Study of Single Nucleotide Polymorphisms Associated with Breast Cancer Patients among Arab Ancestries
Table 2
The most significant SNPs associated with breast cancer in Saudi Arabians.
S. no
CHR
SNP ID
BP
MA
MAF
value
OR(L95-U95)
Gene
AA
CCF
1
3
rs202018563
43389699
A
0.482
6.97E-10
18.9 (6.49-55.01)
SNRK and SNRK-AS1
G
0.875, 0.270
2
13
rs2227943
32911278
T
0.415
4.89E-09
0.05 (0.01-0.17)
BRCA2
C
0.806, 0.214
3
2
rs199826847
239049921
T
0.473
4.91E-09
10.17 (3.95-26.11)
ZNF484
C
0.868, 0.347
4
11
rs1695739
126196175
A
0.383
9.14E-09
25.67 (6.74-97.79)
DCPS
G
0.875, 0.214
5
2
rs189581518
136111018
A
0.394
5.17E-08
11.07 (4.09-29.92)
ZRANB3
C
0.808, 0.235
6
16
rs7206703
57091977
T
0.4
6.83E-08
0.04 (0.01-0.19)
NLRC5
C
0.947, 0.439
7
21
rs112011493
44840296
C
0.474
9.63E-08
0.09 (0.03-0.24)
SIK1
T
0.841, 0.329
8
16
rs762349227
682670
T
0.382
1.24E-07
0.04 (0.01-0.20)
WFIKKN1
C
0.767, 0.222
9
12
rs200582033
6031943
C
0.311
1.56E-07
18.91 (5.20-68.72)
ANO2
T
0.978, 0.535
10
15
rs114516513
51758447
T
0.397
1.61E-07
0.05 (0.01-0.22)
DMXL2
C
0.889, 0.220
11
3
rs192044702
81698005
A
0.185
1.70E-07
12.43 (4.41-35.01)
GBE1
G
0.542, 0.059
12
17
rs139171143
4802111
C
0.3
2.10E-07
19.69 (5.38-72.1)
CHRNE and C17orf107
G
0.600, 0.129
13
6
rs140709825
111697900
A
0.357
2.28E-07
12.2 (4.35-34.24)
REV3L
G
0.719, 0.182
14
9
rs142712699
95610753
A
0.256
2.46E-07
14.17 (4.39-45.65)
ZNF484
C
0.722, 0.117
15
16
rs11552432
1823054
C
0.186
2.53E-07
44 (7.28-266.1)
MRPS34, EME2 and NME3
G
0.800, 0.083
16
7
rs141963459
2691854
G
0.02
2.64E-07
21.64 (4.56-102.7)
TTYH3
A
1.000, 0.972
17
14
rs35064097
57700585
T
0.207
2.71E-07
10.81 (4.06-28.79)
EXOC5
G
0.455, 0.056
18
6
rs200026839
66204932
T
0.385
2.94E-07
11.5 (4.18-31.64)
EYS
G
0.767, 0.212
19
16
rs16957552
75269124
T
0.365
2.94E-07
0.05 (0.01-0.22)
BCAR1
C
0.950, 0.488
20
6
rs57738384
129763368
A
0.286
2.96E-07
10.13 (3.73-27.52)
LAMA2
G
0.700, 0.156
21
2
rs140626972
160602359
A
0.211
3.03E-07
20 (5.68-70.42)
7-mar
G
0.577, 0.062
22
23
rs145970300
107819173
A
0.151
3.43E-07
10.36 (3.81-28.17)
COL4A5
C
0.389, 0.029
23
19
rs114544630
1481787
G
0.429
3.72E-07
11.67 (4.08-33.29)
PCSK4
C
0.900, 0.419
24
8
rs187011732
144992465
C
0.449
3.99E-07
0.08 (0.02-0.24)
PLEC
T
0.875, 0.385
25
6
rs562092150
170115902
A
0.118
4.03E-07
39.5 (4.88-319.5)
PHF10
C
0.367, 0.014
26
18
rs201319761
19997762
A
0.145
4.28E-07
42 (6.55-269.3)
CTAGE1
G
0.406, 0.038
27
14
rs146398509
92470845
T
0.282
4.85E-07
12.71 (4.15-38.87)
TRIP11
C
0.579, 0.125
28
2
rs115282281
26534041
T
0.219
4.89E-07
0.06 (0.02-0.23)
ADGRF3 and LOC105374334
C
0.500, 0.079
29
1
rs202005618
226411686
G
0.349
5.13E-07
9.62 (3.72-24.89)
MIXL1
C
0.952, 0.500
30
9
rs56170708
96010036
G
0.351
5.51E-07
0.07 (0.02-0.24)
WNK2
A
0.935, 0.500
31
7
rs41273999
23821123
A
0.351
5.68E-07
0.025 (0.003-0.19)
STK31
G
0.769, 0.191
32
15
rs11574476
73994778
G
0.337
6.01E-07
17.11 (4.42-66.15)
CD276
A
0.731, 0.194
33
12
rs7302017
63004583
A
0.214
6.34E-07
10.96 (3.96-30.32)
None
G
0.800, 0.087
34
15
rs55799438
40544493
A
0.415
6.58E-07
11.48 (3.99-33.03)
C15orf56, PAK6 and BUB1B-PAK6
G
0.938, 0.432
35
18
rs138472116
9124917
T
0.196
6.72E-07
0.08 (0.03-0.25)
NDUFV2 and NDUFV2-AS1
C
0.472, 0.066
36
2
rs150343979
25384086
A
0.45
6.95E-07
15.19 (5.56-41.44)
POMC
G
0.909, 0.342
37
4
rs75428449
175224971
A
0.337
7.05E-07
28.36 (5.64-142.6)
CEP44
C
0.731, 0.194
38
5
rs199715117
130517944
A
0.255
7.29E-07
11.24 (3.96-31.97)
LYRM7
C
0.559, 0.111
39
7
rs34850251
94164820
A
0.337
7.87E-07
12.42 (4.16-37.12)
CASD1 and LOC105375404
C
0.731, 0.182
40
5
rs147680491
61779069
A
0.29
7.89E-07
0.10 (0.03-0.27)
IPO11
G
0.633, 0.143
41
23
rs146662506
11207098
A
0.365
9.23E-07
14.93 (4.71-47.38)
ARHGAP6
G
0.719, 0.188
CHR: Chromosome; SNP ID: Single nucleotide polymorphism ID; BP: Base pair position at the respective chromosome as per GRCh37.p13; MA: Minor allele name; MAF: Frequency of minor allele in controls; OR: Odd ratio; SE: Standard error; L95: Lower bound of 95% confidence interval for odds ratio; U95: Upper bound of 95% confidence interval for odds ratio. AA: Associated Allele; CCF: Case, Control Frequencies.