Table 2.
B-ALL risk variant associations in African American children, stratified by correspondent local African ancestry haplotypes
| 0 local African ancestry haplotypes | 1 local African ancestry haplotype | 2 local African ancestry haplotypes | ||||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| rsid | EAF in cases (n) | EAF in controls (n) | OR | P | EAF in cases (n) | EAF in controls (n) | OR | P | EAF in cases (n) | EAF in controls (n) | OR | P |
| Known loci | ||||||||||||
| rs17133807 | 0.39 (69) | 0.28 (275) | 1.65 (1.11-2.46) | 0.013 | 0.29 (332) | 0.22 (1172) | 1.46 (1.2-1.77) | 1.4 x 10−4 | 0.25 (439) | 0.16 (1913) | 1.72 (1.44-2.06) | 2.5 x 10−9 |
| rs7090445 | 0.46 (67) | 0.38 (258) | 1.47 (0.97-2.22) | 0.070 | 0.40 (319) | 0.26 (1227) | 1.97 (1.62-2.39) | 6.9 x 10−12 | 0.26 (454) | 0.18 (1875) | 1.59 (1.34-1.88) | 1.2 x 10−7 |
| Novel loci | ||||||||||||
| rs77632976 | 0 (71) | 0 (311) | – | – | 0.06 (327) | 0.04 (1060) | 1.79 (1.20-2.69) | 4.7 x 10−3 | 0.10 (442) | 0.05 (1989) | 1.96 (1.51-2.53) | 3.0 x 10−7 |
| rs112113758 | 0 (62) | <0.01 (368) | – | – | 0.06 (322) | 0.03 (1042) | 1.95 (1.26-3.01) | 2.6 × 10−3 | 0.11 (456) | 0.06 (1950) | 2.13 (1.66-2.73) | 2.6 x 10−9 |
| rs183221417 | 0 (86) | 0 (337) | – | – | 0.03 (283) | 0.02 (1102) | 1.81 (0.99-3.32) | 0.054 | 0.09 (471) | 0.03 (1921) | 3.36 (2.49-4.53) | 2.1 x 10−15 |
| rs867166159 | 0 (70) | 0 (233) | – | – | 0.03 (283) | 0.01 (1189) | 4.28 (1.99-9.17) | 1.9 x 10−4 | 0.05 (487) | 0.02 (1938) | 2.44 (1.7-3.51) | 1.5 x 10−6 |
| rs76135126 | 0 (63) | 0 (270) | – | – | 0.04 (301) | 0.03 (1032) | 1.43 (0.85-2.40) | 0.17 | 0.09 (476) | 0.04 (2058) | 2.28 (1.73-3.01) | 6.5 x 10−9 |
| rs113299167 | 0 (77) | 0 (292) | – | – | 0.04 (252) | 0.01 (1064) | 3.70 (1.97-6.96) | 4.7 x 10−5 | 0.09 (511) | 0.05 (2004) | 1.78 (1.37-2.30) | 1.2 x 10−5 |
| rs116677565 | 0.01 (70) | <0.01 (323) | – | – | 0.04 (343) | 0.01 (1178) | 3.18 (1.85-5.46) | 2.8 × 10−5 | 0.05 (427) | 0.02 (1859) | 2.17 (1.49-3.15) | 4.9 x 10−5 |
rsid genetic variant identifier using dbSNP build 151, CHR chromosome, BP base position, GRCh38 (hg38) build, EA effect (risk) allele, NEA non-effect (reference) allel, EAF effect allele frequency, COG Children’s Oncology Group, OR, odds ratio, CI confidence interval, P p-value. Subgroup odds ratios are from logistic regression models adjusted for the first 3 African ancestry principal components; all presented p-values are two-sided and uncorrected for multiple testing.