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Table 3 Genotype and per-allele hazard ratio estimates by estrogen receptor status for BRCA2 mutation carriers

From: Common breast cancer susceptibility alleles are associated with tumour subtypes in BRCA1 and BRCA2 mutation carriers: results from the Consortium of Investigators of Modifiers of BRCA1/2

Genotype Unaffected, Affected by subtype, N (%) ER- ER+ P-het
  N (%) ER- ER+ Unknown HR 95%CI P-trend HR 95% CI P-trend  
FGFR2 rs2981582            
GG 794 (37.8) 86 (32.7) 248 (29.5) 457 (29.8) 1.00    1.00    
GA 987 (47.0) 137 (52.1) 419 (49.8) 755 (49.3) 1.28 0.99 to 1.67   1.35 1.17 to 1.55   
AA 321 (15.3) 40 (15.2) 174 (20.7) 320 (20.9) 1.23 0.85 to 1.78   1.81 1.51 to 2.18   
Per-allele      1.14 0.97 to 1.35 0.12 1.35 1.23 to 1.48 1.4 × 10 -10 0.097
TOX3/TNRC9 rs3803662           
CC 1,088 (53.4) 136 (53.3) 377 (46.3) 702 (48.2) 1.00    1.00    
CT 792 (38.9) 96 (37.7) 361 (44.3) 604 (41.5) 0.98 0.75 to 1.27   1.33 1.17 to 1.53   
TT 157 (7.7) 23 (9.0) 77 (9.5) 150 (10.3) 1.27 0.83 to 1.93   1.54 1.22 to 1.95   
Per-allele      1.06 0.88 to 1.29 0.53 1.28 1.16 to 1.41 1.5 × 10 -6 0.11
MAP3K1 rs889312            
AA 1,107 (51.1) 121 (45.7) 430 (50.3) 746 (47.7) 1.00    1.00    
AC 888 (41.0) 120 (45.3) 349 (40.8) 646 (41.3) 1.23 0.96 to 1.59   1.03 0.90 to 1.17   
CC 170 (7.9) 24 (9.1) 76 (8.9) 172 (11.0) 1.42 0.93 to 2.16   1.29 1.03 to 1.62   
Per-allele      1.21 1.01 to 1.45 0.039 1.09 0.99 to 1.21 0.08 0.35
LSP1 rs3817198            
TT 1,075 (46.1) 142 (44.4) 429 (42.0) 718 (42.7) 1.00    1.00    
TC 1,005 (43.1) 146 (45.6) 466 (45.6) 759 (45.2) 1.08 0.86 to 1.36   1.14 1.01 to 1.29   
CC 252 (10.8) 32 (10.0) 127 (12.4) 203 (12.1) 1.02 0.68 to 1.51   1.39 1.14 to 1.70   
Per-allele      1.03 0.87 to 1.22 0.70 1.17 1.07 to 1.28 5.5 × 10 -4 0.20
2q35 rs13387042            
GG 571 (25.3) 71 (23.0) 216 (22.0) 382 (23.1) 1.00    1.00    
GA 1,080 (47.8) 156 (50.5) 500 (50.8) 809 (48.8) 1.12 0.85 to 1.47   1.18 1.01 to 1.36   
AA 608 (26.9) 82 (26.5) 268 (27.2) 466 (28.1) 1.06 0.78 to 1.45   1.13 0.95 to 1.34   
Per-allele      1.03 0.87 to 1.19 0.71 1.06 0.97 to 1.15 0.20 0.75
8q24 rs13281615            
AA 794 (34.1) 99 (31.6) 317 (31.7) 524 (31.3) 1.00    1.00    
AG 1,156 (49.6) 165 (52.7) 511 (51.1) 837 (49.9) 1.08 0.85 to 1.38   1.05 0.92 to 1.21   
