To identify additional independent index variants, we performed a stepwise model selection procedure to select independently associated SNPs implemented in GCTA-COJO29,30. We assigned posterior probabilities (PP) of being causal to SNPs and constructed credible sets of SNPs that cumulatively capture 95% of the regional posterior probability125 using PAINTOR126-128, CAVIARBF and FINEMAP129, using the CAUSALdb-finemapping-pipeline (https://github.com/mulinlab/CAUSALdb-finemapping-pip). We applied a conservative approach and assumed one causal variant for each locus.
