Estimation of Jacquard's genetic identity coefficients with bi-allelic variants by constrained least-squares.

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Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_A945D8A3E304
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
Estimation of Jacquard's genetic identity coefficients with bi-allelic variants by constrained least-squares.
Journal
Heredity
Author(s)
Graffelman J., Weir B.S., Goudet J.
ISSN
1365-2540 (Electronic)
ISSN-L
0018-067X
Publication state
Published
Issued date
01/2025
Peer-reviewed
Oui
Volume
134
Number
1
Pages
10-20
Language
english
Notes
Publication types: Journal Article
Publication Status: ppublish
Abstract
The Jacquard genetic identity coefficients are of fundamental importance in relatedness research. We address the estimation of these coefficients as well as other relationship parameters that derive from them such as kinship and inbreeding coefficients using a concise matrix framework. Estimation of the Jacquard coefficients via likelihood methods and the expectation-maximization algorithm is computationally very demanding for large numbers of polymorphisms. We propose a constrained least squares approach to estimate the Jacquard coefficients. A simulation study shows constrained least squares achieves root-mean-squared errors that are comparable with those of the maximum likelihood approach, in particular when founder allele frequencies are unknown, while obtaining enormous computational savings.
Keywords
Least-Squares Analysis, Alleles, Models, Genetic, Algorithms, Gene Frequency, Computer Simulation, Inbreeding, Likelihood Functions
Pubmed
Web of science
Open Access
Yes
Funding(s)
Swiss National Science Foundation / 31003A_179358
Swiss National Science Foundation / 310030_215709
Create date
07/11/2024 17:35
Last modification date
18/01/2025 7:07
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