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United States Department of Agriculture

Agricultural Research Service

Title: Genoprob: Computation of Genotype and Grandparental Origin Probabilities in Complex Pedigrees with Missing Marker Data

Authors
item Thallman, Richard
item Cooke, David - HASTINGS COLL,HASTINGS,NE
item Bennett, Gary

Submitted to: Meeting Abstract
Publication Type: Proceedings
Publication Acceptance Date: April 20, 2002
Publication Date: August 19, 2002
Citation: Thallman, R.M., Cooke, D.B., Bennett, G.L. 2002. Genoprob: Computation of genotype and grandparental origin probabilities in complex pedigrees with missing marker data. Proceedings of the 7th World Congress on Genetics Applied to Livestock Production. CD-ROM Communication No. 28-09. Montpellier, France.

Interpretive Summary: GenoProb analyzes genetic marker data in complex pedigrees with missing marker data using an iterative allelic peeling algorithm. Its output has been used for QTL detection, marker assisted selection, and identification and correction of errors in marker data and pedigrees. It computes the approximate genotypic distribution of marker loci using an incomplete penetrance model that accounts for the possibility of scoring errors in the marker data and can therefore compute the probability of scoring errors. It can also account for unobservable (recessive) marker alleles. GenoProb computes approximate grandparental origin probabilities, which can be used in QTL analysis. A multilocus extension to GenoProb is under development. Computations are proportional to numbers of individuals, loci, and genotypes.

Technical Abstract: GenoProb analyzes genetic marker data in complex pedigrees with missing marker data using an iterative allelic peeling algorithm. Its output has been used for QTL detection, marker assisted selection, and identification and correction of errors in marker data and pedigrees. It computes the approximate genotypic distribution of marker loci using an incomplete penetrance model that accounts for the possibility of scoring errors in the marker data and can therefore compute the probability of scoring errors. It can also account for unobservable (recessive) marker alleles. GenoProb computes approximate grandparental origin probabilities, which can be used in QTL analysis. A multilocus extension to GenoProb is under development. Computations are proportional to numbers of individuals, loci, and genotypes.

Last Modified: 10/25/2014
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