Table 1.
Estimates of P-values in different subtypes of breast cancer for genes containing SNPs with strong associations (P < 10−7) estimated from GWAS.
| Gene symbol | SNP ID (rs-ID) | SNP (PV) | Expression P-value | |||||
|---|---|---|---|---|---|---|---|---|
|
| ||||||||
| LMA | LMB | ERBB | NLK | BASAL | BLK | |||
| ANKLE1 | rs8170 | 2 × 10−9 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 0.267116 | 5.00 × 10−6 |
| ANKLE1 | rs2363956 | 6 × 10−9 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 0.267116 | 5.00 × 10−6 |
| ANKRD16 | rs2380205 | 5 × 10−7 | 5.00 × 10−6 | 0.046552 | 0.885408 | 0.456038 | 0.00151 | 5.00 × 10−6 |
| BRCA1 | rs9397435 | 1.3 × 10−8 | 5.00 × 10−6 | 0.318183 | 0.034513 | 5.00 × 10−6 | 5.00 × 10−6 | 0.022438 |
| BRCA1 | rs2046210 | 4.5 × 10−9 | 5.00 × 10−6 | 0.318183 | 0.034513 | 5.00 × 10−6 | 5.00 × 10−6 | 0.022438 |
| CASP8 | rs1045485 | 1.1 × 10−7 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| CCND1 | rs614367 | 3 × 10−15 | 5.45 × 10−4 | 5.00 × 10−6 | 2.50 × 10−5 | 0.096103 | 0.626906 | 5.00 × 10−6 |
| CDKN2B | rs1011970 | 3 × 10−8 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| CHEK2 | rs17879961 | 4.76 × 10−8 | 2.00E−05 | 0.024433 | 0.018789 | 5.00 × 10−6 | 0.197886 | 5.00 × 10−6 |
| COL1A1 | rs2075555 | 8.3 × 10−8 | 5.00 × 10−6 | 0.209955 | 0.068825 | 0.07671 | 0.275921 | 0.397922 |
| ECHDC1 | rs6569480 | 6.1 × 10−8 | 5.00 × 10−6 | 5.00 × 10−6 | 8.5 × 10−3 | 9.5 × 10−5 | 3.5 × 10−5 | 0.002005 |
| ECHDC1 | rs7776136 | 6.6 × 10−8 | 5.00 × 10−6 | 5.00 × 10−6 | 0.008539 | 9.5 × 10−5 | 3.5 × 10−5 | 0.002005 |
| FGFR2 | rs2981575 | 1.2 × 10−8 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.15 × 10−4 | 0.982236 | 5.00 × 10−6 |
| FGFR2 | rs2981582 | 2.0 × 10−78 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.15 × 10−4 | 0.982236 | 5.00 × 10−6 |
| FGFR2 | rs2981579 | 1.8 × 10−31 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.15 × 10−4 | 0.982236 | 5.00 × 10−6 |
| LOC643714 | rs3803662 | 1.0 × 10−36 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| LSP1 | rs3817198 | 3.0 × 10−9 | 0.100053 | 6.8 × 10−3 | 0.676883 | 0.06848 | 0.597843 | 0.134961 |
| LSP1 | rs909116 | 7.3 × 10−7 | 0.100053 | 6.8 × 10−3 | 0.676883 | 0.06848 | 0.597843 | 0.134961 |
| NEK10 | rs1357245 | 1.9 × 10−7 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| RAD51L1 | rs999737 | 1.7 × 10−7 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 0.025663 | 5.00 × 10−6 |
| RNF146 | rs6569479 | 1.2 × 10−7 | 0.212725 | 0.029158 | 0.529813 | 0.766361 | 6.59 × 10−3 | 0.976052 |
| RNF146 | rs2180341 | 2.9 × 10−8 | 0.212725 | 0.029158 | 0.529813 | 0.766361 | 6.59 × 10−3 | 0.976052 |
| SLC4A7 | rs4973768 | 4.0 × 10−23 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| STXBP4 | rs6504950 | 1.4 × 10−8 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 1.65 × 10−4 | 5.00 × 10−6 |
| TERT | rs10069690 | 1.0 × 10−10 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| TOX3 | rs12443621 | 2.0 × 10−19 | 5.00 × 10−6 | 2.6 × 10−4 | 8.65 × 10−4 | 0.419581 | 0.090054 | 5.00 × 10−6 |
| TOX3 | rs3803662 | 5.9 × 10−19 | 5.00 × 10−6 | 2.6 × 10−4 | 8.65 × 10−4 | 0.419581 | 0.090054 | 5.00 × 10−6 |
| TOX3 | rs8051542 | 1.0 × 10−36 | 5.00 × 10−6 | 2.6 × 10−4 | 8.65 × 10−4 | 0.419581 | 0.090054 | 5.00 × 10−6 |
| ZMIZ1 | rs704010 | 4 × 10−9 | 5.00 × 10−6 | 1.00 × 10−5 | 0.022029 | 0.048337 | 5.00 × 10−6 | 0.227309 |
| ZNF365 | rs10822013 | 5.87 × 10−9 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| ZNF365 | rs10995190 | 5 × 10−15 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 | 5.00 × 10−6 |
| H19 | rs2107425 | 2.0 × 10−7 | 0.042847 | 1.14 × 10−3 | 2.58 × 10−3 | 0.027343 | 8 × 10−5 | 9.3 × 10−3 |
| MAP3K1 | rs889312 | 4.6 × 10−20 | 2.7 × 10−3 | 5.00 × 10−6 | 3.5 × 10−4 | 4.9 × 10−4 | 9.3 × 10−3 | 5.00 × 10−6 |
Note: rs-ID is the SNP id, SNP(Pv) is the SNP P-value derived from GWAS.
Abbreviations: LMA, luminal A; LMB, luminal B; ERBB, ; NLK, normal-like, BLK, basal-like.