ArticleGenome research2009
Chromatin poises miRNA- and protein-coding genes for expression.
Article in Genome research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. An erratum has been issued. Cited by 96 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.
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Who cites it
96 citing papers in PubMed, 145 citations in OpenAlex.
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- MicroRNA-138: an emerging regulator of skeletal development, homeostasis, and disease.American journal of physiology. Cell physiology · 2023Review
- The link between gestational diabetes and cardiovascular diseases: potential role of extracellular vesicles.Cardiovascular diabetology · 2022Review
- Analysis of cell-type-specific chromatin modifications and gene expression in Drosophila neurons that direct reproductive behavior.PLoS genetics · 2021Article
- Computational annotation of miRNA transcription start sites.Briefings in bioinformatics · 2021Review
- Targeting Epigenetics to Cure HIV-1: Lessons From (and for) Cancer Treatment.Frontiers in cellular and infection microbiology · 2021Review
- The Histone Marks Signature in Exonic and Intronic Regions Is Relevant in Early Response of Tomato Genes toPlants (Basel, Switzerland) · 2020Article
- AP-1 activity induced by co-stimulation is required for chromatin opening during T cell activation.The Journal of experimental medicine · 2020Article
- Bayesian mixture regression analysis for regulation of Pluripotency in ES cells.BMC bioinformatics · 2020Article
- Hippocampal stimulation promotes intracellular Tip60 dynamics with concomitant genome reorganization and synaptic gene activation.Molecular and cellular neurosciences · 2019Article
- Epidemiology of Moderate Alcohol Consumption and Breast Cancer: Association or Causation?Cancers · 2018Review
- H3K27 Methylation Dynamics during CD4 T Cell Activation: Regulation of JAK/STAT and IL12RB2 Expression by JMJD3.Journal of immunology (Baltimore, Md. : 1950) · 2017Article
- Identification of active miRNA promoters from nuclear run-on RNA sequencing.Nucleic acids research · 2017Article
- A Distinct Inhibitory Function for miR-18a in Th17 Cell Differentiation.Journal of immunology (Baltimore, Md. : 1950) · 2017Article
- In the loop: how chromatin topology links genome structure to function in mechanisms underlying learning and memory.Current opinion in neurobiology · 2017Review
- Rapid Recall Ability of Memory T cells is Encoded in their Epigenome.Scientific reports · 2017Article
- Global intron retention mediated gene regulation during CD4+ T cell activation.Nucleic acids research · 2016Article
- Promoter H3K4 methylation dynamically reinforces activation-induced pathways in human CD4 T cells.Genes and immunity · 2016Article
- BET inhibition represses miR17-92 to drive BIM-initiated apoptosis of normal and transformed hematopoietic cells.Leukemia · 2016Article
36 more citing papers are in PubMed but not listed here.
Corrections and comments
- Erratum issued
Authors and funding
7 authors at 1 institution in 1 country.
Funding
Abstract
Chromatin modifications have been implicated in the regulation of gene expression. While association of certain modifications with expressed or silent genes has been established, it remains unclear how changes in chromatin environment relate to changes in gene expression. In this article, we used ChIP-seq (chromatin immunoprecipitation with massively parallel sequencing) to analyze the genome-wide changes in chromatin modifications during activation of total human CD4(+) T cells by T-cell receptor (TCR) signaling. Surprisingly, we found that the chromatin modification patterns at many induced and silenced genes are relatively stable during the short-term activation of resting T cells. Active chromatin modifications were already in place for a majority of inducible protein-coding genes, even while the genes were silent in resting cells. Similarly, genes that were silenced upon T-cell activation retained positive chromatin modifications even after being silenced. To investigate if these observations are also valid for miRNA-coding genes, we systematically identified promoters for known miRNA genes using epigenetic marks and profiled their expression patterns using deep sequencing. We found that chromatin modifications can poise miRNA-coding genes as well. Our data suggest that miRNA- and protein-coding genes share similar mechanisms of regulation by chromatin modifications, which poise inducible genes for activation in response to environmental stimuli.
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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.