Evaluation of SLE Susceptibility Genes in Malaysians
Table 1
SLE susceptibility genes in Malay (MA) and Chinese (CH).
Gene
Cytogenetic band
SNP
Base position
A1/A2
Chinese
Malay
Meta-analysis value*
F_A
F_U
value
OR 95% CI
F_A
F_U
value
OR 95% CI
TNFSF4-LOC730070
1q25
rs10798269
173,309,713
A/G
0.342
0.401
0.78 (0.61–0.99)
0.314
0.460
0.54 (0.32–0.9)
NCF2
1q25
rs13306575
183,532,437
T/C
0.080
0.043
1.95 (1.18–3.22)
0.119
0.070
1.78 (0.74–4.28)
MAPKAPK2-IL10
1q31-32
rs2232360
207,040,659
A/G
0.328
0.351
0.9 (0.71–1.15)
0.576
0.397
2.07 (1.24–3.45)
—
RASGRP3
2p25.1-24.1
rs13425999
33,702,203
T/C
0.129
0.174
0.7 (0.51–0.97)
0.102
0.203
0.44 (0.21–0.93)
IFIH1
2q24
rs13023380
163,154,363
A/G
0.010
0.002
6.14 (0.74–51.13)
0.025
0.103
0.23 (0.06–0.82)
—
STAT4
2q32.2-32.3
rs7568275
191,966,452
G/C
0.453
0.317
1.78 (1.4–2.27)
0.422
0.236
2.36 (1.33–4.19)
BANK1
4q24
rs17031870
102,940,788
G/A
0.092
0.058
1.64 (1.05–2.56)
0.237
0.143
1.87 (0.97–3.59)
TNIP1
5q32-33.1
rs3792782
150,456,677
C/T
0.214
0.247
0.83 (0.63–1.09)
0.305
0.453
0.53 (0.31–0.89)
HLA-DRA
6p21.3
rs6911777
32,409,996
C/T
0.264
0.137
2.26 (1.67–3.05)
0.161
0.055
3.32 (1.34–8.21)
PRDM1-ATG5
6q21
rs9398065
106,546,034
C/G
0.075
0.039
1.97 (1.17–3.31)
0.119
0.039
3.31 (1.15–9.5)
TNFAIP3
6q23
rs5029928
138,189,942
T/C
0.083
0.046
1.88 (1.15–3.05)
0.059
0.031
1.96 (0.56–6.86)
C7orf721-IKZF1
7p13-11.1
rs11185603
50,306,810
G/C
0.236
0.282
0.79 (0.61–1.03)
0.144
0.302
0.39 (0.21–0.74)
BLK
8p23-22
rs11782375
11,294,934
C/T
0.277
0.380
0.62 (0.49–0.8)
0.297
0.375
0.7 (0.41–1.2)
LYN
8q13
rs7828258
56,867,945
T/C
0.223
0.242
0.9 (0.68–1.18)
0.136
0.281
0.4 (0.21–0.77)
KIAA1542-PHRF1
11p15.5
rs4963128
589,564
T/C
0.083
0.070
1.2 (0.78–1.86)
0.059
0.156
0.34 (0.14–0.84)
—
IRF7
11p15.5
rs7943546
612,148
C/T
0.024
0.033
0.74 (0.37–1.49)
0.025
0.055
0.45 (0.11–1.79)
PDHX-CD44
11p13
rs12362140
35,142,019
A/C
0.007
0.027
0.25 (0.08–0.75)
0.085
0.148
0.53 (0.24–1.2)
ETS1
11q23.3
rs76404385
128,333,055
T/C
0.202
0.138
1.59 (1.16–2.17)
0.178
0.063
3.25 (1.38–7.65)
SLC15A4
12q24.32
rs6486738
129,432,715
G/C
0.295
0.337
0.82 (0.64–1.05)
0.203
0.305
0.58 (0.32–1.05)
IL21R
16p11
rs8060368
27,412,414
T/C
0.012
0.039
0.3 (0.13–0.71)
0.170
0.109
1.66 (0.8–3.46)
—
ITGAM
16p11.2
rs12444713
31,378,235
A/G
0.284
0.369
0.68 (0.53–0.87)
0.5
0.52
1.1 (0.67–1.82)
—
ORF8-LOC100131952
16q24.1
rs34912238
86,001,903
T/C
0.039
0.077
0.49 (0.29–0.82)
0.076
0.031
2.56 (0.77–8.55)
—
ICAM1-ICAM4
19p13.2
rs5498
10,395,683
G/A
0.250
0.267
0.91 (0.7–1.19)
0.314
0.242
1.43 (0.82–2.51)
—
TYK2
19p13.2
rs12975591
10,627,814
G/A
0.415
0.454
0.85 (0.67–1.08)
0.232
0.121
2.19 (1.09–4.41)
—
UBE2L3
22q11.21
rs2236642
21,989,621
T/C
0.089
0.127
0.67 (0.46–0.98)
0.144
0.172
0.81 (0.41–1.62)
When ORs from CH and MA are in different directions, we did not perform the meta-analysis. — indicated SNPs where no meta-analysis was performed.
OR: odds ratio. Minor allele frequencies are given for the minor allele A1. F_A: minor allele frequency for cases; F_U: minor allele frequency for controls.