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Table 1 Overview of tools and different subsequent protocols in use. Study designs enlist three stages of analysis

From: Enrichment of B cell receptor signaling and epidermal growth factor receptor pathways in monoclonal gammopathy of undetermined significance: a genome-wide genetic interaction study

Tool in use Statistic used Statistical model in use Default pre-selection criteria for interaction test Study design No. of tests performed Bonferroni adjusted genome-wide level of significance (< 1% FDR) No. of risk loci pairs discovered
CASSI Wellek-Zeigler statistic Logistic regression; fixed effects weighted model Single marker test
P value < 10−3
Discovery study 2.8 × 107 5 × 10− 10 561
Follow up study 4.4 × 105 5 × 10−10 352
Replication study 8.2 × 106 5 × 10−10 23
INTERSNP Chi square statistic Full log-linear model Top 5000 variants of single marker test Discovery study 1.25 × 107 8 × 10−10 none
  1. FDR false discovery rate