The present invention is directed to methods for providing a definitive
haplotype of a subject. The haplotype information generated by the
methods described herein is more accurate than that provided by prior art
methods that only give an inferred haplotype. Accordingly, in one aspect
the present invention provides a method for determining a definitive
haplotype of a subject the method including the steps of providing a
substantially isolated haploid element from the subject, and obtaining
nucleotide sequence information from the haploid element. Applicants
propose that the use of a substantially isolated haploid element
eliminates the problem of incorrect or misleading inferences concerning
the phase of two or more loci within a haplotype, and allows for
revelation of two or more participatory genes within a haplotype,
uncomplicated by differences in modes of inheritance. The guarantee of
strictly cis-phase associations is provided in the present methods by the
use of a substantially isolated haploid element as starting material for
sequence analysis.