.054

1.821

Lower

0.098

0.076

0.022

  1. * P value following adjustment for false discovery rate (FDR).
  2. B = log-odds that the probe is differentially methylated.
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Clinical Epigenetics

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