Table 3 Details of the replicated loci both from published studies, replication cohort and strongest signal in the region
Reference | Locus | Published SNP | Strongest signal in the locus (current study) | Position (hg38) | Risk allele | Published studies | Replication | ||||
|---|---|---|---|---|---|---|---|---|---|---|---|
Effect size (OR/HR) | P-value | Medication | Association OR | P-value | Imputation Info | ||||||
Diouf | 14q21.1 | rs8014839 | 39,374,915 | G | 3.63 | 5.1 × 10−6 | Vincristine | 1.55 | 0.0006 | 0.99 | |
rs8014839a | 39,374,915 | G | – | – | NA | NA | NA | ||||
Diouf | 4q28.1 | rs4618330 | 126,757,231 | A | 0.47 | 6.4 × 10− 6 | Vincristine | 0.7 | 0.004 | 0.98 | |
rs28742896 c | 127,678,685 | A | – | – | 0.6 | 0.0001 | 0.99 | ||||
Baldwin | 3q27.3 | rs1903216 | 187,911,715 | A | 1.59 | 5.6 × 10−6 | Paclitaxel | 1.4 | 0.006 | 1 | |
rs2611620 c | 187,826,512 | A | – | – | 1.69 | 5.6 × 10−5 | 0.98 | ||||
Diouf | 3p14.2 | rs35558909 | 60,933,303 | G | 3.17 | 4.3 × 10−7 | Vincristine | 1.36 | 0.01 | 0.98 | |
rs2121845 a | 60,922,227 | A | – | – | 1.76 | 0.01 | 1 | ||||
Diouf | 3p21.1 | rs4687753 | 53,861,434 | A | 4.49 | 6.2 × 10−6 | Vincristine | 1.32 | 0.03 | 0.99 | |
rs9840079b | 53,858,614 | T | – | – | 1.39 | 0.007 | 0.99 | ||||
Diouf | 8q24.12 | rs7817522 | 120,028,312 | T | 4.21 | 3.1 × 10−6 | Vincristine | 1.3 | 0.03 | 0.99 | |
rs17822044a | 119,997,585 | G | – | – | 1.35 | 0.02 | 1 | ||||
Schneider | 15q21.3 | rs2062640 | 54,737,776 | G | 2.01 | 7.9 × 10− 6 | Paclitaxel | 1.42 | 0.04 | 1 | |
rs2695677 c | 54,799,953 | C | – | – | 1.96 | 0.0003 | 0.98 | ||||
Diouf | 2q33.3 | rs11694118 | 208,077,000 | A | 0.18 | 8.8 × 10−6 | Vincristine | 0.75 | 0.04 | 0.96 | |
rs17538082a | 208,060,995 | T | – | – | 0.73 | 0.03 | 1 | ||||
Diouf | 5q23.2 | rs10070183 | 124,521,298 | C | 0.43 | 2.8 × 10− 6 | Vincristine | 0.77 | 0.04 | 0.95 | |
rs10478625b | 124,527,954 | T | – | – | 0.71 | 0.009 | 1 | ||||