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Volumn 75, Issue 11, 2016, Pages 2029-2036

Genome-wide DNA methylation analysis in multiple tissues in primary Sjögren's syndrome reveals regulatory effects at interferon-induced genes

Author keywords

Autoimmunity; B cells; Gene Polymorphism; Sj gren's Syndrome

Indexed keywords

CD19 ANTIGEN; HISTONE; INTERFERON; MESSENGER RNA; 2',5' OLIGOADENYLATE SYNTHETASE; 2',5'-OLIGOADENYLATE SYNTHETASE 2, HUMAN; ANTIGEN; CYTOSKELETON PROTEIN; IFI44 PROTEIN, HUMAN; MX1 PROTEIN, HUMAN; MYXOVIRUS RESISTANCE PROTEIN; NICOTINAMIDE ADENINE DINUCLEOTIDE ADENOSINE DIPHOSPHATE RIBOSYLTRANSFERASE; PARP9 PROTEIN, HUMAN; TUMOR PROTEIN;

EID: 84958068675     PISSN: 00034967     EISSN: 14682060     Source Type: Journal    
DOI: 10.1136/annrheumdis-2015-208659     Document Type: Article
Times cited : (156)

References (46)
  • 1
    • 34948848078 scopus 로고    scopus 로고
    • Sjogrens syndrome-A plethora of clinical and immunological phenotypes with a complex genetic background
    • Jonsson R, Bolstad AI, Brokstad KA, et al. Sjogrens syndrome-A plethora of clinical and immunological phenotypes with a complex genetic background. Ann N Y Acad Sci 2007;1108:433-47.
    • (2007) Ann N y Acad Sci , vol.1108 , pp. 433-447
    • Jonsson, R.1    Bolstad, A.I.2    Brokstad, K.A.3
  • 2
    • 84883448195 scopus 로고    scopus 로고
    • Advances in understanding the pathogenesis of primary Sjögrens syndrome
    • Nocturne G, Mariette X. Advances in understanding the pathogenesis of primary Sjögrens syndrome. Nat Rev Rheumatol 2013;9:544-56.
    • (2013) Nat Rev Rheumatol , vol.9 , pp. 544-556
    • Nocturne, G.1    Mariette, X.2
  • 3
    • 17244372491 scopus 로고    scopus 로고
    • Activation of the type i interferon system in primary Sjögrens syndrome: A possible etiopathogenic mechanism
    • Bave U, Nordmark G, Lövgren T, et al. Activation of the type I interferon system in primary Sjögrens syndrome: A possible etiopathogenic mechanism. Arthritis Rheum 2005;52:1185-95.
    • (2005) Arthritis Rheum , vol.52 , pp. 1185-1195
    • Bave, U.1    Nordmark, G.2    Lövgren, T.3
  • 4
    • 33644530664 scopus 로고    scopus 로고
    • Activation of IFN pathways and plasmacytoid dendritic cell recruitment in target organs of primary Sjögrens syndrome
    • Gottenberg JE, Cagnard N, Lucchesi C, et al. Activation of IFN pathways and plasmacytoid dendritic cell recruitment in target organs of primary Sjögrens syndrome. Proc Natl Acad Sci USA 2006;103:2770-5.
    • (2006) Proc Natl Acad Sci USA , vol.103 , pp. 2770-2775
    • Gottenberg, J.E.1    Cagnard, N.2    Lucchesi, C.3
  • 5
    • 18644364840 scopus 로고    scopus 로고
    • Gene expression profiling of minor salivary glands clearly distinguishes primary Sjögrens syndrome patients from healthy control subjects
    • Hjelmervik TO, Petersen K, Jonassen I, et al. Gene expression profiling of minor salivary glands clearly distinguishes primary Sjögrens syndrome patients from healthy control subjects. Arthritis Rheum 2005;52:1534-44.
    • (2005) Arthritis Rheum , vol.52 , pp. 1534-1544
    • Hjelmervik, T.O.1    Petersen, K.2    Jonassen, I.3
  • 6
    • 67349105006 scopus 로고    scopus 로고
    • Peripheral blood gene expression profiling in Sjögrens syndrome
    • Emamian ES, Leon JM, Lessard CJ, et al. Peripheral blood gene expression profiling in Sjögrens syndrome. Genes Immun 2009;10:285-96.
