The primary analysis in this paper is the GWAS, which analyzes each SNP for association to phenotype. The international standard for statistical significance is p<5×10−8, which corrects for the approximately one million independent statistical tests conducted. Focused secondary analyses are now the expectation for primary GWAS reports, and we describe statistical significance thresholds for them individually. We used the accepted and expected methods of multiple testing correction. Gene-based and pathway analyses were also conducted. For these analyses, statistical significance was set using the Bonferroni correction, which is conservative given non-independence among the gene-based and pathway statistical tests. For the gene-based analyses, we defined statistical significance as gene p-value < 2.6×10−6 (0.05/19,222 genes tested). For pathway analyses: p-value <1.8×10−5 (0.05/2,714 pathways tested).
