ArticleGenome biology2015
Promoter-like epigenetic signatures in exons displaying cell type-specific splicing.
Article in Genome biology, 2015. 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 16 papers.
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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
16 citing papers in PubMed, 36 citations in OpenAlex.
- Isoforms of the TAL1 transcription factor have different roles in hematopoiesis and cell growth.PLoS biology · 2023Article
- The SWI/SNF subunit BRG1 affects alternative splicing by changing RNA binding factor interactions with nascent RNA.Molecular genetics and genomics : MGG · 2022Article
- CTCF as a regulator of alternative splicing: new tricks for an old player.Nucleic acids research · 2021Review
- Splicing-associated chromatin signatures: a combinatorial and position-dependent role for histone marks in splicing definition.Nature communications · 2021Article
- Genome-wide analysis reveals the association between alternative splicing and DNA methylation across human solid tumors.BMC medical genomics · 2020Article
- Splicing of long non-coding RNAs primarily depends on polypyrimidine tract and 5' splice-site sequences due to weak interactions with SR proteins.Nucleic acids research · 2019Article
- Alternative splicing links histone modifications to stem cell fate decision.Genome biology · 2018Article
- Trans-Ethnic Mapping ofInternational journal of molecular sciences · 2018Article
- Microfluidic isoform sequencing shows widespread splicing coordination in the human transcriptome.Genome research · 2018Article
- BRIE: transcriptome-wide splicing quantification in single cells.Genome biology · 2017Article
- PHF13: A new player involved in RNA polymerase II transcriptional regulation and co-transcriptional splicing.Transcription · 2017Article
- Double-target Antisense U1snRNAs Correct Mis-splicing Due to c.639+861C>T and c.639+919G>A GLA Deep Intronic Mutations.Molecular therapy. Nucleic acids · 2016Article
- Sequence variation between 462 human individuals fine-tunes functional sites of RNA processing.Scientific reports · 2016Article
- Characterization of GPR101 transcript structure and expression patterns.Journal of molecular endocrinology · 2016Article
- Chromatin structure and pre-mRNA processing work together.Transcription · 2016Article
- Erratum to: Promoter-like epigenetic signatures in exons displaying cell type-specific splicing.Genome biology · 2016Article
Corrections and comments
- Erratum issued
Authors and funding
5 authors at 2 institutions in 4 countries.
Funding
Abstract
backgroundPre-mRNA splicing occurs mainly co-transcriptionally, and both nucleosome density and histone modifications have been proposed to play a role in splice site recognition and regulation. However, the extent and mechanisms behind this interplay remain poorly understood.
resultsWe use transcriptomic and epigenomic data generated by the ENCODE project to investigate the association between chromatin structure and alternative splicing. We find a strong and significant positive association between H3K9ac, H3K27ac, H3K4me3, epigenetic marks characteristic of active promoters, and exon inclusion in a small but well-defined class of exons, representing approximately 4 % of all regulated exons. These exons are systematically maintained at comparatively low levels of inclusion across cell types, but their inclusion is significantly enhanced in particular cell types when in physical proximity to active promoters.
conclusionHistone modifications and other chromatin features that activate transcription can be co-opted to participate in the regulation of the splicing of exons that are in physical proximity to promoter regions.
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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.