Figure 4
From: The shaping of immunological responses through natural selection after the Roma Diaspora
Enrichment of cQTLs in the selection signals. (A) Local Manhattan plot of the region in which the 8 cQTLs found in the selection signals are located. The left plot shows a region of 1 Mb, with R2 values calculated relative to rs28413898 (selected as reference point as it is in the center of the region). The right plot shows a zoomed in region of 70 Kb, where for each of the 8 SNPs the other SNPs in the same region most strongly in linkage disequilibrium are shown in the same color scheme. Both plots were created using LocusZoom74. LD-values are based on hg19 EUR 1000 Genomes 2014. (B) Number of cQTLs found in the selection signals (blue line) compared to permutation results (grey histogram). Overlap between the top cytokine QTLs (cQTLs, p-value < 1e-7) and pruned selection signals. The overlap was compared to 10,000 random permutations. cQTL results for different stimuli and cytokines were merged by taking the lowest p-value for each SNP.
