Extended Data Fig. 1: A discovery genome-wide association analysis identifies a potentially novel locus associated with HIV spVL in individuals with African ancestries.
From: Africa-specific human genetic variation near CHD1L associates with HIV-1 load
a, Genome-wide association results of the impact of common polymorphisms on HIV-1 spVL in the discovery set of 2,682 individuals of African ancestry. Genetic variants (yellow/brown diamonds) are plotted by chromosome position (GRCh37, x-axis) and statistical significance (y-axis). The dashed line indicates the screening threshold for significance (P < 5 × 10−8). Variants in two genomic regions, the HLA region on chromosome 6 and a novel chromosome 1 locus, are significantly associated with spVL. The top associated variant per region is listed above the association peak. b, Association results across the newly identified chromosome 1 region in the discovery sample of 2,682 individuals of African ancestry. Variants (boxes and diamond) are plotted by position (GRCh37) and –log10(P). The top associated variant, rs73001655 (P = 3.2 × 10−8) is represented by the red diamond. Association was calculated per group using linear regression and meta-analysed across groups. Additional variants are coloured by their correlation to rs73001655 calculated from the African subset of the 1000 Genomes Project reference phase 3 sample. Arrows below the dashed line indicate the location and direction of transcription of protein-coding genes (green) and non-coding RNA (blue).
