Extended Data Fig. 4: MPRA analyses of the susceptibility and outcome GWAS peaks. | Nature Microbiology

Extended Data Fig. 4: MPRA analyses of the susceptibility and outcome GWAS peaks.

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

Extended Data Fig. 4

(A) Scatter plot of lead susceptibility GWAS loci described in the main text showing chromosomal position against -log10 association P-value. Variants are colored by the linkage disequilibrium (LD) coefficient of determination R2 between each variant and the most significant ‘lead’ variant in the locus. (B) Same as A but for the lead variants in the fatal outcome GWAS. (C–F) Same as A and B but colored by whether the variant showed statistically significant skew (q-value < 0.05) in the massively parallel reporter assay in the K562 cell line (C and E) or HepG2 cell line (D and F). P-values are based on saddlepoint-approximated score tests (SAIGE), while meta-analysis P-values are derived from meta-analysis (METAL) of P-values generated from each cohort.

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