Table 3.
Allele frequencies of selected polymorphisms from patients and control individuals
| Gene | SNP ID | Alleles | Ancestral allele | AF (EN) | AF (CP) | AF (HapMap) | AF (EN + CP) |
|---|---|---|---|---|---|---|---|
| IL-10 | rs3024496 | C/T | C | C = 0.203 | C = 0.209 | C = 0.284 | C = 0.206 |
| T = 0.797 | T = 0.791 | T = 0.716 | T = 0.794 | ||||
| IL-10 | rs1800872 | A/C | C | A = 0.443 | A = 0.485 | A = 0.381 | A = 0.464 |
| C = 0.557 | C = 0.515 | C = 0.619 | C = 0.536 | ||||
| IL-10RA | rs3135932 | A/G | A | A = 0.839 | A = 0.855 | A = 0.805 | A = 0.847 |
| G = 0.161 | G = 0.145 | G = 0.195 | G = 0.153 | ||||
| IL-10RB | rs2834167 | A/G | A | A = 0.665 | A = 0.597 | A = 0.568 | A = 0.631 |
| G = 0.335 | G = 0.403 | G = 0.432 | G = 0.369 | ||||
| PD-1 | rs2227982 | C/T | C | C = 0.929 | C = 0.927 | C = 0.972 | C = 0.928 |
| T = 0.071 | T = 0.073 | T = 0.028 | T = 0.072 | ||||
| PD-1 | rs10204525 | A/G | A | A = 0.151 | A = 0.189 | A = 0.182 | A = 0.170 |
| G = 0.849 | G = 0.811 | G = 0.818 | G = 0.830 | ||||
| PD-L1 | rs4143815 | C/G | G | C = 0.151 | C = 0.141 | C = 0.148 | C = 0.146 |
| G = 0.849 | G = 0.859 | G = 0.852 | G = 0.854 | ||||
| PD-L2 | rs7854413 | C/T | T | C = 0.217 | C = 0.310 | C = 0.244 | C = 0.264 |
| T = 0.783 | T = 0.690 | T = 0.756 | T = 0.737 |
AF = allele frequency; CP = chronic pathology; EN = endemic normal; rs = reference SNP cluster ID number obtained from dbSNP; SNP = single-nucleotide polymorphism. Comparative analysis of AF between our study population and the HapMap database registered for Gujarati Indians for the selected polymorphisms in the IL-10 and PD-1 pathway genes.