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Table 2 Characteristics of simulated loci

From: Two-stage study designs for analyzing disease-associated covariates: linkage thresholds and case-selection strategies

    Averagea  
Chr Locus (closest SNP) Distance between true locus and closest SNP (cM) NPL (SD) at locusb SNP MAFc in cases (one per family, n = 1500) SNP MAF in controls (n = 2000) r2 between SNP and true locus
9 G (186) 0.08 0.01 (0.30) 0.374 0.384 0.01
11 F (389) 0.01 0.34 (0.49) 0.275 0.501 0.94
18 E (269) 0.05 0.92 (0.81) 0.297 0.223 0.15
  1. aAverages calculated across 100 replicates
  2. bNPL, nonparametric multipoint LOD score from MERLIN when analyzing binary RA affection status
  3. cMAF, minor allele frequency