ArticleBMC genomics2012
Epigenetic features are significantly associated with alternative splicing.
Article in BMC genomics, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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Who cites it
41 citing papers in PubMed, 65 citations in OpenAlex.
- A dynamic histone-based chromatin regulatory toolkit underpins genome and developmental evolution in an invertebrate clade.Genome biology · 2025Article
- Differential exon usage of developmental genes is associated with deregulated epigenetic marks.Scientific reports · 2023Article
- The TUDOR domain of SMN is an H3K79Life science alliance · 2023Article
- Dominant-Negative Form of SIGIRR: SIGIRRJournal of interferon & cytokine research : the official journal of the International Society for Interferon and Cytokine Research · 2022Article
- Alternative RNA splicing in stem cells and cancer stem cells: Importance of transcript-based expression analysis.World journal of stem cells · 2021Review
- Article
- Splicing-associated chromatin signatures: a combinatorial and position-dependent role for histone marks in splicing definition.Nature communications · 2021Article
- Widespread Aberrant Alternative Splicing despite Molecular Remission in Chronic Myeloid Leukaemia Patients.Cancers · 2020Article
- Specific histone modifications associate with alternative exon selection during mammalian development.Nucleic acids research · 2020Article
- Exploring the relationship between intron retention and chromatin accessibility in plants.BMC genomics · 2018Article
- H3K4 demethylase KDM5B regulates global dynamics of transcription elongation and alternative splicing in embryonic stem cells.Nucleic acids research · 2017Article
- Histone posttranslational modifications predict specific alternative exon subtypes in mammalian brain.PLoS computational biology · 2017Article
- Genome-Wide Identification of Regulatory Sequences Undergoing Accelerated Evolution in the Human Genome.Molecular biology and evolution · 2016Article
- Connecting the dots: chromatin and alternative splicing in EMT.Biochemistry and cell biology = Biochimie et biologie cellulaire · 2016Review
- A computational method for studying the relation between alternative splicing and DNA methylation.Nucleic acids research · 2016Article
- From Linkage Studies to Epigenetics: What We Know and What We Need to Know in the Neurobiology of Schizophrenia.Frontiers in neuroscience · 2016Review
- Long Noncoding RNA-Directed Epigenetic Regulation of Gene Expression Is Associated With Anxiety-like Behavior in Mice.Biological psychiatry · 2015Article
- Transcriptome sequencing and analysis of major genes involved in calcium signaling pathways in pear plants (Pyrus calleryana Decne.).BMC genomics · 2015Article
- cAMP induces hypertrophy and alters DNA methylation in HL-1 cardiomyocytes.American journal of physiology. Cell physiology · 2015Article
- Chromatin and Genomic determinants of alternative splicing.ACM-BCB ... ... : the ... ACM Conference on Bioinformatics, Computational Biology and Biomedicine. ACM Conference on Bioinformatics, Computational Biology and Biomedicine · 2015Article
Corrections and comments
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Authors and funding
3 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundWhile alternative splicing (AS) contributes greatly to protein diversities, the relationship between various types of AS and epigenetic factors remains largely unknown.
resultsIn this study, we discover that a number of epigenetic features, including DNA methylation, nucleosome occupancy, specific histone modifications and protein features, are strongly associated with AS. To further enhance our understanding of the association between these features and AS, we cluster our investigated features based on their association patterns with each AS type into four groups, with H3K36me3, EGR1, GABP, SRF, SIN3A and RNA Pol II grouped together and showing strongest association with AS. In addition, we find that the AS types can be classified into two general classes, namely the exon skipping related process (ESRP), and the alternative splice site selection process (ASSP), based on their association levels with the epigenetic features.
conclusionOur analysis thus suggests that epigenetic features are likely to play important roles in regulating AS.
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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.