Table 2 Association results for selected SNPs in the discovery cohort and replication cohort and all cases and controls combined

From: A genetic variant in IL-6 lowering its expression is protective for critical patients with COVID-19

SNP

CHR

BP (hg19)

A1

F_A

F_U

A2

P-Discovery

OR-Discovery

F_A

F_U

P-Replication

OR-Replication

P-meta

OR-Meta

Gene

Region

rs12995389

2

6485953

A

0.31

0.41

G

8.04 × 10−8

0.66

0.38

0.40

0.464

0.91

2.35 × 10−7

0.72

LOC400940;LINC01247

intergenic

rs9287675

2

6494761

A

0.24

0.32

G

5.03 × 10−7

0.66

0.30

0.31

0.817

0.97

3.37 × 10−6

0.73

LOC400940;LINC01247

intergenic

rs7598285

2

6505563

G

0.21

0.32

A

2.70 × 10−12

0.55

0.30

0.30

0.891

0.98

1.69 × 10−10

0.65

LINC01247

downstream

rs10519086

2

67262646

G

0.02

0.08

T

5.61 × 10−11

0.18

0.07

0.09

0.164

0.72

6.82 × 10−11

0.42

LINC01799;LINC01828

intergenic

rs72809129

2

77475663

A

0.24

0.35

C

6.97 × 10−10

0.59

0.43

0.47

0.268

0.87

1.42 × 10−9

0.67

LRRTM4

intronic

rs7422259

2

167377995

T

0.04

0.11

G

1.11 × 10−9

0.37

0.10

0.14

0.076

0.71

3.60 × 10−10

0.49

SCN7A;XIRP2

intergenic

rs4959041

6

30077967

C

0.25

0.27

T

6.90 × 10−6

0.92

0.23

0.25

0.279

0.86

5.88 × 10−6

0.91

TRIM31-AS1

ncRNA_intronic

rs9261445

6

30094788

T

0.23

0.26

G

4.37 × 10−7

0.86

0.23

0.25

0.298

0.86

5.30 × 10−7

0.86

TRIM31-AS1;TRIM40

intergenic

rs9261453

6

30099948

G

0.24

0.26

A

5.65 × 10−6

0.91

0.23

0.24

0.540

0.91

1.25 × 10−5

0.91

TRIM31-AS1;TRIM40

intergenic

rs9261484

6

30108683

T

0.26

0.29

C

7.14 × 10−6

0.89

0.24

0.26

0.492

0.91

1.33 × 10−5

0.89

TRIM40

intronic

rs9261496

6

30111014

T

0.25

0.26

C

7.88 × 10−6

0.91

0.22

0.25

0.410

0.89

1.11 × 10−5

0.91

TRIM40

intronic

rs9261502

6

30111610

T

0.24

0.26

A

4.51 × 10−6

0.91

0.22

0.24

0.568

0.92

1.11 × 10−5

0.91

TRIM40

intronic

rs9261521

6

30117773

T

0.22

0.25

C

2.61 × 10−8

0.81

0.24

0.25

0.860

0.97

3.17 × 10−7

0.85

TRIM40;TRIM10

intergenic

rs2069837

7

22768027

G

0.09

0.20

A

9.73 × 10−15

0.41

0.18

0.24

8.89 × 10−3

0.67

4.64 × 10−16

0.49

IL6

intronic

rs17158686

7

83794756

G

0.11

0.18

T

2.38 × 10−7

0.54

0.16

0.20

0.072

0.75

4.99 × 10−8

0.61

SEMA3A

intronic

  1. CHR chromosome, BP base-pair position (hg19), A1 Minor allele code, A2 major allele code, F_A frequency of this allele in cases, F_U frequency of this allele in controls, P logistic p value for association test, OR estimated odds ratio (for A1, i.e. A2 is reference), P-meta p value for METAL combined analysis
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