Computational protocol: A Functional Variant in MicroRNA-146a Promoter Modulates Its Expression and Confers Disease Risk for Systemic Lupus Erythematosus

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Protocol publication

[…] For single SNP analysis, PLINK was used for the basic allelic test and other tests in the patients and the controls . LD patterns were analyzed and displayed with HaploView . Review manager was used to perform meta-analysis. IMPUTE version 2 was used to perform imputation. Other data were analyzed with GraphPad Prism 4 software, version 4.03. The nonparametric Mann–Whitney test was used to compare miR-146a expression between the genotype groups, and an unpaired t test was used to compare reporter gene activities. Two-tailed P values<0.05 were considered to be statistically significant. […]

Pipeline specifications

Software tools PLINK, Haploview
Application GWAS
Organisms Homo sapiens
Diseases Autoimmune Diseases, Lupus Erythematosus, Systemic