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A Markov chain method for calculating transmission probability of QTL alleles in half-sib populations
by
Xiaohua Gong
Bioinformatics Research Center and Department of Statistics, North Carolina State University
Coauthors: Shengchu Wang (shchwang@statgen.ncsu.edu)
Zhao-Bang Zeng (zeng@stat.ncsu.edu)
For half-sib populations, QTL mapping has to deal with two issues: the conditional transmission probabilities of QTL alleles from the sire to its offspring, and the statistical model of the number, positions and effects of QTL. Knott at al proposed a method of using only fully informative flanking markers of the putative QTL for calculating the conditional probabilities in each individual. To better utilize the information contained in those observed but non-informative markers, we proposed a Markov chain method for calculating the conditional probability. Our method will degenerate to Knott et al’s method upon choice of fully informative markers only, but it can also handle cases where the flanking markers are observed but partially informative. We will show the interval mapping result of a dairy cattle half-sib dataset using conditional probabilities from the Markov chain method and compare it with that from QTL Express.
Date received: July 27, 2007
Copyright © 2007 by the author(s). The author(s) of this document and the organizers of the conference have granted their consent to include this abstract in Atlas Conferences Inc. Document # cavm-05.