ArticleEpigenetics & chromatin2011
The relationship between transcription initiation RNAs and CCCTC-binding factor (CTCF) localization.
Article in Epigenetics & chromatin, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 44 citations in OpenAlex.
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- The roles and regulation of Polycomb complexes in neural development.Cell and tissue research · 2015Review
- A Fleeting Glimpse Inside microRNA, Epigenetics, and Micropeptidomics.Advances in experimental medicine and biology · 2015Article
- microRNA expression signatures of gastrointestinal stromal tumours: associations with imatinib resistance and patient outcome.British journal of cancer · 2014Article
- The rise of regulatory RNA.Nature reviews. Genetics · 2014Review
- Human colorectal cancer-specific CCAT1-L lncRNA regulates long-range chromatin interactions at the MYC locus.Cell research · 2014Article
- MicroRNA expression patterns related to merkel cell polyomavirus infection in human merkel cell carcinoma.The Journal of investigative dermatology · 2014Article
- Transcription start site associated RNAs (TSSaRNAs) are ubiquitous in all domains of life.PloS one · 2014Article
- An Algorithm for Generating Small RNAs Capable of Epigenetically Modulating Transcriptional Gene Silencing and Activation in Human Cells.Molecular therapy. Nucleic acids · 2013Article
- Role of CTCF protein in regulating FMR1 locus transcription.PLoS genetics · 2013Article
- Promoter-associated RNAs and promoter-targeted RNAs.Cellular and molecular life sciences : CMLS · 2012Review
- Emerging roles of non-coding RNAs in brain evolution, development, plasticity and disease.Nature reviews. Neuroscience · 2012Review
Corrections and comments
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Authors and funding
4 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundTranscription initiation RNAs (tiRNAs) are nuclear localized 18 nucleotide RNAs derived from sequences immediately downstream of RNA polymerase II (RNAPII) transcription start sites. Previous reports have shown that tiRNAs are intimately correlated with gene expression, RNA polymerase II binding and behaviors, and epigenetic marks associated with transcription initiation, but not elongation.
resultsIn the present work, we show that tiRNAs are commonly found at genomic CCCTC-binding factor (CTCF) binding sites in human and mouse, and that CTCF sites that colocalize with RNAPII are highly enriched for tiRNAs. To directly investigate the relationship between tiRNAs and CTCF we examined tiRNAs originating near the intronic CTCF binding site in the human tumor suppressor gene, p21 (cyclin-dependent kinase inhibitor 1A gene, also known as CDKN1A). Inhibition of CTCF-proximal tiRNAs resulted in increased CTCF localization and increased p21 expression, while overexpression of CTCF-proximal tiRNA mimics decreased CTCF localization and p21 expression. We also found that tiRNA-regulated CTCF binding influences the levels of trimethylated H3K27 at the alternate upstream p21 promoter, and affects the levels of alternate p21 (p21alt) transcripts. Extending these studies to another randomly selected locus with conserved CTCF binding we found that depletion of tiRNA alters nucleosome density proximal to sites of tiRNA biogenesis.
conclusionsTaken together, these data suggest that tiRNAs modulate local epigenetic structure, which in turn regulates CTCF localization.
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