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Research Report SRR96-006
On Extending the transmission disequilibrium test Tdt
Susan R. Wilson
Abstract:
The transmission/disequilibrium test (TDT) for linkage and linkage
disequilibrium is extended to the more general situation of evaluating the
unequal probability of transmission of two
multi-allele marker loci from parents to affected
offspring. Transmission probabilities are derived for a generalized single
locus disease model, where the disease locus is taken to lie between the two
marker loci. There could be unlinked moderator loci for the disease.
Writing the data on transmission from parents to affected offspring as a
two-way table of the transmitted versus not transmitted haplotypes
(which are formed from the two marker loci), it is shown that the TDT is equivalent
to a test of symmetry for this table. Such a test can be formulated in a
logistic regression framework, giving useful simplifications. Examples
are given and it is shown how the contribution from each locus can be evaluated,
both separately and jointly.
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