ArticlePLoS computational biology2017
Histone posttranslational modifications predict specific alternative exon subtypes in mammalian brain.
Article in PLoS computational biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 21 papers, 1 of them a synthesis that pooled it.
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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
21 citing papers in PubMed, 1 synthesis or guideline pooled it, 33 citations in OpenAlex.
- Meta-analysis of activated neurons reveals dynamic regulation of diverse classes of alternative splicing.Genome research · 2025Pooled it
- Epigenetic and Transcriptomic Impacts of Ethanol Vary by Brain Region and Extent of Exposure.eNeuro · 2026Article
- HDAC Inhibition Reshapes Splicing of Synaptic Plasticity-Related Genes and Neural Network Dynamics.Cellular and molecular neurobiology · 2026Article
- RNA-binding proteins connect Exon usage to the chromatin.NAR genomics and bioinformatics · 2025Article
- Chromatin modifiers in neurodevelopment.Frontiers in molecular neuroscience · 2025Review
- METTL14-mediated upregulation of lncRNA HOTAIR represses PP1α expression by promoting H3K4me1 demethylation in oxycodone-treated mice.CNS neuroscience & therapeutics · 2024Article
- It is not just about transcription: involvement of brain RNA splicing in substance use disorders.Journal of neural transmission (Vienna, Austria : 1996) · 2024Review
- Differential exon usage of developmental genes is associated with deregulated epigenetic marks.Scientific reports · 2023Article
- Cotranscriptional RNA processing and modification in plants.The Plant cell · 2023Review
- Exon definitive regions forMolecular therapy. Nucleic acids · 2023Article
- Downregulation of TGIF2 is possibly correlated with neuronal apoptosis and autism-like symptoms in mice.Brain and behavior · 2022Article
- Chromatin loop anchors predict transcript and exon usage.Briefings in bioinformatics · 2021Article
- Article
- Specific histone modifications associate with alternative exon selection during mammalian development.Nucleic acids research · 2020Article
- Recent advances in neuroepigenetic editing.Current opinion in neurobiology · 2019Review
- Mechanisms of Neuronal Alternative Splicing and Strategies for Therapeutic Interventions.The Journal of neuroscience : the official journal of the Society for Neuroscience · 2019Review
- Alternative splicing of neuronal genes: new mechanisms and new therapies.Current opinion in neurobiology · 2019Review
- Does co-transcriptional regulation of alternative splicing mediate plant stress responses?Nucleic acids research · 2019Review
- Article
- Single sample sequencing (S3EQ) of epigenome and transcriptome in nucleus accumbens.Journal of neuroscience methods · 2018Article
Corrections and comments
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Authors and funding
5 authors at 3 institutions in 1 country.
Funding
Abstract
A compelling body of literature, based on next generation chromatin immunoprecipitation and RNA sequencing of reward brain regions indicates that the regulation of the epigenetic landscape likely underlies chronic drug abuse and addiction. It is now critical to develop highly innovative computational strategies to reveal the relevant regulatory transcriptional mechanisms that may underlie neuropsychiatric disease. We have analyzed chromatin regulation of alternative splicing, which is implicated in cocaine exposure in mice. Recent literature has described chromatin-regulated alternative splicing, suggesting a novel function for drug-induced neuroepigenetic remodeling. However, the extent of the genome-wide association between particular histone modifications and alternative splicing remains unexplored. To address this, we have developed novel computational approaches to model the association between alternative splicing and histone posttranslational modifications in the nucleus accumbens (NAc), a brain reward region. Using classical statistical methods and machine learning to combine ChIP-Seq and RNA-Seq data, we found that specific histone modifications are strongly associated with various aspects of differential splicing. H3K36me3 and H3K4me1 have the strongest association with splicing indicating they play a significant role in alternative splicing in brain reward tissue.
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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.