[HTML][HTML] Invited review: Good practices in genome-wide association studies to identify candidate sequence variants in dairy cattle

G Sahana, Z Cai, MP Sanchez, AC Bouwman… - Journal of dairy …, 2023 - Elsevier
Genotype data from dairy cattle selection programs have greatly facilitated GWAS to identify
variants related to economic traits. Results can enhance the accuracy of genomic prediction …

Map** Major DiseaseResistance Genes in Soybean by Genome-Wide Association Studies

EGC Ferreira, FC Marcelino-Guimarães - Genome-Wide Association …, 2022 - Springer
Soybean is one of the most valuable agricultural crops in the world. Besides, this legume is
constantly attacked by a wide range of pathogens (fungi, bacteria, viruses, and nematodes) …

Best practices for genotype imputation from low‐coverage sequencing data in natural populations

MM Watowich, KL Chiou, B Graves… - Molecular Ecology …, 2023 - Wiley Online Library
Monitoring genetic diversity in wild populations is a central goal of ecological and
evolutionary genetics and is critical for conservation biology. However, genetic studies of …

Comparison of genotype imputation for SNP array and low-coverage whole-genome sequencing data

T Deng, P Zhang, D Garrick, H Gao, L Wang… - Frontiers in …, 2022 - frontiersin.org
Genotype imputation is the term used to describe the process of inferring unobserved
genotypes in a sample of individuals. It is a key step prior to a genome-wide association …

Identify known and novel candidate genes associated with backfat thickness in Duroc pigs by large-scale genome-wide association analysis

R Ding, Z Zhuang, Y Qiu, D Ruan, J Wu… - Journal of Animal …, 2022 - academic.oup.com
Backfat thickness (BFT) is complex and economically important traits in the pig industry,
since it reflects fat deposition and can be used to measure the carcass lean meat …

Imputation of 3 million SNPs in the Arabidopsis regional map** population

B Arouisse, A Korte, F van Eeuwijk… - The Plant …, 2020 - Wiley Online Library
Natural variation has become a prime resource to identify genetic variants that contribute to
phenotypic variation. The regional map** (RegMap) population is one of the most …

[HTML][HTML] Genome-Wide Association Study and Identification of Candidate Genes for intramuscular fat fatty acid composition in Ningxiang Pigs

Q Zeng, H Gao, S Yin, Y Peng, F Yang, Y Fu, X Deng… - Animals, 2023 - mdpi.com
Simple Summary In this study, we conducted a comprehensive investigation of the fatty acid
composition in Ningxiang pigs using a genome-wide association study. Our findings …

Design and characterization of a high-resolution multiple-SNP capture array by target sequencing for sheep

Y Guo, F Bai, J Wang, S Fu, Y Zhang… - Journal of Animal …, 2023 - academic.oup.com
Lay Summary Large-scale genoty** platforms are valuable tools for animal selection and
breeding programs. The bead chip has been widely used in both research and commercial …

A maize practical haplotype graph leverages diverse NAM assemblies

JAV Franco, JL Gage, PJ Bradbury, LC Johnson… - bioRxiv, 2020 - biorxiv.org
As a result of millions of years of transposon activity, multiple rounds of ancient
polyploidization, and large populations that preserve diversity, maize has an extremely …

HaploBlocker: creation of subgroup-specific haplotype blocks and libraries

T Pook, M Schlather, G de Los Campos, M Mayer… - Genetics, 2019 - academic.oup.com
The concept of haplotype blocks has been shown to be useful in genetics. Fields of
application range from the detection of regions under positive selection to statistical methods …