An Evolutionary Analysis of Antigen Processing and Presentation across Different Timescales Reveals Pervasive Selection
Figure 6
Analysis of selected variants.
Location of the most likely selection targets in PSMB10 (A), NRD1 (B), IFI30 (C), CTSL2 (D), CTSE (E), MARCH1 (F), MR1 (G), CD1D (H), and CYBB (I) within the UCSC Genome Browser view. Relevant annotation tracks are shown. For MARCH1 a short alignment of the highly conserved sequence encompassing rs2036905 is reported. For PSMB10, NRD1, IFI30, CTSL2, and CD1D a sliding-window analysis of Fay and Wu's H is also shown, as mentioned in the text. The hatched horizontal line represents the 5th percentile (see methods) and significantly negative values are in red. Variants in blue, red and green represent selection targets in CEU, AS, and YRI, respectively. SNP notation is as follows: triangle, FST outlier; diamond, DIND outlier; dot, both FST and DIND outlier; square, SNP associated with a disease.