ArticleBMC bioinformatics2011
Qxpak.5: old mixed model solutions for new genomics problems.
Article in BMC bioinformatics, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed.
- Better Multi-Breed Genomic Predictions for Tropical Bull Fertility Using a Breed-Adjusted Genomic Relationship Matrix.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2026Article
- Genome-wide association and fine-mapping analyses identify novel candidate genes affecting serum cortisol levels using imputed whole-genome sequencing data in pigs.Journal of animal science and technology · 2025Article
- Combining genomics and semen microbiome increases the accuracy of predicting bull prolificacy.Journal of animal breeding and genetics = Zeitschrift fur Tierzuchtung und Zuchtungsbiologie · 2025Article
- Design of a low-density SNP panel for intramuscular fat content and fatty acid composition of backfat in free-range Iberian pigs.Journal of animal science · 2023Article
- Multi-breed genomic predictions and functional variants for fertility of tropical bulls.PloS one · 2023Article
- Mutations on a conserved distal enhancer in the porcine C-reactive protein gene impair its expression in liver.Frontiers in immunology · 2023Article
- Article
- Exploring the genetic architecture of feed efficiency traits in chickens.Scientific reports · 2021Article
- Genome-wide association study for feed efficiency in collective cage-raised rabbits under full and restricted feeding.Animal genetics · 2020Article
- QTL for Stress and Disease Resistance in European Sea Bass,Animals : an open access journal from MDPI · 2020Article
- X chromosome variants are associated with male fertility traits in two bovine populations.Genetics, selection, evolution : GSE · 2020Article
- In silico validation of pooled genotyping strategies for genomic evaluation in Angus cattle.Journal of animal science · 2020Article
- Pooled genotyping strategies for the rapid construction of genomic reference populations1.Journal of animal science · 2019Article
- A functional regulatory variant of MYH3 influences muscle fiber-type composition and intramuscular fat content in pigs.PLoS genetics · 2019Article
- Semi-parametric estimates of population accuracy and bias of predictions of breeding values and future phenotypes using the LR method.Genetics, selection, evolution : GSE · 2018Article
- An intersection network based on combining SNP coassociation and RNA coexpression networks for feed utilization traits in Japanese Black cattle.Journal of animal science · 2018Article
- Genetics and Genomics of Social Behavior in a Chicken Model.Genetics · 2018Article
- Expression analysis of candidate genes for fatty acid composition in adipose tissue and identification of regulatory regions.Scientific reports · 2018Article
- Using genome wide association studies to identify common QTL regions in three different genetic backgrounds based on Iberian pig breed.PloS one · 2018Article
- Integration of liver gene co-expression networks and eGWAs analyses highlighted candidate regulators implicated in lipid metabolism in pigs.Scientific reports · 2017Article
Corrections and comments
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Authors and funding
2 authors.
Funding
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Abstract
backgroundMixed models have a long and fruitful history in statistics. They are pertinent to genomics problems because they are highly versatile, accommodating a wide variety of situations within the same theoretical and algorithmic framework.
resultsQxpak is a package for versatile statistical genomics, specifically designed for sophisticated quantitative trait loci and association analyses. Multiple loci, multiple trait, infinitesimal genetic effects, imprinting, epistasis or sex linked loci can be fitted. The new version (v. 5) allows us, among other new features, to include either relationship matrices obtained with molecular information or user defined matrices that can be read from an input file. This feature can be used for genome selection or - more importantly - to correct for population structure in association studies. In crosses, two parental lines, not necessarily inbred, can be accommodated.
conclusionsThis software aims at simplifying statistical genetic analyses implementing a coherent and unified approach by mixed models. It provides a tool that can be used in a wide variety of situations with ample genetic and statistical modeling flexibility. The software, a complete manual and examples are available at http://www.icrea.cat/Web/OtherSectionViewer.aspx?key=485&titol=Software:Qxpak.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.