FUMA first defined independent significant SNPs which have a genome-wide significant P value (5 × 10−8) and are independent at r2 < 0.6. Subsequently, lead SNPs were defined by retaining those independent significant SNPs that were independent from each other at r2 < 0.1. Next, risk loci were defined by merging physically overlapping lead SNPs or lead SNPs whose LD blocks were closer than 250 kb apart. A consequence of this definition of risk loci is that the same locus may be discovered for different phenotypes included in the study, while the lead SNPs are different.
