Locus
|
SNP
|
Position
|
Location
|
Putative (nearby) gene(s)
|
PBC
|
PSC
|
MA, MAF
|
---|
P-value
|
OR
|
P-value
|
OR
|
---|
1p32
|
rs4927257
|
56046320
|
prom.
| |
0.033
|
0.83
|
0.026
|
0.72
|
A, 0.439
|
2p25.3
|
rs1965732
|
3709108
|
intron
|
ALLC
|
0.028
|
1.24
|
0.029
|
1.41
|
G, 0.266
|
5q34
|
rs9686714
|
167853274
|
intron
|
WWC1
|
0.048
|
0.68
|
7.7E-4
|
0.195
|
C, 0.066
|
6p21
|
rs2187668
|
32605884
|
intron
|
HLA-DQA1
|
0.021
|
0.73
|
1.53E-7
|
2.47
|
T, 0.128
|
6p21
|
rs9272346
|
32604372
|
prom.
|
HLA-DQA1
|
0.0067
|
0.79
|
0.025
|
1.37
|
G, 0.422
|
6p21
|
rs7775228
|
32658079
|
inter.
|
LOC100294145, C4B_2
|
7.94E-9
|
1.84
|
0.00171
|
0.46
|
C, 0.146
|
6p21
|
rs3213489
|
32724305
|
intron
|
HLA-DQB2
|
8.37E-9
|
0.60
|
0.00155
|
1.56
|
T, 0.416
|
6p21
|
rs1799908
|
33144243
|
intron
|
COL11A2
|
0.032
|
1.21
|
0.0045
|
0.63
|
A, 0.405
|
6p21
|
rs7454108
|
32681483
|
inter.
|
LOC100294145, C4B_2
|
0.0090
|
1.43
|
0.00130
|
0.326
|
C, 0.086
|
9q34.3
|
rs10119096
|
139801932
|
intron
|
TRAF2
|
0.00087
|
0.70
|
0.041
|
0.70
|
T, 0.263
|
10q26.11
|
rs17098094
|
120592334
|
inter.
|
MIR4681, CACUL1
|
0.0174
|
0.81
|
0.032
|
0.73
|
G, 0.394
|
1p31.3
|
rs10489626
|
67793171
|
intron
|
IL12RB2
|
2.11E-5
|
1.59
| | |
G, 0.179
|
rs3790567
|
67822377
|
intron
|
IL12RB2
|
8.4E-4
|
1.37
| | |
A, 0.242
|
1q32.1
|
rs3024505
|
206939904
|
inter.
|
IL24, CTSE
|
0.047
|
1.25
| | |
A, 0.158
|
2q31.1
|
rs2287619
|
169836730
|
intron
|
ABCB11
|
0.0079
|
1.50
| | |
C, 0.076
|
1q24.3
|
rs12118836
|
171256038
|
inter.
|
MIR3120, MIR1295A
|
0.0081
|
1.37
| | |
A, 0.145
|
3q13
|
rs28413019
|
109890863
|
inter.
|
PVRL3-AS1, DPPA2
|
0.022
|
1.25
| | |
G, 0.237
|
rs1491590
|
70657915
|
inter.
|
MIR1284, MITF
|
0.0021
|
1.34
| | |
G, 0.251
|
4p15.1
|
rs13126571
|
27725689
|
inter.
|
TBC1D19
|
0.031
|
1.24
| | |
A, 0.230
|
4p14
|
rs3114381
|
40533297
|
intron
|
RBM47
|
0.0123
|
1.28
| | |
T, 0.232
|
4q26
|
rs979961
|
117850456
|
inter.
|
TRAM1L1, MIR1973
|
0.0062
|
1.39
| | |
C, 0.131
|
6p21
|
rs9268979
|
32435044
|
inter.
|
LOC100294145, C4B_2
|
6.73E-6
|
0.68
| | |
T, 0.471
|
6p21
|
rs3128927
|
33074288
|
inter.
|
MIR1275, LOC100294145
|
2.16E-5
|
1.50
| | |
T, 0.240
|
6q27
|
rs4710185
|
167522386
|
intron
|
CCR6
|
0.020
|
1.23
| | |
A, 0.358
|
6q27
|
rs9459874
|
167504127
|
intron
|
CCR6
|
0.0040
|
1.29
| | |
T, 0.425
|
6q27
|
rs975822
|
167516458
|
intron
|
CCR6
|
0.0042
|
1.29
| | |
T, 0.459
|
7q32.1
|
rs10488631
|
128594183
|
inter.
|
SMKR1, LOC100130705
|
0.0023
|
1.43
| | |
C, 0.132
|
7p14.3
|
rs965571
|
33622588
|
intron
|
BBS9
|
7.0E-4
|
1.43
| | |
C, 0.207
|
11q12.3
|
rs35730843
|
62527634
|
prom.