    • (2009) Genes Immun , vol.10 , pp. 285-296
    • Emamian, E.S.1    Leon, J.M.2    Lessard, C.J.3
  • 7
    • 84875958991 scopus 로고    scopus 로고
    • Prevalence of interferon type i signature in CD14 monocytes of patients with Sjögrens syndrome and association with disease activity and BAFF gene expression
    • Brkic Z, Maria NI, van Helden-Meeuwsen CG, et al. Prevalence of interferon type I signature in CD14 monocytes of patients with Sjögrens syndrome and association with disease activity and BAFF gene expression. Ann Rheum Dis 2013;72:728-35.
    • (2013) Ann Rheum Dis , vol.72 , pp. 728-735
    • Brkic, Z.1    Maria, N.I.2    Van Helden-Meeuwsen, C.G.3
  • 8
    • 33744503669 scopus 로고    scopus 로고
    • Lymphoma and other malignancies in primary Sjögrens syndrome: A cohort study on cancer incidence and lymphoma predictors
    • Theander E, Henriksson G, Ljungberg O, et al. Lymphoma and other malignancies in primary Sjögrens syndrome: A cohort study on cancer incidence and lymphoma predictors. Ann Rheum Dis 2006;65:796-803.
    • (2006) Ann Rheum Dis , vol.65 , pp. 796-803
    • Theander, E.1    Henriksson, G.2    Ljungberg, O.3
  • 9
    • 84887116043 scopus 로고    scopus 로고
    • Variants at multiple loci implicated in both innate and adaptive immune responses are associated with Sjögrens syndrome
    • Lessard CJ, Li H, Adrianto I, et al. Variants at multiple loci implicated in both innate and adaptive immune responses are associated with Sjögrens syndrome. Nat Genet 2013;45:1284-92.
    • (2013) Nat Genet , vol.45 , pp. 1284-1292
    • Lessard, C.J.1    Li, H.2    Adrianto, I.3
  • 10
    • 84887085183 scopus 로고    scopus 로고
    • A genome-wide association study in Han Chinese identifies a susceptibility locus for primary Sjögrens syndrome at 7q11.23
    • Li Y, Zhang K, Chen H, et al. A genome-wide association study in Han Chinese identifies a susceptibility locus for primary Sjögrens syndrome at 7q11.23. Nat Genet 2013;45:1361-5.
    • (2013) Nat Genet , vol.45 , pp. 1361-1365
    • Li, Y.1    Zhang, K.2    Chen, H.3
  • 11
    • 84862783723 scopus 로고    scopus 로고
    • Genetics of Sjögrens syndrome in the genome-wide association era
    • Ice JA, Li H, Adrianto I, et al. Genetics of Sjögrens syndrome in the genome-wide association era. J Autoimmun 2012;39:57-63.
    • (2012) J Autoimmun , vol.39 , pp. 57-63
    • Ice, J.A.1    Li, H.2    Adrianto, I.3
  • 12
    • 84898467403 scopus 로고    scopus 로고
    • The contribution of epigenetics in Sjögrens Syndrome
    • Konsta OD, Thabet Y, Le Dantec C, et al. The contribution of epigenetics in Sjögrens Syndrome. Front Genet 2014;5:71.
    • (2014) Front Genet , vol.5 , pp. 71
    • Konsta, O.D.1    Thabet, Y.2    Le Dantec, C.3
  • 13
    • 80053304450 scopus 로고    scopus 로고
    • High density DNA methylation array with single CpG site resolution
    • Bibikova M, Barnes B, Tsan C, et al. High density DNA methylation array with single CpG site resolution. Genomics 2011;98:288-95.
    • (2011) Genomics , vol.98 , pp. 288-295
    • Bibikova, M.1    Barnes, B.2    Tsan, C.3
  • 14
    • 84896266991 scopus 로고    scopus 로고
    • Genome-wide DNA methylation patterns in naive CD4+ T cells from patients with primary Sjögrens syndrome
    • Altorok N, Coit P, Hughes T, et al. Genome-wide DNA methylation patterns in naive CD4+ T cells from patients with primary Sjögrens syndrome. Genomics 2014;66:731-9.
