Twenty-five SNPs with strongest association with grade 2 paclitaxel induced peripheral sensory neuropathy
| SNP* | Chromosome | Gene†‡ | Major allele | Minor allele | MAF | HR (95% CI)¶ | p Value¶ |
|---|---|---|---|---|---|---|---|
| rs17348202 | 2 | EPHA4 | A | G | 0.05 | 4.85 (2.57 to 9.13) | 1.02×10−6 |
| rs4141404 | 22 | LIMK2 (PLA2G3-PISD)** | C | A | 0.25 | 2.41 (1.66 to 3.48) | 3.22×10−6 |
| rs275456 | 5 | PAPD7 | C | A | 0.24 | 2.26 (1.60 to 3.18) | 3.31×10−6 |
| rs1165472 | 1 | RP11-466L17.1 | A | G | 0.30 | 2.36 (1.64 to 3.40) | 3.65×10−6 |
| rs3181157 | 12 | CD9 | G | A | 0.10 | 3.22 (1.96 to 5.29) | 4.05×10−6 |
| rs10090117 | 8 | PSD3/NAT2 | A | G | 0.21 | 2.38 (1.64 to 3.44) | 4.23×10−6 |
| rs10065203 | 5 | TRIO | G | A | 0.40†† | 2.51 (1.69 to 3.71) | 4.25×10−6 |
| rs2947253 | 15 | ATPBD4/RP11–702M1.1 | A | G | 0.11 | 3.38 (2.01 to 5.68) | 4.36×10−6 |
| rs10512385 | 9 | ACTL7B | A | G | 0.14 | 2.58 (1.71 to 3.89) | 5.70×10−6 |
| rs12699683 | 7 | AGMO/ DGKB | C | A | 0.09 | 3.66 (2.08 to 6.45) | 6.65×10−6 |
| rs501461 | 9 | GLIS3 | A | C | 0.39 | 0.43 (0.29 to 0.63) | 1.24×10−5 |
| rs6846708 | 4 | PALLD | A | G | 0.07 | 3.64 (2.03 to 6.53) | 1.50×10−5 |
| rs2425553 | 20 | PTPRT‡‡ | G | A | 0.21 | 2.33 (1.58 to 3.44) | 1.94×10−5 |
| rs1753097 | 13 | SGCG | A | G | 0.20 | 2.18 (1.52 to 3.11) | 1.96×10−5 |
| rs6473187 | 8 | KIAA0146-PRKD§§ | A | G | 0.06 | 3.37 (1.92 to 5.91) | 2.17×10−5 |
| rs13163920 | 5 | PAPD7 | G | A | 0.27 | 2.41 (1.60 to 3.61) | 2.23×10−5 |
| rs10932374 | 2 | ERBB4 | G | A | 0.26 | 2.25 (1.54 to 3.28) | 2.58×10−5 |
| rs3829306 | 12 | SLCO1B1¶¶ | G | A | 0.09 | 3.10 (1.82 to 5.26) | 2.84×10−5 |
| rs8110536 | 19 | C19orf21 | A | C | 0.17 | 2.24 (1.53 to 3.27) | 2.98×10−5 |
| rs189372 | 3 | LPP | G | A | 0.39 | 2.27 (1.55 to 3.35) | 2.98×10−5 |
| rs7655560 | 4 | HAND2 | G | A | 0.06 | 2.97 (1.78 to 4.95) | 3.27×10−5 |
| rs9365397 | 6 | PARK2 | A | G | 0.04 | 4.33 (2.16 to 8.65) | 3.42×10−5 |
| rs301927 | 3 | EPHA6 | A | G | 0.17 | 2.35 (1.57 to 3.53) | 3.44×10−5 |
| rs2413045 | 22 | LIMK2 | G | A | 0.15 | 2.36 (1.57 to 3.56) | 3.67×10−5 |
| rs12743802 | 1 | TYW3/LHX8 | G | A | 0.04 | 4.06 (2.08 to 7.91) | 3.85×10−5 |
*For pairs of SNPs with r2>0.6, only the SNP with the lowest p value is shown.
†Intergenic SNPs are denoted by the closest flanking annotated gene(s).
‡Bold type indicates that the SNP is located in the gene.
††The MAF of the SNPs in the table was compared with that reported in the HapMap Project CEU population using Pearson’s χ2 test. Only rs10065203 MAF difference had a p<0.01.
¶Estimated by multivariable Cox regression analysis adjusted for age.
**rs4141404 is located in LIMK2, but there is a large region of LD (r2>0.7) that covers several genes, from PLA2G3 to PISD.
‡‡rs2425553 is in complete LD with rs2425556 and rs3092292.
§§rs6473187 in KIAA0146 is in complete LD with rs2632496 in KIAA0146, with rs4873774 in UBE2V2 and with rs8178108 in PRKD.
¶¶rs3829306 is in complete LD with rs4149013 and rs4149023, both in SLCO1B1.
LD, linkage disequilibrium; MAF, minor allele frequency; SNP, single nucleotide polymorphism.