Table 4.
Associations between haplotypes and breast cancer risk by Native American ancestry
| Haplotype | Frequency | OR2 | (95% CI) | Haplotype | Frequency | OR2 | (95% CI) | Haplotype | Frequency | OR2 | (95% CI) |
|---|---|---|---|---|---|---|---|---|---|---|---|
| 0 to 28% Native American Ancestry | 29 - 70% Native American Ancestry | 71 - 100% Native American Ancestry | |||||||||
| BMP7 (rs1475000 A>G; rs4811822 T>C)1 | ACVR1 (rs2165436 C>T; rs6437117 A>T)1 | BMP7 (rs17480735 G>A; rs6025446 A>G; rs6025468 A>G) | |||||||||
| A-T | 0.480 | 0.98 | (0.89, 1.08) | C-A | 0.837 | 0.98 | (0.85, 1.12) | G-A-A | 0.427 | 1.12 | (0.93, 1.35) |
| G-C | 0.367 | 0.96 | (0.87, 1.06) | T-T | 0.115 | 1.07 | (0.91, 1.26) | G-G-A | 0.342 | 0.94 | (0.78, 1.14) |
| A-C | 0.117 | 1.05 | (0.91, 1.22) | T-A | 0.035 | 0.73 | (0.55, 0.98) | G-G-G | 0.188 | 0.82 | (0.65, 1.03) |
| G-T | 0.036 | 1.32 | (1.01, 1.73) | C-T | 0.014 | 1.69 | (1.07, 2.68) | G-A-G | 0.021 | 1.63 | (0.73, 3.64) |
| BMP7 (rs4811822 T>C; rs2180780 C>G)1 | ACVR1 (rs4380178 G>A; rs17182166 G>T) | A-A-A | 0.014 | 2.25 | (1.11, 4.58) | ||||||
| T-C | 0.474 | 0.97 | (0.88, 1.07) | G-G | 0.801 | 0.98 | (0.85, 1.12) | A-G-A | 0.005 | 2.83 | (0.45, 17.68) |
| C-G | 0.397 | 0.95 | (0.86, 1.04) | A-G | 0.115 | 0.89 | (0.75, 1.05) | A-A-G | 0.002 | 0.35 | (0.03, 3.64) |
| C-C | 0.087 | 1.12 | (0.95, 1.33) | G-T | 0.056 | 1.01 | (0.80, 1.27) | A-G-G | 0.002 | <0.001 | <0.001 >999 |
| T-G | 0.042 | 1.34 | (1.05, 1.72) | A-T | 0.028 | 1.51 | (1.14, 2.00) | BMP7 (rs6127983 T>C; rs6025468 A>G) | |||
| BMP7 (rs12481628 A>G; rs2180780 C>G)1 | BMP6 (rs10498671 T>C; rs1225929 A>T; rs1107495 A>G; rs911749 G>A) | T-A | 0.474 | 1.17 | (0.97, 1.40) | ||||||
| A-C | 0.523 | 0.97 | (0.88, 1.07) | T-T-A-G | 0.229 | 1.28 | (1.13, 1.45) | C-A | 0.314 | 0.96 | (0.79, 1.17) |
| G-G | 0.390 | 0.96 | (0.87, 1.06) | T-A-A-G | 0.217 | 0.95 | (0.84, 1.08) | C-G | 0.204 | 0.81 | (0.64, 1.01) |
| A-G | 0.048 | 1.17 | (0.93, 1.46) | T-A-G-G | 0.155 | 0.95 | (0.82, 1.09) | T-G | 0.008 | 4.55 | (1.09, 19.00) |
| G-C | 0.039 | 1.35 | (1.05, 1.73) | T-A-G-A | 0.094 | 0.96 | (0.81, 1.14) | BMP2 (rs1979855 T>C; rs3178250 T>C)1 | |||
| C-A-G-A | 0.067 | 0.95 | (0.78, 1.15) | T-T | 0.920 | 1.04 | (0.73, 1.46) | ||||
| T-T-G-G | 0.060 | 0.89 | (0.69, 1.14) | C-C | 0.046 | 0.65 | (0.41, 1.02) | ||||
| T-A-A-A | 0.048 | 0.91 | (0.69, 1.21) | T-C | 0.029 | 1.83 | (1.04, 3.22) | ||||
| C-A-A-A | 0.036 | 0.91 | (0.70, 1.19) | C-T | 0.005 | 1.03 | (0.25, 4.16) | ||||
| C-T-A-A | 0.028 | 0.78 | (0.54, 1.12) | BMP6 (rs267190 T>G; rs267806 C>T)1 | |||||||
| C-A-A-G | 0.017 | 1.06 | (0.71, 1.58) | T-T | 0.723 | 0.86 | (0.70, 1.07) | ||||
| T-T-A-A | 0.016 | 1.09 | (0.61, 1.97) | G-C | 0.189 | 1.05 | (0.83, 1.34) | ||||
| T-T-G-A | 0.014 | 1.71 | (0.99, 2.97) | T-C | 0.066 | 1.49 | (1.04, 2.14) | ||||
| C-T-A-G | 0.012 | 0.34 | (0.19, 0.62) | G-T | 0.021 | 0.75 | (0.38, 1.46) | ||||
| BMP7 (rs1475000 A>G; rs4811822 T>C)1 | BMP7 (rs1475000 A>G; rs162317 G>A)1 | ||||||||||