    • (2014) Genomics , vol.66 , pp. 731-739
    • Altorok, N.1    Coit, P.2    Hughes, T.3
  • 15
    • 84937598807 scopus 로고    scopus 로고
    • Overlap between differentially methylated DNA regions in blood B lymphocytes and genetic at-risk loci in primary Sjogrens syndrome
    • Miceli-Richard C, Wang-Renault SF, Boudaoud S, et al. Overlap between differentially methylated DNA regions in blood B lymphocytes and genetic at-risk loci in primary Sjogrens syndrome. Ann Rheum Dis 2016;75:933-40.
    • Ann Rheum Dis , vol.2016 , Issue.75 , pp. 933-940
    • Miceli-Richard, C.1    Wang-Renault, S.F.2    Boudaoud, S.3
  • 17
    • 0036092482 scopus 로고    scopus 로고
    • Classification criteria for Sjogrens syndrome: A revised version of the European criteria proposed by the American-European Consensus Group
    • Vitali C, Bombardieri S, Jonsson R, et al. Classification criteria for Sjogrens syndrome: A revised version of the European criteria proposed by the American-European Consensus Group. Ann Rheum Dis 2002;61:554-8.
    • (2002) Ann Rheum Dis , vol.61 , pp. 554-558
    • Vitali, C.1    Bombardieri, S.2    Jonsson, R.3
  • 18
    • 84886733689 scopus 로고    scopus 로고
    • Association of genes in the NF-kB pathway with antibody-positive primary Sjogrens syndrome
    • Nordmark G, Wang C, Vasaitis L, et al. Association of genes in the NF-kB pathway with antibody-positive primary Sjogrens syndrome. Scand J Immunol 2013;78:447-54.
    • (2013) Scand J Immunol , vol.78 , pp. 447-454
    • Nordmark, G.1    Wang, C.2    Vasaitis, L.3
  • 19
    • 84930440712 scopus 로고    scopus 로고
    • IFN-Alpha production by plasmacytoid dendritic cell associations with polymorphisms in gene loci related to autoimmune and inflammatory diseases
    • Berggren O, Alexsson A, Morris DL, et al. IFN-Alpha production by plasmacytoid dendritic cell associations with polymorphisms in gene loci related to autoimmune and inflammatory diseases. Hum Mol Genet 2015;24:3571-81.
    • (2015) Hum Mol Genet , vol.24 , pp. 3571-3581
    • Berggren, O.1    Alexsson, A.2    Morris, D.L.3
  • 20
    • 84966299175 scopus 로고    scopus 로고
    • R Core Development Team. R. Vienna Austria: R Foundation for Statistical Computing
    • R Core Development Team. R: A Language and Environment for Statistical Computing. Vienna, Austria: R Foundation for Statistical Computing, 2011.
    • (2011) A Language and Environment for Statistical Computing
  • 21
    • 84897548625 scopus 로고    scopus 로고
    • Minfi: A flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays
    • Aryee MJ, Jaffe AE, Corrada-Bravo H, et al. Minfi: A flexible and comprehensive Bioconductor package for the analysis of Infinium DNA methylation microarrays. Bioinformatics 2014;30:1363-9.
    • (2014) Bioinformatics , vol.30 , pp. 1363-1369
    • Aryee, M.J.1    Jaffe, A.E.2    Corrada-Bravo, H.3
  • 22
    • 84862173149 scopus 로고    scopus 로고
    • SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips
    • Maksimovic J, Gordon L, Oshlack A. SWAN: Subset-quantile within array normalization for illumina infinium HumanMethylation450 BeadChips. Genome Biol 2012;13:R44.
    • (2012) Genome Biol , vol.13 , pp. R44
    • Maksimovic, J.1    Gordon, L.2    Oshlack, A.3
  • 23
    • 84860637797 scopus 로고    scopus 로고
    • DNA methylation arrays as surrogate measures of cell mixture distribution
    • Houseman EA, Accomando WP, Koestler DC, et al. DNA methylation arrays as surrogate measures of cell mixture distribution. BMC bioinformatics 2012;13:86.
