SNP selection for an association study can be a complex problem. Decades of diverse investigation provide a tremendous amount of information on genes, pathways, and chromosomal regions that appear to be linked to disease. GWAS offers an agnostic approach to investigating SNP-disease association, and the results of such studies offers a wealth of data to inform the next generation of investigation. Here, we develop a user-friendly web server to incorporate such clinical, experimental, mechanistic, and computational information with the results of GWAS in order to organize, annotate, and select SNPs. The web server can be used for either small or large-scale SNP selection and is particularly useful for association studies. It uses both functional prediction and GWAS results to select not only SNPs included in the GWAS, but other functional SNPs in dbSNP that were not in the GWAS. Considering the varied interests and emphasis different investigators may bring to a problem, we provided many tunable parameters in each web utility, so the algorithm can be adjusted to meet different needs.
