SNP selection and genotyping

Fifty-eight variants were selected based on the GWAS for T2D [84, 90–126] and were genotyped in the IMMEnSE consortium population (Table ​(Table4).4). We considered only SNPs that were replicated in large and independent populations or which came up in several GWAS or their meta-analyses. Additional criteria were potential functionality and linkage disequilibrium (LD) between the reported SNPs. The genotyping of the selected polymorphisms was carried out at GENYO (Centre for Genomics and Oncological Research: Pfizer/University of Granada/Andalusian Regional Government, Granada, Spain) using KASPar^® assays (LGC Genomics, Hoddesdon, UK) according to manufacturer's instructions. For internal quality control, 5% of samples were randomly selected and included as duplicates. Concordance between the original and the duplicate samples for the 58 SNPs was ≥ 99.0%. Call rates for all SNPs were ≥ 90.0% with the exception of the WFS1_rs734312 SNP that was excluded from further analyses.

n/s, not specified; Aa, Aminoacid; GWAS, genome-wide association studies; OS, overall survival.

References are listed in Supplementary Material. Effect allele in bold and underlined.