ArticleEpigenetics2012
Retrotransposons as a major source of epigenetic variations in the mammalian genome.
Article in Epigenetics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
22 citing papers in PubMed, 30 citations in OpenAlex.
- Epigenetic characterization of pseudogenes across human tissues.Genome research · 2026Article
- Tissue-specific usage of transposable element-derived promoters in mouse development.Genome biology · 2020Article
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- Atypical Genotypes for CanineGenes · 2020Article
- The role of environmental exposures and the epigenome in health and disease.Environmental and molecular mutagenesis · 2020Review
- Article
- Dietary Modulation of the Epigenome.Physiological reviews · 2018Review
- Functional cis-regulatory modules encoded by mouse-specific endogenous retrovirus.Nature communications · 2017Article
- Dynamic silencing of somatic L1 retrotransposon insertions reflects the developmental and cellular contexts of their genomic integration.Mobile DNA · 2017Article
- Detection of differential DNA methylation in repetitive DNA of mice and humans perinatally exposed to bisphenol A.Epigenetics · 2016Article
- Elusive inheritance: Transgenerational effects and epigenetic inheritance in human environmental disease.Progress in biophysics and molecular biology · 2015Review
- Retroviral transcriptional regulation and embryonic stem cells: war and peace.Molecular and cellular biology · 2015Review
- Genetic and epigenetic variation among inbred mouse littermates: identification of inter-individual differentially methylated regions.Epigenetics & chromatin · 2015Article
- Retrotransposon-based profiling of mammalian epigenomes: DNA methylation of IAP LTRs in embryonic stem, somatic and cancer cells.Genomics · 2014Article
- Widespread contribution of transposable elements to the innovation of gene regulatory networks.Genome research · 2014Article
- Article
- A single whole-body low dose X-irradiation does not affect L1, B1 and IAP repeat element DNA methylation longitudinally.PloS one · 2014Article
- How do mammalian transposons induce genetic variation? A conceptual framework: the age, structure, allele frequency, and genome context of transposable elements may define their wide-ranging biological impacts.BioEssays : news and reviews in molecular, cellular and developmental biology · 2013Article
- Phylogenetic and DNA methylation analysis reveal novel regions of variable methylation in the mouse IAP class of transposons.BMC genomics · 2013Article
- The origin and evolution of genomic imprinting and viviparity in mammals.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2013Review
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 3 countries.
Funding
Abstract
Transcription of retrotransposons is usually repressed by DNA methylation, but a few elements, such as intracisternal A-particles (IAPs) associated with the Agouti and Axin-fused loci, partially escape this repression mechanism. The levels of this repression are also variable among individuals with an identical genome sequence, generating epigenetically different states of loci or 'epialleles.' In the current study, we tested the existence of additional retrotransposon-derived epialleles in the mouse genome. Using a series of bioinformatic approaches, 143 candidate epialleles were first identified from the mouse genome based on their promoter activity and association with active histone modification marks. Detailed analyses suggest that a subset of these elements showed variable levels of DNA methylation among the individual mice of an isogenic background, revealing their stochastic nature (metastability) of DNA methylation. The analyses also identified two opposite patterns of DNA methylation during development, progressive gaining vs. losing, confirming the dynamic nature of their DNA methylation patterns. qRT-PCR analyses demonstrated that the expression levels of these elements are indeed variable among the individual mice, suggesting functional consequences on their associated endogenous genes. Overall, these data confirm the presence of a number of new retrotransposon-derived epialleles with suggestions of the presence of more, and further identify retrotransposons as a major source of epigenetic variations in the mammalian genome.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.