Imputation to whole-genome sequence using multiple pig populations and its use in genome-wide association studies
S van den Berg, J Vandenplas, FA van Eeuwijk… - Genetics Selection …, 2019 - Springer
Background Use of whole-genome sequence data (WGS) is expected to improve
identification of quantitative trait loci (QTL). However, this requires imputation to WGS, often …
identification of quantitative trait loci (QTL). However, this requires imputation to WGS, often …
A high-throughput SNP discovery strategy for RNA-seq data
Y Zhao, K Wang, W Wang, T Yin, W Dong, C Xu - BMC genomics, 2019 - Springer
Background Single nucleotide polymorphisms (SNP) have been applied as important
molecular markers in genetics and breeding studies. The rapid advance of next generation …
molecular markers in genetics and breeding studies. The rapid advance of next generation …
Comparison of seven SNP calling pipelines for the next-generation sequencing data of chickens
J Liu, Q Shen, H Bao - PLoS One, 2022 - journals.plos.org
Single nucleotide polymorphisms (SNPs) are widely used in genome-wide association
studies and population genetics analyses. Next-generation sequencing (NGS) has become …
studies and population genetics analyses. Next-generation sequencing (NGS) has become …
Whole-genome sequence-based genomic prediction in laying chickens with different genomic relationship matrices to account for genetic architecture
G Ni, D Cavero, A Fangmann, M Erbe… - Genetics Selection …, 2017 - Springer
Background With the availability of next-generation sequencing technologies, genomic
prediction based on whole-genome sequencing (WGS) data is now feasible in animal …
prediction based on whole-genome sequencing (WGS) data is now feasible in animal …
Imputation from SNP chip to sequence: a case study in a Chinese indigenous chicken population
S Ye, X Yuan, X Lin, N Gao, Y Luo, Z Chen, J Li… - Journal of animal …, 2018 - Springer
Background Genome-wide association studies and genomic predictions are thought to be
optimized by using whole-genome sequence (WGS) data. However, sequencing thousands …
optimized by using whole-genome sequence (WGS) data. However, sequencing thousands …
GWAS on imputed whole-genome resequencing from genotyping-by-sequencing data for farrowing interval of different parities in pigs
P Wu, K Wang, J Zhou, D Chen, Q Yang, X Yang… - Frontiers in …, 2019 - frontiersin.org
The whole-genome sequencing (WGS) data can potentially discover all genetic variants.
Studies have shown the power of WGS for genome-wide association study (GWAS) lies in …
Studies have shown the power of WGS for genome-wide association study (GWAS) lies in …
Meta-analyses of genome wide association studies in lines of laying hens divergently selected for feather pecking using imputed sequence level genotypes
C Falker-Gieske, H Iffland, S Preuß, W Bessei… - BMC genetics, 2020 - Springer
Background Feather pecking (FP) is damaging behavior in laying hens leading to global
economic losses in the layer industry and massive impairments of animal welfare. The …
economic losses in the layer industry and massive impairments of animal welfare. The …
Non-random mating within an Island rookery of Hawaiian hawksbill turtles: demographic discontinuity at a small coastline scale
Hawksbill sea turtles (Eretmochelys imbricata) from the Hawaiian archipelago form a small
and genetically isolated population, consisting of only a few tens of individuals breeding …
and genetically isolated population, consisting of only a few tens of individuals breeding …
Identification of age-specific and common key regulatory mechanisms governing eggshell strength in chicken using random forests
In today's chicken egg industry, maintaining the strength of eggshells in longer laying cycles
is pivotal for improving the persistency of egg laying. Eggshell development and …
is pivotal for improving the persistency of egg laying. Eggshell development and …
[HTML][HTML] Determination of quantitative trait nucleotides by concordance analysis between quantitative trait loci and marker genotypes of US Holsteins
Experimental designs that exploit family information can provide substantial predictive
power in quantitative trait nucleotide discovery projects. Concordance between quantitative …
power in quantitative trait nucleotide discovery projects. Concordance between quantitative …