This tool utilizes summary results from a comprehensive genome-wide phenome-wide association study of over 635,000 Veterans enrolled in MVP. It provides a visualization of the association network between SNPs and multiple phenotypes, multiple related phenotypes and SNPs and allows users to compare results across the populations to highlight key results on heterogeneity. The current version includes visualizations of single trait GWAS findings, single SNP PheWAS findings, as well as comparisons of these findings across the populations highlighting SNP-trait pairs with significant differences between a minority population and European population. Users may search by SNPs or traits to select results of interest.
Using the app
Enter a SNP, Phenotype name, Phecode number, lab, survey question, or vital signs. Note: Please use exact search terms and variables, for example: “Phecode:250” or “250”; “BRACA1”; “SMKAG”.
Click to select rows in the search results.
Select the populations (select multiple to compare results across the populations).
Select the candidate nodes you would like to screen the results.
Submit your selection to the server and show the network.
Press the Unselect button to clear your selection.
To adjust the threshold p-value. Default 5 x 10-8
Click the tabs at the top of the main page to view the plots of the significant signals, shared signals and heterogeneous signals for your selection. You can also view the details in table format by going to the table tab.
Significant signals: Scatter plot.
X-axis: rsID(traits as input) / traits(SNP as input)