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Table 3 Differential DNA methylation between African-American and European-American lupus patients in CpG sites identified to be differentially hypomethylated in healthy African-Americans and located in genes connected to lupus using IRIDESCENT literature mining analysis

From: Ethnicity-specific epigenetic variation in naïve CD4+ T cells and the susceptibility to autoimmunity

CpG site Associated gene African-American average β European-American average β Δβ P value Location (chromosome: HG19 position)
cg12080831 GLI2 0.35 0.47 −0.13 7.92E−14 2:121697428
cg23112188 PCK2 0.31 0.46 −0.15 3.05E−12 14:24563095
cg22816218 RIPK1 0.71 0.85 −0.13 3.05E−12 6:3091462
cg12091331 PLAT 0.64 0.74 −0.10 3.05E−12 8:42065314
cg15844419 COL18A1 0.69 0.81 −0.12 1.35E−08 21:46850665
cg27509823 RC3H1 0.74 0.82 −0.08 1.18E−07 1:173930183
cg06193043 NPPA 0.64 0.74 −0.10 5.32E−06 1:11908199
cg00471190 IL32 0.23 0.36 −0.13 6.86E−06 16:3115809
cg00239353 IL32 0.53 0.72 −0.19 7.62E−06 16:3115133
cg20135711 ITGB7 0.70 0.80 −0.10 2.13E−05 12:53592259
cg17330251 PON1 0.49 0.62 −0.13 9.24E−05 7:94953956
cg23813257 IL32 0.24 0.32 −0.08 1.06E−04 16:3115286
cg01874867 PON1 0.45 0.57 −0.12 1.35E−04 7:94954059
cg19678392 PON1 0.55 0.66 −0.11 1.70E−04 7:94953810
cg20768743 CD226 0.17 0.24 −0.07 2.24E−04 18:67624846
cg04871131 PON1 0.62 0.72 −0.10 3.28E−04 7:94954202
cg08978665 IL32 0.31 0.40 −0.10 4.00E−04 16:3115707
cg09035930 SLC15A4 0.67 0.77 −0.11 7.40E−04 12:129282057
cg20119798 PON1 0.50 0.61 −0.10 7.68E−04 7:94954144
cg22216157 PTPRN2 0.68 0.79 −0.10 7.68E−04 7:157643037
cg24425727 CDKN1A 0.28 0.35 −0.06 2.81E−02 6:36645648
cg04548204 KLRG1 0.37 0.45 −0.08 5.99E−02 12:9162872
cg27473997 USP17 0.73 0.78 −0.05 9.89E−02 4:9355351
cg22798247 TAP2 0.84 0.86 −0.02 9.89E−02 6:32807372
cg18938907 GSTM1 0.28 0.22 0.05 3.83E−01 1:110230456
cg11680055 GSTM1 0.23 0.25 −0.02 5.38E−01 1:110230252
cg24506221 GSTM1 0.19 0.21 −0.02 7.71E−01 1:110230401
cg10950028 GSTM1 0.39 0.40 0.00 9.09E−01 1:110230633