Table 2 Description of lead variants for the fatal outcome 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

rs73404538

22

30619983

LIF

0.358

[0.2, 0.5]

1.1 × 10−7

47.8

0.389

[0.19, 0.79]

4.7 × 10−3

35.8

1.9 × 10−9

rs9870087

3

7330265

GRM7

15.4

[6.2, 37.9]

1.5 × 10−9

4.73

0.642a

[0.1, 2.8]a

0.55a

5.02a

1.1 × 10−6a

  1. Includes the most significant variant per genomic locus containing at least one genome-wide significant association (including in meta-analysis). P values are based on SAIGE, while meta-analysis P values are derived from meta-analysis (METAL) of P values generated from each cohort.
  2. ars9870087 was excluded from the Sierra Leone GWAS due to low minor allele count but is included here for completeness.
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