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Optimal Design of Genetic Studies of Gene Expression with Two-Color Microarrays in Outbred Crosses
Beginning of article
ABSTRACT
Combining global gene-expression profiling and genetic analysis of natural allelic variation (genetical genomics) has great potential in dissecting the genetic pathways underlying complex phenotypes. Efficient use of microarrays is paramount in experimental design as the cost of conducting this type of study is high. For those organisms where recombinant inbred lines are available for mapping, the "distant pair design" maximizes the number of informative contrasts over all marker loci. Here, we describe an extension of this design, named the "optimal pair design," for use with F^sub 2^ crosses between outbred lines. The performance of this design is investigated by …
