Efficient algorithms for calculating epistatic genomic relationship matrices

Y Jiang, JC Reif - Genetics, 2020 - academic.oup.com
The genomic relationship matrix plays a key role in the analysis of genetic diversity, genomic
prediction, and genome-wide association studies. The epistatic genomic relationship matrix …

[HTML][HTML] On the approximation of interaction effect models by Hadamard powers of the additive genomic relationship

JWR Martini, FH Toledo, J Crossa - Theoretical population biology, 2020 - Elsevier
Whole genome epistasis models with interactions between different loci can be
approximated by genomic relationship models based on Hadamard powers of the additive …

Epistasis and covariance: how gene interaction translates into genomic relationship

JWR Martini, V Wimmer, M Erbe, H Simianer - Theoretical and Applied …, 2016 - Springer
Key message Models based on additive marker effects and on epistatic interactions can be
translated into genomic relationship models. This equivalence allows to perform predictions …

Efficient calculation of the genomic relationship matrix

M Schlather - BioRxiv, 2020 - biorxiv.org
Efficient Calculation of the Genomic Relationship Matrix | bioRxiv Skip to main content
bioRxiv Home About Submit ALERTS / RSS Search for this keyword Advanced Search New …

A genealogical estimate of genetic relationships

C Fan, N Mancuso, CWK Chiang - The American Journal of Human …, 2022 - cell.com
The application of genetic relationships among individuals, characterized by a genetic
relationship matrix (GRM), has far-reaching effects in human genetics. However, the current …

Inversion of a part of the numerator relationship matrix using pedigree information

P Faux, N Gengler - Genetics Selection Evolution, 2013 - Springer
Background In recent theoretical developments, the information available (eg genotypes)
divides the original population into two groups: animals with this information (selected …

AGHmatrix: genetic relationship matrices in R

RR Amadeu, AAF Garcia, PR Munoz… - Bioinformatics, 2023 - academic.oup.com
Motivation The resemble between relatives computed from pedigree and genomic data is an
important resource for geneticists and ecologists, who are interested in understanding how …

Generalized genomic distance–based regression methodology for multilocus association analysis

J Wessel, NJ Schork - The American Journal of Human Genetics, 2006 - cell.com
Large-scale, multilocus genetic association studies require powerful and appropriate
statistical-analysis tools that are designed to relate genotype and haplotype information to …

EpiSIM: simulation of multiple epistasis, linkage disequilibrium patterns and haplotype blocks for genome-wide interaction analysis

J Shang, J Zhang, X Lei, W Zhao, Y Dong - Genes & Genomics, 2013 - Springer
Epistasis is a ubiquitous phenomenon in genetics, and is considered to be one of the main
factors in current efforts to detect missing heritability for complex diseases. Simulation is a …

GVCHAP: a computing pipeline for genomic prediction and variance component estimation using haplotypes and SNP markers

D Prakapenka, C Wang, Z Liang, C Bian, C Tan… - Frontiers in …, 2020 - frontiersin.org
Haplotype prediction models open many possibilities to improve the accuracy of genomic
selection but require more data processing and computing time than single-SNP prediction …