Veracode microbeads

Single nucleotide polymorphisms (SNPs) in OXSR1 were selected using the Asian population database from the International HapMap Project (http://hapmap.ncbi.nlm.nih.gov/) and NCBI (http://www.ncbi.nlm.nih.gov/snp) databases as follows: first, candidate SNPs were extracted from the intragenic region including 2 kb of the 5’ region of the gene using Asian population data in the International HapMap database, and then linkage disequilibrium structures of each gene were analyzed using SNPs with > 5% minor allele frequencies (MAF). A representative SNP was selected in the case of absolute LD (|D′| = 1 and r2 > 0.95) between the SNPs. Finally, 11 SNPs were selected and genotyped using the GoldenGate assay with VeraCode microbeads (Illumina, San Diego, CA, USA) as previously described [30 (link)]. These were scanned using the BeadXpress® system (Illumina).

Twelve ILVBL polymorphisms were selected using the Asian population database from the International HapMap Project database (http://​hapmap.​ncbi.​nlm.​nih.​gov/​) and the NCBI database (http://​www.​ncbi.​nlm.​nih.​gov). SNP selection was based on the following scheme. First, candidate SNPs were extracted from the intragenic region including 2 kb of the 5′ region of each gene using Asian population data in the International HapMap database, and then LD structures of each gene were analyzed using SNPs with >5% minor allele frequencies. A representative of the SNPs in almost absolute LD (|D′| = 1 and r² > 0.95) was selected. A total of 702 SNPs were selected and genotyped using the GoldenGate assay with VeraCode microbeads (Illumina, Inc.) [36 (link)]. This was followed by scanning using the BeadXpress® system (Illumina, Inc.).