Patterns of genome-wide allele-specific expression in hybrid rice and the implications on the genetic basis of heterosis

L Shao, F Xing, C Xu, Q Zhang, J Che… - Proceedings of the …, 2019 - National Acad Sciences
… To gain insight into the possible impacts caused by the variations of the ASEGs, we compared
coding sequences between the two parental alleles of these 261 genes that showed ASE …

Perspectives on allele-specific expression

S Cleary, C Seoighe - Annual Review of Biomedical Data …, 2021 - annualreviews.org
… unexpected variation in the amino acid sequence. A genome-wide search for allele-specific
46) has provided a real opportunity to gain insights into the prevalence and patterns of ASE. …

[HTML][HTML] Genome-wide allele-specific methylation is enriched at gene regulatory regions in a multi-generation pedigree from the Norfolk Island isolate

MC Benton, RA Lea, D Macartney-Coxson… - Epigenetics & …, 2019 - Springer
… With these data, they were able to provide new insights into … In summary, this study has
used genome-wide bisulphite sequencing to map ASM in a multi-generational pedigree from the …

[HTML][HTML] Genome-wide analysis of allele-specific expression of genes in the model diatom Phaeodactylum tricornutum

A Hoguin, A Rastogi, C Bowler, L Tirichine - Scientific Reports, 2021 - nature.com
… For functional analysis of genome wide bias of allele-specific expression, we thus excluded
genes with AFB > 20%. We also only considered genes for which multiple SNVs, when …

[HTML][HTML] Genome-wide analysis of expression QTL (eQTL) and allele-specific expression (ASE) in pig muscle identifies candidate genes for meat quality traits

Y Liu, X Liu, Z Zheng, T Ma, Y Liu, H Long… - Genetics Selection …, 2020 - Springer
… skeletal muscle by combining genome-wide eQTL and ASE analyses based on RNAseq
data from 189 animals, in order to better understand the genetic regulation of gene expression …

Allele-specific regulatory effects on the pig transcriptome

Y Lin, J Li, L Chen, J Bai, J Zhang, Y Wang, P Liu… - …, 2023 - academic.oup.com
… then utilized for subsequent analysis of allele-specific expression, reducing the … allele-specific
RNA-seq reads using the phased heterozygous SNVs. The read counts of allele-specific

[HTML][HTML] Crosstalk of genetic variants, allele-specific DNA methylation, and environmental factors for complex disease risk

H Wang, D Lou, Z Wang - Frontiers in genetics, 2019 - frontiersin.org
… epigenetic enzymes (including DNMTs and histone modifying enzymes) may potentially
alter their functions, thereby subsequently changing epigenetic patterns in a genome-wide

[HTML][HTML] Landscape of allele-specific transcription factor binding in the human genome

S Abramov, A Boytsov, D Bykova, DD Penzar… - Nature …, 2021 - nature.com
… In this study, we present a novel method for reconstructing a genome-wide BAD map of a
given cell type. The idea is to find genomic regions with approximately stable BAD using the …

Long-range phasing of dynamic, tissue-specific and allele-specific regulatory elements

S Battaglia, K Dong, J Wu, Z Chen, FJ Najm, Y Zhang… - Nature …, 2022 - nature.com
… data provide new insights into the progressive changes in regulatory element and chromatin
… Our analyses provide insights into coordinate enhancer regulation during T cell activation …

[HTML][HTML] Allele-specific analysis reveals exon-and cell-type-specific regulatory effects of Alzheimer's disease-associated genetic variants

L He, Y Loika, AM Kulminski - Translational Psychiatry, 2022 - nature.com
regulatory role of AD-associated variants in the immune response. These findings provide
further insights into … sequencing, large-scale genome-wide association studies (GWAS) over …