JDS
HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
QUICK SEARCH:   [advanced]


     

Journal of Dairy Science Vol. 81 No. 5 1462-1468
© 1998 by American Dairy Science Association ®
This Article
Right arrow Full Text (PDF)
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Download to citation manager
Right arrow reprints & permissions
Citing Articles
Right arrow Citing Articles via HighWire
Right arrow Citing Articles via Google Scholar
Google Scholar
Right arrow Articles by Du, F.-X.
Right arrow Articles by Denise, S. K.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Du, F.-X.
Right arrow Articles by Denise, S. K.

Haplotype Construction of Sires with Progeny Genotypes Based on an Exact Likelihood

F.-X. Du 1, B. W. Woodward 1, and S. K. Denise 2

1 Department of Animal Science, University of Minnesota, St. Paul 55108
2 Department of Animal Sciences, University of Arizona, Tucson 85721

A maximum likelihood method is presented that can be used to construct parental haplotypes based on their progeny genotypes. The exact error rate and choice of family size in haplotype construction were evaluated through mathematical expressions and numerical examples. Numerical results suggest that, if two markers are tightly linked (le10 cM) and each has intermediate allele frequencies, a difference of one between progeny receiving parental and recombinant gametes is sufficient for constructing sire linkage phase; a difference of two or more progeny is required with two markers 30 cM apart. When each of two adjacent markers has two alleles with equal allelic frequencies, genotyping 10 and 50 progeny are needed to achieve a power of 0.85 for constructing a sire linkage phase of two tightly (10 cM) and moderately tightly linked (30 cM) markers, respectively. The family size is reduced by approximately half when both markers have three alleles with equal frequencies. Results suggest that, when an experiment requiring haplotype determination of a parent is being designed, researchers should choose the appropriate threshold and family size in the context of marker allelic frequencies and recombination fractions.

Key Words: genetic marker • type I error • experimental power • haplotype construction

Submitted on November 4, 1996
Accepted on December 3, 1997




This article has been cited by other articles:


Home page
 BioinformaticsHome page
Y. J. Yoo, J. Tang, R. A. Kaslow, and K. Zhang
Haplotype inference for present absent genotype data using previously identified haplotypes and haplotype patterns
Bioinformatics, September 15, 2007; 23(18): 2399 - 2406.
[Abstract] [Full Text] [PDF]

Home page
 BioinformaticsHome page
K. Zhang, F. Sun, and H. Zhao
HAPLORE: a program for haplotype reconstruction in general pedigrees without recombination
Bioinformatics, January 1, 2005; 21(1): 90 - 103.
[Abstract] [Full Text] [PDF]


HOME HELP FEEDBACK SUBSCRIPTIONS ARCHIVE SEARCH TABLE OF CONTENTS
Copyright © 1998 by the American Dairy Science Association ®.