Figure 1: Regional plot of association signals and LD patterns at the HLA region. | Nature Communications

Figure 1: Regional plot of association signals and LD patterns at the HLA region.

From: Genetic determinants of antithyroid drug-induced agranulocytosis by human leukocyte antigen genotyping and genome-wide association study

Figure 1

(Top panel): The x axis shows chromosomal positions. The left y axis shows –log10P values from the GWAS. Colours of the dots indicate the LD relationship between rs17193122 or rs116869525 and their neighbouring SNPs in the 4-Mb region (30–32 Mb for rs17193122 and 32–34 Mb for rs116869525) based on our own data (969 samples). The red dashed line indicates the significance threshold (9.56 × 10−8). The right y axis shows the recombination rate between SNPs calculated based on Asian-ancestry population data from the 1000 Genomes Project. (Bottom panel): LD map based on r2 in the associated regions using genotype results from our own data (969 samples). We construct the plot using the Haploview software version 4.2, and r2 (× 100) values are depicted in the diamonds.

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