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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.