Polymorphisms | Primers Sequence | Restriction Enzyme | Fragments Size |
---|---|---|---|
MTHFR C677T | Hinf I | ||
sense | 5’- TGA AGG AGA AGG TGT CTG CGG GA 3’ | C allele - 198 bp | |
anti-sense | 5’- AGG ACG GTG CGG TGA GAG TG 3’ | T allele - 175, 23 bp | |
MTHFR A1298C | Mbo II | ||
sense | 5’- CAA GGA GGA GCT GCT GAA GA 3’ | A allele - 72, 28 bp | |
anti-sense | 5’ - CAA CTC CAG CAT CAC TCA CT 3’ | C allele - 100, 28 bp | |
MTR A2756G | Hae III | ||
sense | 5’- CCA GGG TGC CAG GTA TAC AG 3’ | A allele - 413, 85 bp | |
anti-sense | 5’- GCC TTT TAC ACT CCT CAA AAC 3’ | G allele-290, 123, 85 bp |
Clinical features | MTHFR C677T | MTHFR A1298C | MTR A2756G | MTRR A66G | ||||
---|---|---|---|---|---|---|---|---|
CC | CT+TT | AA | AC+CC | AA | AG+GG | AA | AG+GG | |
N (%) | N (%) | N (%) | N (%) | N (%) | N (%) | N (%) | N (%) | |
Tumor size | ||||||||
T1-T2 | 29 (22.7) | 51 (39.8) | 49 (38.2) | 31 (24.2) | 50 (39.1) | 30 (23.3) | 25 (19.5) | 55 (43.0) |
T3-T4 | 16 (12.5) | 31 (24.2) | 29 (22.7) | 18 (14.1) | 32 (25.0) | 15 (11.8) | 22 (17.2) | 25 (19.5) |
Unknown | 01 (0.8) | 0 (0) | 01 (0.8) | 0 (0) | 01 (0.8) | 0 (0) | 01 (0.8) | 0 (0) |
OR (95% CI) | 1.00 | 1.31 (0.57-3.03) | 1.00 | 1.18 (0.53-2.64) | 1.00 | 0.77 (0.34-1.74) | 1.00 | 0.50 (0.23-1.09) |
p value | 0.522 | 0.682 | 0.526 | 0.081 | ||||
Lymph nodes | ||||||||
No | 27 (21.1) | 43 (33.6) | 41 (32.0) | 29 (22.7) | 44 (34.4) | 26 (20.3) | 25 (19.5) | 45 (35.2) |
Yes | 17 (13.2) | 37 (28.9) | 36 (28.0) | 18 (14.1) | 37 (28.9) | 17 (13.2) | 20 (15.6) | 34 (26.5) |
Unknown | 02 (1.6) | 02 (1.6) | 02 (1.6) | 02 (1.6) | 02 (1.6) | 02 (1.6) | 03 (2.4) | 01 (0.8) |
OR (95% CI) | 1.00 | 1.98 (0.83-4.71) | 1.00 | 0.80 (0.35-1.81) | 1.00 | 0.62 (0.27-1.43) | 1.00 | 0.87 (0.39-1.95) |
p value | 0.122 | 0.591 | 0.264 | 0.730 | ||||
Metastasis | ||||||||
No | 29 (22.7) | 51 (39.8) | 44 (34.4) | 36 (28.0) | 48 (37.5) | 32 (25.0) | 30 (23.3) | 50 (39.1) |
Yes | 16 (12.5) | 28 (21.8) | 32 (25.0) | 12 (9.4) | 31 (24.2) | 13 (10.1) | 15 (11.7) | 29 (22.7) |
Unknown | 01 (0.8) | 03 (2.4) | 03 (2.4) | 01 (0.8) | 04 (3.2) | 0 (0) | 03 (2.4) | 01 (0.8) |
OR (95% CI) | 1.00 | 1.19 (0.50-2.82) | 1.00 | 0.48 (0.21-1.11) | 1.00 | 0.51 (0.22-1.20) | 1.00 | 1.06 (0.47-2.40) |
p value | 0.697 | 0.08 | 0.123 | 0.894 |
Breast Cancer Subtype | MTHFR C677T | MTHFR A1298C | MTR A2756G | MTRR A66G | ||||
---|---|---|---|---|---|---|---|---|
CC | CT+TT | AA | AC+CC | AA | AG+GG | AA | AG+GG | |
N (%) | N (%) | N (%) | N (%) | N (%) | N (%) | N (%) | N (%) | |
Luminal A | 12 (9.4) | 22 (17.2) | 19 (14.8) | 15 (11.7) | 22 (17.2) | 12 (9.4) | 15 (11.7) | 19 (14.8) |
OR (95% CI) | 1.00 | 1.01 (0.42-2.45) | 1.00 | 1.64 (0.70-3.85) | 1.00 | 1.07 (0.44-2.58) | 1.00 | 0.62 (0.27-1.45) |
p value | 0.975 | 0.253 | 0.879 | 0.272 | ||||
Luminal B | 22 (17.2) | 40 (31.2) | 39 (30.5) | 23 (17.9) | 38 (29.7) | 24 (18.7) | 18 (14.1) | 44 (34.4) |
OR (95% CI) | 1.00 | 0.77 (0.34-1.71 | 1.00 | 0.91 (0.42-1.98) | 1.00 | 1.39 (0.63-3.04) | 1.00 | 2.16 (0.98-4.76) |
p value | 0.514 | 0.817 | 0.415 | 0.056 | ||||
HER2 Overexpression | 04 (3.2) | 09 (7.0) | 08 (6.2) | 05 (3.9) | 10 (7.8) | 03 (2.4) | 06 (4.6) | 07 (5.5) |
