GWAS3D uses a series of user-friendly interfaces to display the results, which summarize the potential regulatory effects of these variants and facilitate the identification and selection of casual variants for follow-up experimental validation. The detected regulatory variants and their associated loci/interactions can be globally viewed from a circle plot in the left panel of ‘GWAS3D PLOT’ page (Figure 2). User can also check the overview of current GWAS3D run and download related information from right panel (Supplementary Figure S1). To query the detailed information of each variant with GWAS3D signals, we designed a variant prioritization table as well as comprehensive tab viewers in the ‘GWAS3D INFO’ page. In the prioritization table, the most significant regulatory variant in the LD of each leading variant is ranked by the significance of combined P-value. Also, variants with different type of GWAS3D signals are marked in different colors. For example, variants with significant TF-binding affinity change will be marked by purple stamp, and variants with active enhancer signal will be marked by green stamp. In the right tabs, user can identify the deleteriousness of selected variants by analyzing many annotations of its regulatory features in a dynamic manner (Figure 3).