    • (2012) BMC Bioinformatics , vol.13 , pp. 86
    • Houseman, E.A.1    Accomando, W.P.2    Koestler, D.C.3
  • 24
    • 84864359044 scopus 로고    scopus 로고
    • Differential DNA methylation in purified human blood cells: Implications for cell lineage and studies on disease susceptibility
    • Reinius LE, Acevedo N, Joerink M, et al. Differential DNA methylation in purified human blood cells: implications for cell lineage and studies on disease susceptibility. PLoS ONE 2012;7:e41361.
    • (2012) PLoS ONE , vol.7 , pp. e41361
    • Reinius, L.E.1    Acevedo, N.2    Joerink, M.3
  • 25
    • 84861743958 scopus 로고    scopus 로고
    • RNA-SeQC: RNA-seq metrics for quality control and process optimization
    • DeLuca DS, Levin JZ, Sivachenko A, et al. RNA-SeQC: RNA-seq metrics for quality control and process optimization. Bioinformatics 2012;28:1530-2.
    • (2012) Bioinformatics , vol.28 , pp. 1530-1532
    • DeLuca, D.S.1    Levin, J.Z.2    Sivachenko, A.3
  • 26
    • 84859885816 scopus 로고    scopus 로고
    • Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks
    • Trapnell C, Roberts A, Goff L, et al. Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks. Nat Protoc 2012;7:562-78.
    • (2012) Nat Protoc , vol.7 , pp. 562-578
    • Trapnell, C.1    Roberts, A.2    Goff, L.3
  • 27
    • 84876996918 scopus 로고    scopus 로고
    • TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions
    • Kim D, Pertea G, Trapnell C, et al. TopHat2: Accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions. Genome Biol 2013;14:R36.
    • (2013) Genome Biol , vol.14 , pp. R36
    • Kim, D.1    Pertea, G.2    Trapnell, C.3
  • 28
    • 34548292504 scopus 로고    scopus 로고
    • PLINK: A tool set for whole-genome association and population-based linkage analyses
    • Purcell S, Neale B, Todd-Brown K, et al. PLINK: A tool set for whole-genome association and population-based linkage analyses. Am J Hum Genet 2007;81:559-75.
    • (2007) Am J Hum Genet , vol.81 , pp. 559-575
    • Purcell, S.1    Neale, B.2    Todd-Brown, K.3
  • 29
    • 78651515640 scopus 로고    scopus 로고
    • Human MxA protein: An interferon-induced dynamin-like GTPase with broad antiviral activity
    • Haller O, Kochs G. Human MxA protein: An interferon-induced dynamin-like GTPase with broad antiviral activity. J Interferon Cytokine Res 2011;31:79-87.
    • (2011) J Interferon Cytokine Res , vol.31 , pp. 79-87
    • Haller, O.1    Kochs, G.2
  • 30
    • 0036352693 scopus 로고    scopus 로고
    • Cloning of a novel Olf-1/EBF-like gene, O/E-4, by degenerate oligo-based direct selection
    • Wang SS, Betz AG, Reed RR. Cloning of a novel Olf-1/EBF-like gene, O/E-4, by degenerate oligo-based direct selection. Mol Cell Neurosci 2002;20:404-14.
    • (2002) Mol Cell Neurosci , vol.20 , pp. 404-414
    • Wang, S.S.1    Betz, A.G.2    Reed, R.R.3
  • 31
    • 34347206680 scopus 로고    scopus 로고
    • The human 20-50oligoadenylate synthetase family: Unique interferon-inducible enzymes catalyzing 20-50 instead of 30-50 phosphodiester bond formation
    • Hovanessian AG, Justesen J. The human 20-50oligoadenylate synthetase family: unique interferon-inducible enzymes catalyzing 20-50 instead of 30-50 phosphodiester bond formation. Biochimie 2007;89:779-88.
