Help text from FUMA https://fuma.ctglab.nl Circos plots of chromatin interactions and eQTLs Manhattan plot: The most outer layer. Only SNPs with P < 0.05 are displayed. SNPs in genomic risk loci are color-coded as a function of their maximum r2 to the one of the independent significant SNPs in the locus, as follows: red (r2 > 0.8), orange (r2 > 0.6), green (r2 > 0.4) and blue (r2 > 0.2). SNPs that are not in LD with any of the independent significant SNPs (with r2 <= 0.2) are grey. The rsIDs of the top SNPs in each risk locus are displayed in the most outer layer. Y-axis are ranked between 0 to the maximum -log10(P-value) of the SNPs. Chromosome ring: The second layer. Genomic risk loci are highlighted in blue. Mapped genes by chromatin interactions or eQTLs: Only mapped genes by either chroamtin interaction and/or eQTLs (conditional on user defined parameters) are displayed. If the gene is mapped only by chromatin interactions or only by eQTLs, it is colored orange or green, respectively. When the gene is mapped by both, it is colored red. Chromosome ring: The third layer. This is the same as second layer but without coordinates to make it easy to align position of genes with genomic coordinate. Chromatin interaction links: Links colored orange are chromatin interactions. Since v1.2.7, only the interactions used for mapping based on user defined parameters are displayed. eQTL links: Links colored green are eQTLs. Since v1.2.7, only the eQTLs used for mapping based on user defined parameters are displayed.