OR (95% CI) | 1.00 | 1.31 (0.33-5.29) | 1.00 | 1.04 (0.29-3.73) | 1.00 | 0.35 (0.08-1.50) | 1.00 | 0.58 (0.16-2.08) |
p value | 0.704 | 0.948 | 0.156 | 0.405 | ||||
Triple Negative | 05 (3.9) | 11 (8.5) | 12 (9.4) | 04 (3.2) | 10 (7.8) | 06 (4.6) | 07 (5.5) | 09 (7.0) |
OR (95% CI) | 1.00 | 1.36 (0.40-4.57) | 1.00 | 0.50 (0.14-1.75) | 1.00 | 0.94 (0.29-3.09) | 1.00 | 0.63 (0.20-1.95) |
p value | 0.622 | 0.276 | 0.923 | 0.425 | ||||
Unknown | 03 (2.4) | 0 (0) | 01 (0.8) | 02 (1.6) | 03 (2.4) | 0 (0) | 02 (1.6) | 01 (0.8) |
Model | Genotype | Case N (%) | Control N (%) | OR (95%CI) | p | Genotype | Case N (%) | Control N (%) | OR (95%CI) | p |
---|---|---|---|---|---|---|---|---|---|---|
MTHFR C677T | MTHFR A1298C | |||||||||
Codominant | CC | 46 (35.9) | 207 (43.3) | 1.00 1.21 (0.77-1.89) 1.71 (0.91-3.22) |
0.25 | AA | 79 (61.7) | 261 (54.6) | 1.00 0.90 (0.59-1.39) 0.22 (0.06-0.74) |
0.01* |
CT | 61 (47.7) | 218 (45.6) | AC | 46 (35.9) | 170 (35.6) | |||||
TT | 21 (16.4) | 53 (11.1) | CC | 3 (2.3) | 47 (9.8) | |||||
C allele | 153 (60) | 632 (66) | A allele | 204 (80) | 692 (72) | |||||
T allele | 103 (40) | 324 (34) | C allele | 52 (20) | 264 (28) | |||||
HWE | p=1.0 | p=0.76 | HWE | p=0.28 | p=0.016 | |||||
Dominant | CC | 46 (35.9) | 207 (43.3) | 1.00 | 0.21 | AA | 79 (61.7) | 261 (54.6) | 1.00 | 0.20 |
CT+TT | 82 (64.1) | 271 (56.7) | 1.31 (0.86-2.00) | AC+CC | 49 (38.3) | 217 (45.4) | 0.76 (0.50-1.16) | |||
Recessive | CC+CT | 107 (83.6) | 425 (88.9) | 1.00 | 0.15 | AA+AC CC | 125 (97.7) | 431 (90.2) | 1.00 | 0.004* |
TT | 53 (11.1) | 53 (11.1) | 1.55 (0.87-2.75) | CC | 3 (2.3) | 47 (9.8) | 0.22 (0.07-0.76) | |||
Overdominant | CC+TT | 67 (52.3) | 260 (54.4) | 1.00 | 0.82 | AA+CC | 82 (64.1) | 308 (64.4) | 1.00 | 0.92 |
CT | 61 (47.7) | 218 (45.6) | 1.05 (0.70-1.58) | AC | 46 (35.9) | 170 (35.6) | 1.02 (0.67-1.57) | |||
Log-additive | - | - | - | 1.28 (0.95-1.74) | 0.1 | - | - | - | 0.70 (0.49-0.98) | 0.03* |
MTR A2756G | MTRR A66G | |||||||||
Codominant | AA | 83 (64.8) | 300 (62.8) | 1.00 1.22 (0.79-1.89) 0.23 (0.03-1.77) |
0.12 | AA | 48 (37.5) | 168 (35.1) | 1.00 0.99 (0.63-1.56) 0.76 (0.42-1.35) |
0.59 |
AG | 44 (34.4) | 156 (32.6) | AG | 57 (44.5) | 211 (44.1) | |||||
GG | 1 (0.8) | 22 (4.6) | GG | 23 (18.0) | 99 (20.7) | |||||
A allele | 210 (82) | 756 (79) | A allele | 153 (60) | 547 (57) | |||||
G allele | 46 (18) | 200 (21) | G allele | 103 (40) | 409 (43) | |||||
HWE | p=0.07 | p=0.78 | HWE | p=0.46 | p=0.03 | |||||
Dominant | AA | 83 (64.8) | 300 (62.8) | 1.00 | 0.63 | AA | 48 (37.5) | 168 (35.1) | 1.00 | 0.66 |
AG+GG | 45 (35.2) | 178 (37.2) | 1.11 (0.721.71) | AG+GG | 80 (62.5) | 310 (64.8) | 0.91 (0.60-1.39) | |||
Recessive | AA+AG | 127 (99.2) | 456 (95.4) | 1.00 | 0.06 | AA+AG | 105 (82) | 379 (79.3) | 1.00 | 0.30 |
GG | 1 (0.8) | 22 (4.6) | 0.21 (0.03-1.64) | GG | 23 (18) | 99 (20.7) | 0.76 (0.45-1.29) | |||
Overdominant | AA+GG | 84 (65.6) | 322 (67.4) | 1.00 | 0.27 | AA+GG | 71 (55.5) | 267 (55.9) | 1.00 | 0.68 |
AG | 44 (34.4) | 156 (32.6) | 1.28 (0.83-1.98) | AG | 57 (44.5) | 211 (44.1) | 1.09 (0.72-1.65) | |||
Log-additive | - | - | - | 0.98 (0.67-1.43) | 0.91 | - | - | - | 0.89 (0.67-1.17 | 0.40 |