Table 1 Description of lead variants for the susceptibility GWAS analysis

From: Genome-wide association study identifies human genetic variants associated with fatal outcome from Lassa fever

Lead SNP

Lead SNP

Chromosome

Position (hg19)

Nearest gene

Nigeria OR

Nigeria 95% CI

Nigeria P value

Nigeria MAF (%)

Sierra Leone OR

Sierra Leone 95% CI

Sierra Leone P value

Sierra Leone MAF (%)

Meta-analysis P value

rs114992845

7

146356694

CNTNAP2

9.19

[3.5, 23.9]

2.7 × 10−6

1.21

4.77

[1.3, 17.8]

0.010

1.86

1.2 × 10−7

rs143130878

17

33192408

CCT6B

1.20

[0.6, 2.6]

0.64

3.38

6.87

[3.3, 14.2]

1.1 × 10−7

2.74

3.3 × 10−4

rs73397758

17

68745251

CASC17

0.84

[0.5, 1.5]

0.58

6.28

9.16

[4.0, 20.8]

5.5 × 10−8

2.42

4.8 × 10−3

  1. Includes the most significant variant in the meta-analysis of both cohorts and the two most significant variants in the Sierra Leone analysis. Country-specific P values are based on SAIGE, while meta-analysis P values are derived from meta-analysis (METAL) of P values generated from each cohort. 95% CI, 95% confidence interval for the OR; MAF, minor allele frequency.
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