| A-T | 0.502 | 0.97 | (0.87, 1.07) | A-G | 0.576 | 0.90 | (0.75, 1.09) | ||||
| G-C | 0.366 | 1.02 | (0.92, 1.14) | G-A | 0.396 | 1.09 | (0.91, 1.31) | ||||
| A-C | 0.095 | 0.91 | (0.76, 1.09) | A-A | 0.015 | 0.55 | (0.24, 1.25) | ||||
| G-T | 0.037 | 1.41 | (1.06, 1.88) | G-G | 0.012 | 2.71 | (1.14, 6.47) | ||||
| BMP7 (rs1475000 A>G; rs6025446 A>G)1 | BMP7 (rs1475000 A>G; rs2180780 C>G)1 | ||||||||||
| A-G | 0.465 | 0.90 | (0.82, 1.00) | A-C | 0.568 | 0.91 | (0.76, 1.09) | ||||
| G-A | 0.371 | 1.03 | (0.92, 1.14) | G-G | 0.399 | 1.09 | (0.91, 1.32) | ||||
| A-A | 0.132 | 1.09 | (0.93, 1.27) | A-G | 0.023 | 0.64 | (0.33, 1.22) | ||||
| G-G | 0.032 | 1.47 | (1.07, 2.02) | G-C | 0.010 | 3.11 | (1.16, 8.33) | ||||
| BMP7 (rs4811822 T>C; rs2180780 C>G)1 | BMP7 (rs12438 A>G; rs3787380 T>C)1 | ||||||||||
| T-C | 0.491 | 0.97 | (0.87, 1.07) | A-C | 0.551 | 0.84 | (0.70, 1.01) | ||||
| C-G | 0.373 | 1.02 | (0.92, 1.14) | G-T | 0.392 | 1.05 | (0.87, 1.27) | ||||
| C-C | 0.088 | 0.90 | (0.75, 1.09) | A-T | 0.052 | 1.78 | (1.19, 2.67) | ||||
| T-G | 0.048 | 1.30 | (1.01, 1.67) | G-C | 0.005 | 1.16 | (0.31, 4.30) | ||||
| BMP7 (rs162315 G>A; rs172983 G>A)1 | BMP7 (rs6127983 T>C; rs162317 G>A)1 | ||||||||||
| G-G | 0.656 | 0.93 | (0.84, 1.04) | C-G | 0.518 | 0.84 | (0.70, 1.00) | ||||
| A-A | 0.244 | 1.02 | (0.91, 1.16) | T-A | 0.412 | 1.05 | (0.88, 1.27) | ||||
| A-G | 0.097 | 1.10 | (0.93, 1.31) | T-G | 0.070 | 1.62 | (1.14, 2.32) | ||||
| G-A | 0.002 | 6.17 | (1.31, 29.05) | BMP7 (rs6127983 T>C; rs2180780 C>G)1 | |||||||
| BMP7 (rs172983 G>A; rs6014967 G>A)1 | C-C | 0.506 | 0.85 | (0.71, 1.02) | |||||||
| G-G | 0.679 | 0.95 | (0.85, 1.06) | T-G | 0.410 | 1.07 | (0.89, 1.29) | ||||
| A-A | 0.238 | 1.01 | (0.89, 1.14) | T-C | 0.072 | 1.50 | (1.06, 2.14) | ||||
| G-A | 0.074 | 1.06 | (0.87, 1.29) | C-G | 0.013 | 0.63 | (0.25, 1.56) | ||||
| A-G | 0.008 | 2.14 | (1.17, 3.91) | BMP7 (rs3787380 T>C; rs6014949 G>A)1 | |||||||
| C-G | 0.552 | 0.85 | (0.71, 1.02) | ||||||||
| T-A | 0.399 | 1.07 | (0.89, 1.29) | ||||||||
| T-G | 0.045 | 1.76 | (1.15, 2.69) | ||||||||
| C-A | 0.004 | 0.73 | (0.17, 3.06) | ||||||||
| BMP7 (rs12481628 A>G; rs2180780 C>G)1 | |||||||||||
| A-C | 0.530 | 0.88 | (0.74, 1.06) | ||||||||
| G-G | 0.383 | 1.09 | (0.91, 1.32) | ||||||||
| G-C | 0.047 | 1.57 | (1.03, 2.40) | ||||||||
| A-G | 0.040 | 0.75 | (0.45, 1.24) | ||||||||
| BMPR1A (rs7088641 T>C; rs2168730 A>G)1 | |||||||||||
| T-A | 0.582 | 1.01 | (0.84, 1.22) | ||||||||
| C-G | 0.398 | 0.94 | (0.78, 1.14) | ||||||||
| C-A | 0.017 | 2.36 | (1.15, 4.86) | ||||||||
| T-G | 0.004 | 0.42 | (0.08, 2.22) | ||||||||
1
Indicates haplotypes were generated from SNPs where R2 values was greater than 0.50
2
Adjusted for age, study, genetic admixture, BMI in referent year, vigorous activity in referent year, parity, age at first birth and alcohol consumption; no important haplotypes were identified for lowest Native American ancestry group.