Table 2.
Top 30 SNPs from genome-wide association study of post-RT pain among breast cancer patients
| Allele | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|
| Chr | SNP | BP | Minor | Major | MAF | OR1 | 95% CI | Pvalue1 | Nearest gene | |
| 17 | rs16970540 | 33,338,447 | T | C | 0.10 | 2.20 | 1.59 | 3.04 | 1.73E-06 | RFFL, LIG3 |
| 13 | rs4584690 | 95,680,132 | T | C | 0.18 | 1.85 | 1.42 | 2.42 | 5.46E-06 | ABCC4(MRP4) |
| 13 | rs7335912 | 95,667,680 | G | A | 0.19 | 1.80 | 1.39 | 2.33 | 7.81E-06 | ABCC4(MRP4) |
| 23 | rs73633565 | 13,477,311 | G | A | 0.16 | 1.90 | 1.43 | 2.52 | 8.06E-06 | EGFL6 |
| 18 | rs986117 | 44,128,503 | C | A | 0.36 | 1.62 | 1.31 | 2.01 | 1.04E-05 | LOXHD1 |
| 3 | rs6800849 | 11,790,188 | A | C | 0.17 | 1.84 | 1.40 | 2.41 | 1.15E-05 | VGLL4 |
| 2 | rs13031207 | 226,076,914 | G | A | 0.23 | 1.72 | 1.35 | 2.20 | 1.30E-05 | DOCK10 |
| 17 | rs10083888 | 33,402,980 | T | C | 0.11 | 2.00 | 1.47 | 2.73 | 1.30E-05 | RFFL |
| 7 | rs1108228 | 51,787,366 | A | G | 0.46 | 1.61 | 1.30 | 1.99 | 1.40E-05 | COBL |
| 9 | rs10901329 | 133,924,008 | G | A | 0.43 | 0.61 | 0.49 | 0.76 | 1.41E-05 | LAMC3 |
| 15 | rs4497630 | 30,276,341 | A | G | 0.26 | 0.57 | 0.45 | 0.74 | 1.62E-05 | FAM7A3 |
| 14 | rs11849204 | 34,332,971 | G | A | 0.11 | 1.98 | 1.45 | 2.70 | 1.62E-05 | NPAS3 |
| 11 | rs76647546 | 88,929,531 | G | A | 0.06 | 2.57 | 1.67 | 3.97 | 1.84E-05 | TYR |
| 7 | rs12374901 | 15,024,954 | T | C | 0.43 | 0.62 | 0.50 | 0.77 | 1.88E-05 | DGKB |
| 9 | rs10973146 | 3,706,109 | G | A | 0.06 | 2.42 | 1.61 | 3.65 | 2.13E-05 | GLIS3 |
| 13 | rs17189292 | 95,685,572 | G | A | 0.13 | 1.96 | 1.44 | 2.68 | 2.21E-05 | ABCC4(MRP4) |
| 6 | rs72904381 | 83,130,109 | C | T | 0.45 | 0.63 | 0.51 | 0.78 | 2.30E-05 | TPBG |
| 9 | rs2275139 | 133,924,072 | C | T | 0.43 | 0.62 | 0.50 | 0.78 | 2.35E-05 | LAMC3 |
| 11 | rs10901897 | 50,199,387 | C | T | 0.34 | 0.61 | 0.48 | 0.76 | 2.45E-05 | LOC441601 |
| 2 | rs2278358* | 43,968,167 | A | G | 0.12 | 1.90 | 1.412 | 2.569 | 2.49E-05 | PLEKHH2 |
| 3 | rs717228 | 60,602,895 | C | T | 0.17 | 0.52 | 0.38 | 0.70 | 2.55E-05 | FHIT |
| 4 | rs10023531 | 12,357,990 | A | G | 0.43 | 1.56 | 1.27 | 1.92 | 2.70E-05 | HS3ST1 |
| 3 | rs79082706 | 60,614,582 | G | A | 0.16 | 0.51 | 0.38 | 0.70 | 2.86E-05 | FHIT |
| 2 | rs1443663 | 226,074,083 | A | C | 0.25 | 1.65 | 1.30 | 2.10 | 3.25E-05 | DOCK10 |
| 13 | rs4148524 | 95,767,333 | C | T | 0.14 | 1.84 | 1.38 | 2.45 | 3.45E-05 | ABCC4(MRP4) |
| 11 | rs10082560 | 50,276,354 | C | G | 0.35 | 0.61 | 0.48 | 0.77 | 3.49E-05 | LOC441601 |
| 13 | rs12853814 | 95,720,188 | C | T | 0.13 | 1.93 | 1.41 | 2.64 | 3.55E-05 | ABCC4(MRP4) |
| 17 | rs7214759 | 35,261,346 | G | C | 0.20 | 1.68 | 1.31 | 2.15 | 3.71E-05 | LHX1 |
| 7 | rs2731551 | 18,277,585 | T | C | 0.33 | 1.58 | 1.27 | 1.95 | 3.77E-05 | HDAC9 |
| 7 | rs596699 | 18,351,391 | A | C | 0.34 | 1.57 | 1.26 | 1.94 | 3.82E-05 | HDAC9 |
OR and p values from multivariable logistic regression analysis assuming additive genetic model
Chr = chromosome, SNP = single-nucleotide polymorphism, BP = base position based on hg19/GRCh37, MAF = minor allele frequency, OR = odds ratio, CI = confidence intervals