ArticleGenetics2015
Allelic Imbalance Is a Prevalent and Tissue-Specific Feature of the Mouse Transcriptome.
Article in Genetics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers.
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Who cites it
31 citing papers in PubMed.
- Mapping the landscape of allele-specific expression in porcine genomes.Genome biology · 2026Article
- Opposing behavioral roles for a single gene in a species with a supergene polymorphism.bioRxiv : the preprint server for biology · 2026Article
- A comprehensive genome-wide scan for parent-of-origin expressed genes in the pig clarifies the conservation landscape of genomic imprinting.Genetics, selection, evolution : GSE · 2026Article
- Large variations in total and allele-specific transcript expression in a disease mutation-independent manner.Scientific reports · 2026Article
- Cis-regulatory Variation in Relation to Sex and Sexual Dimorphism in Drosophila melanogaster.Genome biology and evolution · 2024Article
- Temporospatial hierarchy and allele-specific expression of zygotic genome activation revealed by distant interspecific urochordate hybrids.Nature communications · 2024Article
- Functional genomics in inborn errors of immunity.Immunological reviews · 2024Review
- Allele specific binding of histone modifications and a transcription factor does not predict allele specific expression in correlated ChIP-seq peak-exon pairs.Scientific reports · 2023Article
- Expression inheritance and constraints on cis- and trans-regulatory mutations underlying lotus color variation.Plant physiology · 2023Article
- Sex- and age-dependent genetics of longevity in a heterogeneous mouse population.Science (New York, N.Y.) · 2022Article
- Incomplete Penetrance and Variable Expressivity: From Clinical Studies to Population Cohorts.Frontiers in genetics · 2022Review
- Article
- Testcrosses are an efficient strategy for identifying cis-regulatory variation: Bayesian analysis of allele-specific expression (BayesASE).G3 (Bethesda, Md.) · 2021Article
- Investigation of allele specific expression in various tissues of broiler chickens using the detection tool VADT.Scientific reports · 2021Article
- X-Chromosome Inactivation and Autosomal Random Monoallelic Expression as "Faux Amis".Frontiers in cell and developmental biology · 2021Review
- Trappc9 deficiency causes parent-of-origin dependent microcephaly and obesity.PLoS genetics · 2020Article
- Xist Repeats A and B Account for Two Distinct Phases of X Inactivation Establishment.Developmental cell · 2020Article
- cis-regulatory variation modulates susceptibility to enteric infection in the Drosophila genetic reference panel.Genome biology · 2020Article
- Analysis of allele-specific expression using RNA-seq of the Korean native pig and Landrace reciprocal cross.Asian-Australasian journal of animal sciences · 2019Article
- Allele-specific expression and alternative splicing in horse×donkey and cattle×yak hybrids.Zoological research · 2019Article
Corrections and comments
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Authors and funding
8 authors.
Funding
Abstract
In mammals, several classes of monoallelic genes have been identified, including those subject to X-chromosome inactivation (XCI), genomic imprinting, and random monoallelic expression (RMAE). However, the extent to which these epigenetic phenomena are influenced by underlying genetic variation is unknown. Here we perform a systematic classification of allelic imbalance in mouse hybrids derived from reciprocal crosses of divergent strains. We observe that deviation from balanced biallelic expression is common, occurring in ∼20% of the mouse transcriptome in a given tissue. Allelic imbalance attributed to genotypic variation is by far the most prevalent class and typically is tissue-specific. However, some genotype-based imbalance is maintained across tissues and is associated with greater genetic variation, especially in 5' and 3' termini of transcripts. We further identify novel random monoallelic and imprinted genes and find that genotype can modify penetrance of parental origin even in the setting of large imprinted regions. Examination of nascent transcripts in single cells from inbred parental strains reveals that genes showing genotype-based imbalance in hybrids can also exhibit monoallelic expression in isogenic backgrounds. This surprising observation may suggest a competition between alleles and/or reflect the combined impact of cis- and trans-acting variation on expression of a given gene. Our findings provide novel insights into gene regulation and may be relevant to human genetic variation and disease.
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