    • (2007) Biochimie , vol.89 , pp. 779-788
    • Hovanessian, A.G.1    Justesen, J.2
  • 32
    • 84865352321 scopus 로고    scopus 로고
    • Primary Sjogrens syndrome and the type i interferon system
    • Nordmark G, Eloranta ML, Ronnblom L. Primary Sjogrens syndrome and the type I interferon system. Curr Pharm Biotechnol 2012;13:2054-62.
    • (2012) Curr Pharm Biotechnol , vol.13 , pp. 2054-2062
    • Nordmark, G.1    Eloranta, M.L.2    Ronnblom, L.3
  • 33
    • 84940836792 scopus 로고    scopus 로고
    • Type i and II interferon signatures in Sjogrens syndrome pathogenesis: Contributions in distinct clinical phenotypes and Sjogrens related lymphomagenesis
    • Nezos A, Gravani F, Tassidou A, et al. Type I and II interferon signatures in Sjogrens syndrome pathogenesis: contributions in distinct clinical phenotypes and Sjogrens related lymphomagenesis. J Autoimmun 2015;63:47-58.
    • (2015) J Autoimmun , vol.63 , pp. 47-58
    • Nezos, A.1    Gravani, F.2    Tassidou, A.3
  • 34
    • 79953161285 scopus 로고    scopus 로고
    • The type i interferon system in the development of lupus
    • Rönnblom L, Alm GV, Eloranta ML. The type I interferon system in the development of lupus. Semin Immunol 2011;23:113-21.
    • (2011) Semin Immunol , vol.23 , pp. 113-121
    • Rönnblom, L.1    Alm, G.V.2    Eloranta, M.L.3
  • 35
    • 84899902260 scopus 로고    scopus 로고
    • MxA as a clinically applicable biomarker for identifying systemic interferon type i in primary Sjogrens syndrome
    • Maria NI, Brkic Z, Waris M, et al. MxA as a clinically applicable biomarker for identifying systemic interferon type I in primary Sjogrens syndrome. Ann Rheum Dis 2014;73:1052-9.
    • (2014) Ann Rheum Dis , vol.73 , pp. 1052-1059
    • Maria, N.I.1    Brkic, Z.2    Waris, M.3
  • 36
    • 84878361920 scopus 로고    scopus 로고
    • Genome-wide DNA methylation study suggests epigenetic accessibility and transcriptional poising of interferon-regulated genes in naive CD4+ T cells from lupus patients
    • Coit P, Jeffries M, Altorok N, et al. Genome-wide DNA methylation study suggests epigenetic accessibility and transcriptional poising of interferon-regulated genes in naive CD4+ T cells from lupus patients. J Autoimmun 2013;43:78-84.
    • (2013) J Autoimmun , vol.43 , pp. 78-84
    • Coit, P.1    Jeffries, M.2    Altorok, N.3
  • 37
    • 84884634092 scopus 로고    scopus 로고
    • Genome-wide DNA methylation analysis of systemic lupus erythematosus reveals persistent hypomethylation of interferon genes and compositional changes to CD4+ T-cell populations
    • Absher DM, Li X, Waite LL, et al. Genome-wide DNA methylation analysis of systemic lupus erythematosus reveals persistent hypomethylation of interferon genes and compositional changes to CD4+ T-cell populations. PLoS Genet 2013;9:e1003678.
    • (2013) PLoS Genet , vol.9 , pp. e1003678
    • Absher, D.M.1    Li, X.2    Waite, L.L.3
  • 38
    • 84908483075 scopus 로고    scopus 로고
    • DNA methylation and mRNA and microRNA expression of SLE CD4+ T cells correlate with disease phenotype
    • Zhao M, Liu S, Luo S, et al. DNA methylation and mRNA and microRNA expression of SLE CD4+ T cells correlate with disease phenotype. J Autoimmun 2014;54:127-36.
    • (2014) J Autoimmun , vol.54 , pp. 127-136
    • Zhao, M.1    Liu, S.2    Luo, S.3
  • 39
    • 84930379392 scopus 로고    scopus 로고
    • Epigenome profiling reveals significant DNA demethylation of interferon signature genes in lupus neutrophils
    • Coit P, Yalavarthi S, Ognenovski M, et al. Epigenome profiling reveals significant DNA demethylation of interferon signature genes in lupus neutrophils. J Autoimmun 2015;58:59-66.
