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Table 2 The experimental results for nuclear families when the genotype data for both parents is available.

From: Linked region detection using high-density SNP genotype data via the minimum recombinant model of pedigree haplotype inference

  2 children 3 children 4 children 5 children 6 children
No. of Breakpoints 11.11 (10.59) 15.63 (15.50) 21.32 (21.28) 26.61 (26.60) 31.66 (31.60)
precision 0.47 (0.50) 0.93 (0.98) 0.95 (0.97) 0.98 (0.99) 0.98 (0.99)
recall 0.47 (0.48) 0.91 (0.96) 0.94 (0.97) 0.96 (0.98) 0.96 (0.98)
length of real linked region (cM) 76.66 59.51 40.82 35.97 29.90
length of found linked region (cM) 78.70 (79.51) 60.79 (60.77) 42.15 (42.13) 37.00 (37.01) 30.97 (30.99)
overlap/real 1.00 (1.00) 1.00 (1.00) 1.00 (1.00) 1.00 (1.00) 1.00 (1.00)
overlap/found 0.97 (0.96) 0.97 (0.97) 0.96 (0.96) 0.96 (0.96) 0.95 (0.95)
linked region recovery 1.00 (1.00) 1.00 (1.00) 1.00 (1.00) 1.00 (1.00) 1.00 (1.00)
  1. The row "No. of Breakpoints" indicates the number of breakpoints in the whole family. The row "precision" is the ratio of the number of correctly inferred breakpoints to the total number of inferred breakpoints. The row "recall" is the ratio of the number of correctly inferred breakpoints to the number of real breakpoints. The row "length of real linked region (cM)" is the length of the linked region generated in the simulation. The row "length of found linked region (cM)" is the length of the linked region calculated by our program. The row "overlap/real" is the length of the region shared by both the real linked region and the inferred linked region divided by the length of the real linked region. The row "overlap/found" is the length of the region shared by both the real linked region and the inferred linked region divided by the length of the inferred linked region. The row "linked region recovery" is the number of times that the inferred linked region contains the mutation site divided by the total number of experiments. In each cell, the first value is by our program and the one in brackets is by the program in [6].