(A) Comparison of simple mapping and GRAIP for BXDs treated as individuals. Shaded gray regions are significant at genome-wide P = 0.05 or better in the GRAIP results.Ĭoat color QTL maps treating BXD observations as independent individuals versus mapping strain means. On the Chr.4 coat color locus simple mapping value is truncated at LOD = 25, to simplify reading the graph. Simple mapping results are on the left hand scale, while GRAIP results are on the right. Note that for ease of graphing on a -log scale we have adjusted P<1/10000 to P = 0.0001, so the maximum –log P = 4. Finally, (5) the significance of the permuted maps are compared at a pointwise and whole genome basis with the original map.Ĭoat color (A) and hippocampus weight (B) in the UTHSC AIL population Red traces are the simple mapping output, and the red bar is genome-wide P = 0.05 by naïve permutation.īlack traces are GRAIP permutation output. Next (3) the population of offspring is regenerated using the permuted genotypes and (4) permuted maps are generated using the non-permuted phenotypes. First (1) parental happlotypes are regenerated if they are not already known and (2) the parents are permuted. This cartoon summarizes the GRAIP approach. Breeding pairs are chosen for minimum relatedness at each generation. (Typically such lines consist of 50–100 animals at each generation rather than the 8 shown.) Letters A–H indicate 8 unique F2 animals, and their offspring “inherit” these identifiers. The right panel is an example of breeding an advanced intercross line. The animals are considered inbred at 20 generations. Each strain is essentially a set of repeated intercrosses starting with inbred parental strains. The left panel of this figure diagrams breeding of a small recombinant inbred (RI) strain set.
0 kommentar(er)
