ArticleBioinformatics (Oxford, England)2013
Promoter-proximal CCCTC-factor binding is associated with an increase in the transcriptional pausing index.
Article in Bioinformatics (Oxford, England), 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
22 citing papers in PubMed.
- Single-molecule imaging reveals a direct role of CTCF's zinc fingers in SA interaction and cluster-dependent RNA recruitment.Nucleic acids research · 2024Article
- Comparative chromatin accessibility upon BDNF stimulation delineates neuronal regulatory elements.Molecular systems biology · 2022Article
- Enhancer-gene specificity in development and disease.Development (Cambridge, England) · 2022Review
- CTCF as a regulator of alternative splicing: new tricks for an old player.Nucleic acids research · 2021Review
- Distinct properties and functions of CTCF revealed by a rapidly inducible degron system.Cell reports · 2021Article
- Dynamic regulation of CTCF stability and sub-nuclear localization in response to stress.PLoS genetics · 2021Article
- Regulation of RNA Polymerase II Transcription Initiation and Elongation by Transcription Factor TFII-I.Frontiers in molecular biosciences · 2021Review
- TET-Catalyzed 5-Carboxylcytosine Promotes CTCF Binding to Suboptimal Sequences Genome-wide.iScience · 2019Article
- KDM5B is a master regulator of the H3K4-methylome in stem cells, development and cancer.Seminars in cancer biology · 2019Review
- CTCF and cellular heterogeneity.Cell & bioscience · 2019Review
- Functions of DEAD box RNA helicases DDX5 and DDX17 in chromatin organization and transcriptional regulation.BMB reports · 2018Review
- RNA Pol II transcription model and interpretation of GRO-seq data.Journal of mathematical biology · 2017Article
- Human telomerase reverse transcriptase regulation by DNA methylation, transcription factor binding and alternative splicing (Review).International journal of oncology · 2016Review
- Maps of context-dependent putative regulatory regions and genomic signal interactions.Nucleic acids research · 2016Article
- CTCF: making the right connections.Genes & development · 2016Review
- Cytokine-induced megakaryocytic differentiation is regulated by genome-wide loss of a uSTAT transcriptional program.The EMBO journal · 2016Article
- CTCF regulates NELF, DSIF and P-TEFb recruitment during transcription.Transcription · 2015Article
- Review
- JARID1B is a luminal lineage-driving oncogene in breast cancer.Cancer cell · 2014Article
- CTCF: an architectural protein bridging genome topology and function.Nature reviews. Genetics · 2014Review
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
3 authors.
Funding
Abstract
motivationIt has been known for more than 2 decades that after RNA polymerase II (RNAPII) initiates transcription, it can enter into a paused or stalled state immediately downstream of the transcription start site before productive elongation. Recent advances in high-throughput genomic technologies facilitated the discovery that RNAPII pausing at promoters is a widespread physiologically regulated phenomenon. The molecular underpinnings of pausing are incompletely understood. The CCCTC-factor (CTCF) is a ubiquitous nuclear factor that has diverse regulatory functions, including a recently discovered role in promoting RNAPII pausing at splice sites.
resultsIn this study, we analyzed CTCF binding sites and nascent transcriptomic data from three different cell types, and found that promoter-proximal CTCF binding is significantly associated with RNAPII pausing.
Indexed as
Identifiers
What OpenQuestion holds
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.