GG 382 (16.4) 49 (15.7) 172 (17.2) 315 (18.8) 1.05 0.75 to 1.46   1.13 0.94 to 1.35   
Per-allele      1.04 0.89 to 1.21 0.66 1.06 0.97 to 1.16 0.19 0.80
SLC4A7/NEK10 rs4973768           
CC 669 (26.5) 82 (24.9) 251 (22.6) 401 (23.5) 1.00    1.00    
CT 1,241 (49.1) 164 (49.9) 546 (49.4) 829 (48.7) 1.05 0.81 to 1.36   1.14 0.99 to 1.31   
TT 618 (24.5) 83 (25.2) 311 (28.0) 474 (27.8) 1.04 0.77 to 1.41   1.27 1.08 to 1.50   
Per-allele      1.02 0.88 to 1.19 0.78 1.13 1.04 to 1.22 0.0043 0.25
STXBP4/COX11 rs6504950           
GG 1,420 (55.6) 171 (51.0) 601 (53.1) 896 (52.5) 1.00    1.00    
GA 951 (37.2) 145 (43.3) 444 (39.3) 684 (40.1) 1.27 1.03 to 1.58   1.09 0.97 to 1.23   
AA 184 (7.2) 19 (5.7) 86 (7.6) 127 (7.4) 0.84 0.54 to 1.30   1.08 0.87 to 1.34   
Per-allele      1.07 0.92 to 1.25 0.36 1.06 0.97 to 1.16 0.19 0.91
5p12 rs10941679            
AA 1,372 (58.6) 176 (54.8) 584 (54.8) 924 (56.3) 1.00    1.00    
AG 824 (35.2) 122 (38.0) 425 (39.9) 622 (37.9) 1.08 0.86 to 1.37   1.15 1.01 to 1.30   
GG 146 (6.2) 23 (7.2) 57 (5.4) 94 (5.7) 1.25 0.82 to 1.91   0.94 0.73 to 1.22   
Per-allele      1.10 0.92 to 1.31 0.28 1.06 0.96 to 1.17 0.23 0.70
6q25.1 - rs2046210            
CC 985 (39.8) 121 (39.2) 466 (42.1) 634 (37.7) 1.00    1.00    
TC 1,165 (47.1) 132 (42.7) 499 (45.1) 802 (47.7) 0.99 0.78 to 1.12   0.96 0.85 to 1.08   
TT 324 (13.1) 56 (18.1) 141 (12.8) 247 (14.7) 1.47 1.08 to 2.01   0.94 0.78 to 1.12   
Per-allele      1.17 0.99 to 1.38 0.059 0.97 0.89 to 1.05 0.41 0.045
1p11.2 - rs11249433            
TT 895 (35.9) 107 (33.6) 345 (31.4) 599 (34.7) 1.00    1.00    
CT 1,226 (49.2) 160 (50.3) 553 (50.3) 843 (48.9) 1.00 0.79 to 1.28   1.08 0.96 to 1.23   
CC 371 (14.9) 51 (16.0) 202 (18.4) 282 (16.4) 1.00 0.73 to 1.40   1.27 1.08 to 1.50   
Per-allele      1.00 0.86 to 1.17 0.98 1.12 1.03 to 1.22 0.0065 0.23
RAD51L1 - rs999737/rs10483813           
BRCA1 CC/TT 1,368 (59.5) 167 (59.0) 589 (61.4) 1,000 (62.0) 1.00    1.00   
TC/AT 789 (34.3) 104 (36.8) 323 (33.6) 534 (33.1) 1.06 0.84 to 1.35   0.94 0.83 to 1.07   
TT/AA 141 (6.1) 12 (4.2) 48 (5.0) 80 (4.9) 0.74 0.42 to 1.32   0.87 0.67 to 1.14   
Per-allele      0.97 0.80 to 1.17 0.73 0.94 0.85 to 1.03 0.20 0.77
  1. P-het, Heterogeneity P-value; ER-, estrogen receptor negative; ER+, estrogen receptor positive