Biologically meaningful genome interpretation models to address data underdetermination for the leaf and seed ionome prediction in Arabidopsis thaliana

D Raimondi, A Passemiers, N Verplaetse, M Corso… - Scientific Reports, 2024 - nature.com
Genome interpretation (GI) encompasses the computational attempts to model the
relationship between genotype and phenotype with the goal of understanding how the first …

Integrating genomics with crop modelling to predict maize yield and component traits: Towards the next generation of crop models

X Zhen, J Luo, Y Xiao, J Yan, BC Cordoba… - European Journal of …, 2025 - Elsevier
Conventional breeding of ideotypes for target environments is quite challenging because of
the genotype by environment interaction and the nature of the genetic complexity for …

[HTML][HTML] Improvement of the accuracy of breeding value prediction for egg production traits in Muscovy duck using low-coverage whole-genome sequence data

H Ye, C Ji, X Liu, SF Bello, L Guo, X Fang, D Lin, Y Mo… - Poultry Science, 2025 - Elsevier
Low-coverage whole genome sequencing (lcWGS) is an effective low-cost genotyping
technology when combined with genotype imputation approaches. It facilitates cost-effective …

Integrating multi-layered biological priors to improve genomic prediction accuracy in beef cattle

Z Zhao, Q Niu, J Wu, T Wu, X Xie, Z Wang, L Zhang… - Biology Direct, 2024 - Springer
Background Integrating multi-layered information can enhance the accuracy of genomic
prediction for complex traits. However, the improvement and application of effective …

[HTML][HTML] GWAS Enhances Genomic Prediction Accuracy of Caviar Yield, Caviar Color and Body Weight Traits in Sturgeons Using Whole-Genome Sequencing Data

H Song, T Dong, W Wang, X Yan, C Geng… - International Journal of …, 2024 - mdpi.com
Caviar yield, caviar color, and body weight are crucial economic traits in sturgeon breeding.
Understanding the molecular mechanisms behind these traits is essential for their genetic …

Improvement in genomic prediction of maize with prior gene ontology information depends on traits and environmental conditions

B Ali, T Mary‐Huard, A Charcosset, L Moreau… - The Plant …, 2025 - Wiley Online Library
Classical genomic prediction approaches rely on statistical associations between traits and
markers rather than their biological significance. Biologically informed selection of genomic …

Cost-effective genomic prediction of critical economic traits in sturgeons through low-coverage sequencing

H Song, T Dong, W Wang, B Jiang, X Yan, C Geng… - Genomics, 2024 - Elsevier
Low-coverage whole-genome sequencing (LCS) offers a cost-effective alternative for
sturgeon breeding, especially given the lack of SNP chips and the high costs associated …

[HTML][HTML] Genomic Selection and WssGWAS of Sheep Body Weight and Milk Yield: Imputing Low-Coverage Sequencing Data with Similar Genetic Background Panels

D Li, Y Xiao, X Chen, Z Chen, X Zhao, X Xu, R Li… - Journal of Dairy …, 2025 - Elsevier
Low-coverage whole-genome sequencing (LcWGS), a cost-effective genotyping method,
offers greater flexibility in variant detection than does single-nucleotide polymorphism (SNP) …

INTEGRATED GLOBAL CHICKEN REFERENCE PANEL FROM 13,187 CHICKEN GENOMES

D Zhu, Y Wang, H Qu, C Feng, H Zhang, Z Sheng… - bioRxiv, 2023 - biorxiv.org
Chickens are a crucial source of protein for humans and a popular model animal for bird
research. Despite the emergence of imputation as a reliable genotyping strategy for large …