Computational protocol: Association of phospholipase A2 receptor 1 polymorphisms with idiopathic membranous nephropathy in Chinese patients in Taiwan

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Protocol publication

[…] The genotype information of PLA2R1 single nucleotide polymorphism (SNP) was downloaded in December 2008 from the HapMap CHB + JPT population. HapMap genotypes were analyzed with Haploview, and Tag SNPs were selected using the Tagger function by applying the following additional criteria: (1) a threshold minor allele frequency in the HapMap CHB + JPT population of 0.05 for tag SNPs" and (2) probe/primers that pass the qualification as recommended by the manufacturer (Applied Biosystems), to ensure a high genotyping success rate. One polymorphism that met the criteria, SNP rs6757188 (C/T) in intron 12, and a polymorphism that results in amino acid change (His to Asp), SNP rs35771982 (C/G) in exon 5 of the gene, were selected. […]

Pipeline specifications

Software tools Haploview, Tagger
Application GWAS
Organisms Homo sapiens
Diseases Autoimmune Diseases, Kidney Diseases, Kidney Failure, Chronic