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 |