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Table 3 Association of SNP × HIV infection with cIMT among different groups

From: Genome-wide associated variants of subclinical atherosclerosis among young people with HIV and gene-environment interactions

SNP

CHR

Position (GRCh37)

MAF

Gene

Location

Minor allele

SNP × HIV

SNP

HIV

β valuea

Adjusted P valuea

β valuea

Adjusted P valuea

β valuea

Adjusted P valuea

Among all participants

            

rs78012168

3

156,150,321

0.098

KCNAB1

Intronic

A

0.09

7.49E−06

− 0.1

1.69E−04

0.04

3.48E−05

rs1194716

10

54,196,773

0.199

DKK1

Intergenic

T

0.06

1.17E−05

− 0.08

4.74E−05

0.03

4.10E−03

rs4814734

20

1,889,477

0.333

SIRPA

Intronic

T

0.05

1.33E−05

− 0.06

1.98E−04

0.02

8.50E−02

rs13096737

3

10,016,911

0.073

EMC3

Intronic

C

− 0.07

9.95E−04

0.14

5.38E−06

0.07

5.58E−13

rs2302786

3

9,979,660

0.199

CRELD1

Intronic

G

− 0.05

1.26E−03

0.09

8.71E−06

0.07

9.41E−13

rs3774207

3

9,985,656

0.200

CRELD1

Synonymous

T

− 0.04

2.20E−03

0.08

2.45E−05

0.07

1.91E−12

rs3755783

3

10,029,289

0.167

EMC3

Intronic

G

− 0.04

5.90E−03

0.09

6.36E−05

0.07

3.60E−12

rs6786636

3

10,045,703

0.170

EMC3

3′-UTR

C

− 0.04

6.44E−03

0.09

4.89E−05

0.07

2.67E−12

rs3732968

3

10,013,273

0.149

EMC3

Intronic

G

− 0.04

1.72E−02

0.09

2.35E−04

0.06

1.63E−11

rs13146599

4

92,348,857

0.114

CCSER1

Intronic

A

− 0.04

2.21E−02

0.09

2.35E−04

0.06

1.63E−11

rs8058808

16

87,839,943

0.052

SLC7A5

Intergenic

A

− 0.05

3.45E−02

0.12

4.17E−04

0.06

1.94E−11

rs10856885

4

92,309,543

0.130

CCSER1

Intronic

C

− 0.03

4.29E−02

0.08

1.06E−03

0.06

5.64E−11

Among participants under 45 years old

            

rs9932976

16

6,505,665

0.119

RBFOX1

Intronic

C

− 0.09

3.47E−07

0.14

1.20E−08

0.1

1.38E−27

rs9938274

16

6,505,208

0.118

RBFOX1

Intronic

T

− 0.09

4.00E−07

0.14

1.67E−08

0.1

9.96E−28

rs1345439

16

48,751,012

0.133

CBLN1

Intergenic

A

0.08

6.33E−07

− 0.1

1.94E−05

0.06

6.29E−10

rs2507941

3

37,536,056

0.064

ITGA9

Synonymous

T

0.12

8.42E−07

− 0.14

7.37E−05

0.07

7.07E−15

rs6762348

3

96,683,649

0.058

EPHA6

Intronic

G

0.12

1.93E−06

− 0.12

2.80E−04

0.07

3.48E−15

rs62263680

3

96,627,491

0.057

EPHA6

Intronic

C

0.12

2.45E−06

− 0.12

3.71E−04

0.07

2.98E−15

rs62262941

3

96,570,987

0.057

EPHA6

Intronic

C

0.12

3.13E−06

− 0.12

4.77E−04

0.07

2.15E−15

rs77741796

12

80,815,650

0.054

PTPRQ

Intergenic

T

0.11

8.89E−06

− 0.09

1.18E−02

0.07

2.67E−16

rs148420952

4

171,482,271

0.051

LINC01612

Intergenic

T

0.11

4.05E−05

− 0.09

1.21E−02

0.07

1.53E−16

rs35812497

5

108,563,812

0.089

FER, PJA2

Intergenic

A

0.08

1.14E−04

− 0.07

1.53E−02

0.07

1.04E−13

rs10847321

12

127,782,099

0.056

LINC02376

Intergenic

A

0.09

1.69E−04

− 0.07

3.06E−02

0.07

4.96E−16

rs111815403

11

2,553,341

0.061

KCNQ1

Intronic

A

0.07

2.11E−03

− 0.04

2.65E−01

0.07

1.65E−16

Among participants above 45 years old

            

rs11948504

5

166,997,147

0.068

TENM2

Intronic

G

0.19

7.16E−06

− 0.21

2.72E−04

− 0.01

9.34E−01

rs2430722

12

15,122,111

0.255

PDE6H

Intergenic

C

− 0.07

3.53E−03

0.08

1.37E−02

0.06

4.32E−03

rs35129955

4

181,960,818

0.054

LINC00290

Intergenic

C

0.12

6.55E−03

− 0.11

6.05E−02

0.01

6.22E−01

rs36130341

7

343,194

0.273

FAM20C

Intergenic

A

0.05

1.60E−02

− 0.06

6.79E−02

− 0.01

6.80E−01

rs6858162

4

40,555,674

0.050

RBM47

Intronic

T

0.11

1.76E−02

− 0.09

1.72E−01

0.01

5.00E−01

rs9851984

3

193,090,806

0.382

ATP13A5

Intronic

G

− 0.04

5.62E−02

0.03

3.18E−01

0.05

2.23E−02

  1. aAssessed by generalized linear model, adjusted for age, sex, smoking status, regular alcohol use, BMI