    • (2015) J Autoimmun , vol.58 , pp. 59-66
    • Coit, P.1    Yalavarthi, S.2    Ognenovski, M.3
  • 40
    • 79952280367 scopus 로고    scopus 로고
    • Association of EBF1 FAM167A (C8orf13)-BLK and TNFSF4 gene variants with primary Sjögrens syndrome
    • Nordmark G, Kristjansdottir G, Theander E, et al. Association of EBF1, FAM167A (C8orf13)-BLK and TNFSF4 gene variants with primary Sjögrens syndrome. Genes Immun 2011;12:100-9.
    • (2011) Genes Immun , vol.12 , pp. 100-109
    • Nordmark, G.1    Kristjansdottir, G.2    Theander, E.3
  • 41
    • 84878644504 scopus 로고    scopus 로고
    • BAL1/ARTD9 represses the anti-proliferative and pro-Apoptotic IFNg-STAT1-IRF1-p53 axis in diffuse large B-cell lymphoma
    • Camicia R, Bachmann SB, Winkler HC, et al. BAL1/ARTD9 represses the anti-proliferative and pro-Apoptotic IFNg-STAT1-IRF1-p53 axis in diffuse large B-cell lymphoma. J Cell Sci 2013;126(Pt 9):1969-80.
    • (2013) J Cell Sci , vol.126 , pp. 1969-1980
    • Camicia, R.1    Bachmann, S.B.2    Winkler, H.C.3
  • 42
    • 84892863959 scopus 로고    scopus 로고
    • Lymphoma development in patients with autoimmune and inflammatory disorders-what are the driving forces?
    • Baecklund E, Smedby KE, Sutton LA, et al. Lymphoma development in patients with autoimmune and inflammatory disorders-what are the driving forces? Semin Cancer Biol 2014;24:61-70.
    • (2014) Semin Cancer Biol , vol.24 , pp. 61-70
    • Baecklund, E.1    Smedby, K.E.2    Sutton, L.A.3
  • 43
    • 84928761297 scopus 로고    scopus 로고
    • The alternative role of DNA methylation in splicing regulation
    • Lev Maor G, Yearim A, Ast G. The alternative role of DNA methylation in splicing regulation. Trends Genet 2015;31:274-80.
    • (2015) Trends Genet , vol.31 , pp. 274-280
    • Lev Maor, G.1    Yearim, A.2    Ast, G.3
  • 44
    • 84904820156 scopus 로고    scopus 로고
    • Methylation differences at the HLA-DRB1 locus in CD4+ T-Cells are associated with multiple sclerosis
    • Graves M, Benton M, Lea R, et al. Methylation differences at the HLA-DRB1 locus in CD4+ T-Cells are associated with multiple sclerosis. Mult Scler 2013;20:1033-41.
    • (2013) Mult Scler , vol.20 , pp. 1033-1041
    • Graves, M.1    Benton, M.2    Lea, R.3
  • 45
    • 84881555502 scopus 로고    scopus 로고
    • MiR-223: Infection, inflammation and cancer
    • Haneklaus M, Gerlic M, ONeill LA, et al. miR-223: infection, inflammation and cancer. J Intern Med 2013;274:215-26.
    • (2013) J Intern Med , vol.274 , pp. 215-226
    • Haneklaus, M.1    Gerlic, M.2    Oneill, L.A.3
  • 46
    • 79551656688 scopus 로고    scopus 로고
    • MicroRNA expression profiles as biomarkers of minor salivary gland inflammation and dysfunction in Sjögrens syndrome
    • Alevizos I, Alexander S, Turner RJ, et al. MicroRNA expression profiles as biomarkers of minor salivary gland inflammation and dysfunction in Sjögrens syndrome. Arthritis Rheum 2011;63:535-44.
    • (2011) Arthritis Rheum , vol.63 , pp. 535-544
    • Alevizos, I.1    Alexander, S.2    Turner, R.J.3


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