Table 1 Candidate genes in AA GWAS regions.

From: Genome-wide meta-analysis in alopecia areata resolves HLA associations and reveals two new susceptibility loci

Locus

Genes of interest

SNP

Chr

BP

A1A2

P

OR

6p21.32

HLA-DQB1

rs9275524

6

32,783,087

TC

1.8E−60

0.52

10p15.1

IL15RA,IL2RA

rs3118470

10

6,141,719

TC

7.7E−21

0.71

2q33.2

CD28,CTLA4,ICOS

rs231775

2

204,440,959

AG

2.2E−20

0.72

6q25.1

RAET1L,ULBP3

rs12183587

6

150,396,301

TG

5.9E−24

1.48

11q13

PRDX5

rs574087

11

63,859,524

AG

8.7E−14

1.32

12q13

IKZF4 (Eos),ERBB3

rs2292239

12

54,768,447

TG

4.4E−09

1.25

4q27

IL21,IL2

rs7682481

4

123,743,476

CG

4.8E−09

1.23

5q31.1

IL13,1L4

rs848

5

132,024,399

AC

4.8E−09

1.27

2q13

ACOXL,BCL2L11(BIM)

rs3789129

2

111,414,511

AC

1.5E−08

1.31

11q13.5

GARP(LRRC32)

rs2155219

11

75,976,842

TG

4.1E−08

1.21

1p13.2

PTPN22

rs2476601

1

114,179,091

AG

8.9E−08

1.34

12q24.12

SH2B3(LNK),ATXN2

rs653178

12

110,492,139

TC

1.6E−07

0.84

16p13.13

CIITA,CLEC16A,SOCS1

rs3862469

16

11101581

TC

1.7E−07

0.82

9q31.1

STX17, NR4A3

rs10124366

9

101,727,524

AG

1.1E−05

0.83

  1. GWAS, genome-wide association studies; OR, odds ratio; SNP, single-nucleotide polymorphism.
  2. Fourteen regions in the genome have demonstrated association with AA by GWAS and replication. For each region, genes of interested are listed, along with the most significant SNP, its location in the genome, P value and OR obtained with logistic regression from the combined analysis (N=10,796). P values and effect estimates from each analytic stage are in Supplementary Table 3. P-values in bold exceed the threshold for genome-wide statistical significance.
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