A Pedigree Partitioning Approach to Quantitative Trait Loci Mapping of IgE Serum Level in the GAW12 Hutterite Data

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Abstract
We present a semi‐automatic method that uses principles from factor analysis to subdivide large pedigrees into smaller, non‐overlapping sub‐pedigrees. Application of our method to the Genetic Analysis Workshop 12 Hutterite pedigree yielded 12 sub‐pedigrees that were used to carry out a genome‐wide linkage scan for IgE serum level in SOLAR. Two‐point analyses resulted in strong evidence for linkage to two marker loci on chromosome 1, D1S3723 (lod = 3.70) and D1S534 (lod = 3.58). Multipoint analysis resulted in a maximum lod of 4.58 on chromosome 1 at 143 cM. After extending the two pedigrees that contributed the most evidence for linkage, the maximum lod score decreased to 4.18, with most of the evidence for linkage due to a single large sub‐pedigree.