|
POLR2G
|
1.21E-5
|
0.393
| | |
C, 0.070
|
11p15.3
|
rs12786216
|
11275192
|
inter.
|
MIR4299, MRVI1-AS1
|
0.0076
|
0.77
| | |
C, 0.299
|
11q23.3
|
rs11217040
|
118680648
|
inter.
|
LOC100131626
|
9.22E-5
|
0.66
| | |
A, 0.246
|
11q24.3
|
rs73022813
|
130704378
|
inter.
|
SNX19, ADAMTS8
|
0.043
|
1.24
| | |
A, 0.176
|
12p13.31
|
rs7975557
|
9853697
|
inter.
|
KLRF2, MIR1244-1
|
0.042
|
1.54
| | |
T, 0.035
|
14q21.1
|
rs10083358
|
39001998
|
inter.
|
LOC100288846, MIPOL1
|
0.0026
|
1.34
| | |
G, 0.252
|
16p12.3
|
rs8055224
|
20285401
|
inter.
|
ERI2, IQCK
|
0.0077
|
0.54
| | |
G, 0.050
|
16q23.3
|
rs8049648
|
83217488
|
intron
|
CDH13
|
0.00175
|
1.68
| | |
C, 0.061
|
19q13.33
|
rs3745516
|
50926742
|
intron
|
SPIB
|
7E-05
|
1.45
| | |
A, 0.254
|
21q22.11
|
rs7279062
|
32074387
|
inter.
|
KRTAP21-3, KRTAP25-1
|
0.0110
|
0.80
| | |
T, 0.476
|
17q12
|
rs9303277
|
37976469
|
intron
|
IKZF3
|
0.0051
|
1.27
| | |
T, 0.478
|
3q22.1
|
rs11917172
|
132166266
|
coding
|
DNAJC13
| | |
0.0122
|
0.53
|
G, 0.138
|
4p16.1
|
rs7686718
|
10171487
|
inter.
|
CLNK, USP17L10
| | |
0.00161
|
1.63
|
C, 0.261
|
6q12
|
rs13191240
|
69675459
|
intron
|
ADGRB3
| | |
0.0095
|
0.2
|
C, 0.04
|
5p15.31
|
rs6869702
|
6401135
|
inter.
|
MIR4278, ICE1
| | |
0.047
|
0.74
|
G, 0.409
|
5q22.2
|
rs1554624
|
111655382
|
intron
|
EPB41L4A
| | |
0.0126
|
0.55
|
G, 0.154
|
5q34
|
rs3822659
|
167858372
|
coding
|
WWC1
| | |
0.0051
|
0.24
|
TG, 0.053
|
6p21
|
rs3130484
|
31715882
|
intron
|
MSH5-SAPCD1
| | |
5.12E-11
|
3.23
|
C, 0.101
|
6p21
|
rs1264377
|
30764907
|
inter.
|
PSORS1C3, MIR877
| | |
8.02E-8
|
2.39
|
A, 0.159
|
6p21
|
rs2524163
|
31259579
|
intron
|
HLA-B
| | |
5.94E-7
|
2.02
|
C, 0.429
|
6p21
|
rs3130626
|
31598489
|
intron
|
PRRC2A
| | |
1.5E-6
|
2.10
|
G, 0.207
|
6p21
|
rs419788
|
31928799
|
intron
|
SKIV2L
| | |
1.21E-6
|
2.03
|
T, 0.250
|
6p22.1
|
rs3815081
|
30114074
|
intron
|
TRIM40
| | |
0.0141
|
0.59
|
G, 0.169
|
rs1936365
|
28268452
|
intron
|
PGBD1
| | |
0.0034
|
1.72
|
C, 0.128
|
11q24.3
|
rs34708188
|
128223560
|
inter.
|
SENCR
| | |
0.0057
|
2.27
|
T, 0.038
|
7q35
|
rs954072
|
144757945
|
inter.
|
CTAGE4
| | |
0.0069
|
0.66
|
C, 0.406
|
8q21.13
|
rs1380634
|
80237893
|
inter.
|
MIR5708, LOC101241902
| | |
0.001011
|
1.70
|
G, 0.241
|
15q21.3
|
rs11853454
|
54169638
|
inter.
|
UNC13C, WDR72
| | |
0.040
|
1.39
|
A, 0.218
|
17p13.2
|
rs238224
|
4863410
|
intron
|
SPAG7
| | |
0.0174
|
0.57
|
A, 0.146
|
- Map loci refer to the GRCh37 assembly. SNPs chosen on the basis of Celiac disease and IBD association are bolded. Odds ratios (ORs) are for minor alleles. SNP single nucleotide polymorphism, MA minor allele, MAF minor allele frequency; inter., intergenic (location); prom., promoter