Supplementary Material for: Association Analysis of Tumor Necrosis Factor Alpha Promoter Polymorphisms and Vitiligo Susceptibility in South Indian Tamils

Tumor necrosis factor alpha (TNF-α) has been associated with the pathogenesis of several autoimmune diseases. Also, various studies in different ethnics showed an association between TNF-α gene polymorphisms and susceptibility to vitiligo. The paucity of genetic data led us to undertake this study to evaluate the association of five TNF-α SNPs (rs1799964, rs1800630, rs1799724, rs1800629, and rs361525) with the development of vitiligo in South Indian Tamils. A total of 264 vitiligo patients and 264 healthy controls were recruited and TNF-α genotyping was performed using amplification-refractory mutation system polymerase chain reaction and TaqMan allele discrimination assay. Circulatory TNF-α levels were measured by enzyme-linked immunosorbent assay. We observed that a single polymorphic allele A in the promoter region -308 (rs1800629) conferred significant risk to develop vitiligo (<i>p</i> = 0.0002, OR = 1.70, 95% CI = 1.28–2.25), whereas the other polymorphisms failed to contribute to disease risk (<i>p</i> &gt; 0.05). From the constructed haplotypes, TCCAG was found to be a significant risk factor for vitiligo (<i>p</i> &lt; 0.05). Also, a strong linkage disequilibrium was observed between the following SNPs: (1) rs1799964 and rs1800629 (2) rs1800630 and rs1799724 (D’ = 0.90). Analysis of the influence of genotype on phenotypes revealed that the A allele of rs361525 was a risk factor for vitiligo in females (<i>p</i> = 0.04, OR = 0.45, 95% CI = 0.21–0.95), whilst the rs1800629 allele conferred protection against early disease onset (<i>p</i> &lt; 0.05). A statistically significant difference in plasma TNF-α levels was found between cases and controls (<i>p</i> &lt; 0.05). The TNF-α -308A allele and TCCAG haplotype were identified as genetic risk factors for vitiligo susceptibility in South Indian Tamils.