Table 3. The Most Significant Associations of Each Gene's Burden of Coding Variants with Breast Cancer Risk.
| Gene | Chr | # of SNPs | OR | P | |
| Overall breast cancer, functional SNPs | |||||
| MMAB | 12 | 8 | 1.14 | 0.0000497 | |
| SLC16A6 | 17 | 6 | 1.10 | 0.0000541 | |
| INS-IGF2 | 11 | 4 | 0.88 | 0.000124 | |
| ST3GAL3 | 1 | 9 | 1.14 | 0.00016 | |
| SPDEF | 6 | 14 | 1.10 | 0.000162 | |
| Overall breast cancer, rare SNPs | |||||
| FGFBP3 | 10 | 5 | 26.6 | 0.00000871 | |
| LDLRAD1 | 1 | 10 | 1.63 | 0.0000209 | |
| NAALADL1 | 11 | 36 | 0.54 | 0.000147 | |
| UCHL1 | 4 | 2 | 11.17 | 0.000162 | |
| TXN2 | 22 | 2 | 3.03 | 0.000182 | |
| ER+ breast cancer, functional SNPs | |||||
| SNTN | 3 | 3 | 1.76 | 0.0000325 | |
| TXN2 | 22 | 2 | 3.74 | 0.0000373 | |
| SPATA16 | 3 | 20 | 0.93 | 0.0000505 | |
| APOC3 | 11 | 3 | 3.26 | 0.000257 | |
| APOC4 | 19 | 6 | 0.85 | 0.000266 | |
| ER+ breast cancer, rare SNPs | |||||
| FGFBP3 | 10 | 5 | 35.35 | 0.000000621 | |
| LTBP4 | 19 | 33 | 0.53 | 0.0000199 | |
| TXN2 | 22 | 2 | 3.74 | 0.0000373 | |
| OR6C65 | 12 | 4 | 2.44 | 0.0000871 | |
| PRC1 | 15 | 13 | 2.02 | 0.000202 | |
| ER- breast cancer, functional SNPs | |||||
| EGR2 | 10 | 4 | 32.27 | 0.0000000000124 | |
| CNR1 | 6 | 2 | 36.51 | 0.000000000168 | |
| MMAB | 12 | 8 | 1.37 | 0.0000204 | |
| ATP6V1H | 8 | 11 | 3.24 | 0.0000209 | |
| MRPL20 | 1 | 3 | 5.65 | 0.0000636 | |
| ER- breast cancer, rare SNPs | |||||
| EGR2 | 10 | 4 | 32.27 | 0.0000000000124 | |
| CNR1 | 6 | 2 | 36.51 | 0.000000000168 | |
| FKSG83 | 6 | 5 | 4.40 | 0.0000000146 | |
| GATM | 15 | 6 | 16.18 | 0.000000483 | |
| ACSBG1 | 15 | 11 | 2.63 | 0.000000533 | |