Table 2.
Univariate analysis of thirty-four positive SNPs.
| Number | SNP ID | Gene | Chr | MAF | Location | Genotype | n | p for H–W | p Value (Drug Response) | ||
|---|---|---|---|---|---|---|---|---|---|---|---|
| Codominant | Dominant | Recessive | |||||||||
| 1 | rs10097933 | CSMD1 | 8 | 0.14 | Intron_variant | TT/CT/CC | 116/46/3 | 0.52 | 0.895 | 0.650 | 0.828 |
| 2 | rs10775247 | TICRR | 15 | 0.34 | Missense_variant | CC/CT/TT | 73/80/12 | 0.11 | 0.162 | 0.087 | 0.701 |
| 3 | rs1105223 | CRB2 | 9 | 0.47 | Missense_variant | TT/CT/CC | 63/64/29 | 0.08 | 0.015 | 0.497 | 0.020 |
| 4 | rs11086065 | ANKLE1 | 19 | 0.29 | Missense_variant | AA/AG/GG | 69/72/21 | 0.74 | 0.017 | 0.004 | 0.272 |
| 5 | rs1142825 | CALML3 | 10 | 0.49 | Synonymous_variant | AA/AG/GG | 61/83/22 | 0.45 | 0.919 | 0.680 | 0.906 |
| 6 | rs11674608 | CHRNG | 2 | 0.42 | Upstream_gene_variant | GG/CG/CC | 57/79/29 | 0.86 | 0.698 | 0.789 | 0.504 |
| 7 | rs13026692 | ALPP | 2 | 0.46 | Missense_variant | TT/AT/AA | 45/85/36 | 0.73 | 0.849 | 0.693 | 0.792 |
| 8 | rs1802073 | SFRP4 | 7 | 0.46 | Missense_variant | TT/GT/GG | 57/88/21 | 0.15 | 0.021 | 0.005 | 0.520 |
| 9 | rs2075333 | TSPAN11 | 12 | 0.22 | Missense_variant | CC/CT/TT | 75/78/13 | 0.24 | 0.878 | 0.794 | 0.624 |
| 10 | rs2076015 | TMX4 | 20 | 0.38 | Missense_variant | TT/CT/CC | 62/83/21 | 0.40 | 0.607 | 0.588 | 0.520 |
| 11 | rs2235638 | IFT140 | 16 | 0.17 | Missense_variant | GG/AG/AA | 97/59/10 | 0.80 | 0.514 | 0.269 | 0.515 |
| 12 | rs2241984 | PTPN5 | 11 | 0.22 | Intron_variant | GG/AG/AA | 114/46/6 | 0.62 | 0.938 | 0.818 | 0.743 |
| 13 | rs2303022 | ANXA6 | 5 | 0.48 | Intron_variant | GG/CG/CC | 39/97/30 | 0.03 | 0.531 | 0.573 | 0.427 |
| 14 | rs2303694 | ELL | 19 | 0.10 | Missense_variant | CC/CT/TT | 132/33/1 | 0.49 | 0.682 | 0.850 | 0.415 |
| 15 | rs2376558 | TPCN2 | 11 | 0.48 | Missense_variant | CC/CT/TT | 45/94/26 | 0.05 | 0.367 | 0.284 | 0.541 |
| 16 | rs2547065 | MUC16 | 19 | 0.21 | Missense_variant | GG/CG/CC | 107/55/4 | 0.32 | 0.790 | 0.875 | 0.541 |
| 17 | rs2933352 | MUC19 | 12 | 0.26 | Missense_variant | TT/CT/CC | 91/61/14 | 0.41 | 0.660 | 0.487 | 0.747 |
| 18 | rs2933353 | MUC19 | 12 | 0.31 | Missense_variant | CC/AC/AA | 74/73/19 | 0.88 | 0.875 | 0.615 | 0.782 |
| 19 | rs322118 | COL6A5 | 3 | 0.16 | Splice_region_variant | AA/AG/GG | 103/54/7 | 0.98 | 0.191 | 0.351 | 0.079 |
| 20 | rs335824 | NCBP2 | 3 | 0.24 | Upstream_gene_variant | TT/CT/CC | 91/67/8 | 0.33 | 0.259 | 0.562 | 0.178 |
| 21 | rs3733160 | TBCCD1 | 3 | 0.11 | Upstream_gene_variant | GG/AG/AA | 122/42/1 | 0.19 | 0.715 | 0.942 | 0.413 |
| 22 | rs3741595 | ORAI1 | 12 | 0.18 | Synonymous_variant | CC/CT/TT | 80/73/12 | 0.40 | 0.428 | 0.428 | 0.435 |
| 23 | rs3748664 | HHIPL2 | 1 | 0.50 | Synonymous_variant | CC/CG/GG | 42/89/34 | 0.30 | 0.397 | 0.868 | 0.181 |
| 24 | rs3817475 | GLI1 | 12 | 0.29 | Intron_variant | AA/AG/GG | 96/57/13 | 0.28 | 0.797 | 0.789 | 0.642 |
| 25 | rs3821414 | ARHGEF3 | 3 | 0.36 | 3_Prime_UTR_variant | TT/CT/CC | 69/73/24 | 0.51 | 0.006 | 0.002 | 0.044 |
| 26 | rs386624809 | SLC36A3 | 5 | 0.42 | Missense_variant | CC/CT/TT | 44/92/30 | 0.13 | 0.927 | 0.856 | 0.702 |
| 27 | rs47 | THSD7A | 7 | 0.25 | Missense_variant | CC/CT/TT | 82/77/6 | 0.02 | 0.373 | 0.923 | 0.373 |
| 28 | rs56310840 | GBA | 1 | 0.25 | Downstream_gene_variant | AA/AG/GG | 82/64/19 | 0.24 | 0.340 | 0.239 | 0.215 |
| 29 | rs7133914 | LRRK2 | 12 | 0.10 | Missense_variant | GG/AG/AA | 120/24/3 | 0.19 | 0.948 | 0.744 | 0.921 |
| 30 | rs7146310 | IPO4 | 14 | 0.40 | Missense_variant | GG/AG/AA | 60/76/30 | 0.49 | 0.592 | 0.479 | 0.659 |
| 31 | rs72927138 | LIN54 | 4 | 0.49 | 5_Prime_UTR_variant | GG/AG/AA | 45/74/42 | 0.31 | 0.360 | 0.449 | 0.398 |
| 32 | rs74976577 | ISYNA1 | 19 | 0.17 | Downstream_gene_variant | GG/GT/TT | 101/59/6 | 0.46 | 0.486 | 0.356 | 0.602 |
| 33 | rs76310711 | TNXB | 6 | - | Missense_variant | CC/CG/GG | 57/92/14 | 0.01 | 0.543 | 0.360 | 0.418 |
| 34 | rs916235 | C1QTNF6 | 22 | 0.45 | 3_Prime_UTR_variant | TT/CT/CC | 50/84/32 | 0.76 | 0.769 | 0.516 | 0.608 |
SNP: single nucleotide polymorphism; Chr: chromosome; MAF: minor allele frequency; H–W: Hardy–Weinberg equilibrium; missense variant: a type of non-synonymous substitution. Bold and italics in p Value mean the result is significant; and bold in p for H–W mean the result is not consistent with Hardy–Weinberg equilibrium.