title: Genome-wide DNA methylation patterns in CD4+ T cells from Chinese Han patients with rheumatoid arthritis.
abstract: BACKGROUND
  Rheumatoid arthritis (RA) is an autoimmune disease that causes chronic inflammation of the joints. Recent evidence indicated the epigenetic changes may contribute to the pathogenesis of RA.
  
  
  METHODS
  To understand the extent and nature of dysregulated DNA methylation in RA CD4T cells, we performed a genome-wide DNA methylation study in CD4 + T cells in 12 RA patients compared to 12 matched normal healthy controls. Cytosine methylation status was quantified with Illumina methylation 450K microarray.
  
  
  RESULTS
  The DNA methylation profiling showed 383 hyper- and 785 hypo-methylated genes in the CD4 + T cells of the RA patients (p < 3.4 × 10-7). Gene ontology analysis indicated transcript alternative splicing and protein modification mediated by DNA methylation might play an important role in the pathogenesis of RA. In addition, the result showed that human leukocyte antigen (HLA) region including HLA-DRB6, HLA-DQA1 and HLA-E was frequently hypomethylated, but HLA-DQB1 hypermethylated in CpG island region and hypomethylated in CpG shelf region in RA patients. Outside the MHC region, HDAC4, NXN, TBCD and TMEM61 were the most hypermethylated genes, while ITIH3, TCN2, PRDM16, SLC1A5 and GALNT9 are the most hypomethylated genes.
  
  
  CONCLUSIONS
  Genome-wide DNA methylation profile revealed significant DNA methylation change in CD4 + T cells from patients with RA.
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.
authors: Shicheng
authors: S
authors: Guo
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.
authors: Qi
authors: Q
authors: Zhu
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.|b Arthritis Institute of Integrated Traditional and Western Medicine, Shanghai Chinese Medicine Research Institute , Shanghai , China.
authors: Ting
authors: T
authors: Jiang
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.|b Arthritis Institute of Integrated Traditional and Western Medicine, Shanghai Chinese Medicine Research Institute , Shanghai , China.
authors: Rongsheng
authors: R
authors: Wang
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.|b Arthritis Institute of Integrated Traditional and Western Medicine, Shanghai Chinese Medicine Research Institute , Shanghai , China.
authors: Yi
authors: Y
authors: Shen
authors: c Guangdong Provincial Key Laboratory of Medical Molecular Diagnostics , Dongguan Scientific Research Center, Guangdong Medical University , Dongguan , China.
authors: Xiao
authors: X
authors: Zhu
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.
authors: Yan
authors: Y
authors: Wang
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.|b Arthritis Institute of Integrated Traditional and Western Medicine, Shanghai Chinese Medicine Research Institute , Shanghai , China.
authors: Fengmin
authors: F
authors: Bai
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.|b Arthritis Institute of Integrated Traditional and Western Medicine, Shanghai Chinese Medicine Research Institute , Shanghai , China.
authors: Qin
authors: Q
authors: Ding
authors: d University of Texas Medical School at Houston , Houston , TX , USA , and.
authors: Xiaodong
authors: X
authors: Zhou
authors: e Department of Immunology and Microbiology , Shanghai JiaoTong University School of Medicine , Shanghai , China.
authors: Guangjie
authors: G
authors: Chen
authors: a Department of Rheumatology , Shanghai Guanghua Hospital of Integrated Traditional and Western Medicine , Shanghai , China.|b Arthritis Institute of Integrated Traditional and Western Medicine, Shanghai Chinese Medicine Research Institute , Shanghai , China.
authors: Dong Yi
authors: DY
authors: He
mesh_terms: D000328:Adult; D001172:Arthritis, Rheumatoid / Q000235:genetics*; D015496:CD4-Positive T-Lymphocytes / Q000378:metabolism*; D016022:Case-Control Studies; D018899:CpG Islands; D019175:DNA Methylation; D005260:Female; D015894:Genome, Human; D006801:Humans; D008297:Male; D008875:Middle Aged
keywords: CD4 + T cells; DNA Methylation; Genome-wide; Illumina methylation 450k microarray; Rheumatoid arthritis