ArticleNucleic acids research2015
Chromatin-dependent regulation of RNA polymerases II and III activity throughout the transcription cycle.
Article in Nucleic acids research, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 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
17 citing papers in PubMed, 39 citations in OpenAlex.
- Regulation of transcription elongation anticipates alternative gene expression strategies across the cell cycle.PloS one · 2025Article
- Article
- High-Resolution Deep Sequencing of Nascent Transcription in Yeast with BioGRO-seq.Methods in molecular biology (Clifton, N.J.) · 2022Article
- The chromatin remodeler Ino80 mediates RNAPII pausing site determination.Genome biology · 2021Article
- Xrn1 influence on gene transcription results from the combination of general effects on elongating RNA pol II and gene-specific chromatin configuration.RNA biology · 2021Article
- Prefoldin-like Bud27 influences the transcription of ribosomal components and ribosome biogenesis inRNA (New York, N.Y.) · 2020Article
- The yeast exoribonuclease Xrn1 and associated factors modulate RNA polymerase II processivity in 5' and 3' gene regions.The Journal of biological chemistry · 2020Article
- A code for transcription elongation speed.RNA biology · 2018Article
- Subtracting the sequence bias from partially digested MNase-seq data reveals a general contribution of TFIIS to nucleosome positioning.Epigenetics & chromatin · 2017Article
- Topological organization and dynamic regulation of human tRNA genes during macrophage differentiation.Genome biology · 2017Article
- TORC1-dependent sumoylation of Rpc82 promotes RNA polymerase III assembly and activity.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
- The importance of controlling mRNA turnover during cell proliferation.Current genetics · 2016Review
- Transcription by RNA polymerase III: insights into mechanism and regulation.Biochemical Society transactions · 2016Review
- Global analysis of transcriptionally engaged yeast RNA polymerase III reveals extended tRNA transcripts.Genome research · 2016Article
- S1-DRIP-seq identifies high expression and polyA tracts as major contributors to R-loop formation.Genes & development · 2016Article
- Divergence of a conserved elongation factor and transcription regulation in budding and fission yeast.Genome research · 2016Article
- Chromatin structure and pre-mRNA processing work together.Transcription · 2016Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
7 authors at 3 institutions in 3 countries.
Funding
Abstract
The particular behaviour of eukaryotic RNA polymerases along different gene regions and amongst distinct gene functional groups is not totally understood. To cast light onto the alternative active or backtracking states of RNA polymerase II, we have quantitatively mapped active RNA polymerases at a high resolution following a new biotin-based genomic run-on (BioGRO) technique. Compared with conventional profiling with chromatin immunoprecipitation, the analysis of the BioGRO profiles in Saccharomyces cerevisiae shows that RNA polymerase II has unique activity profiles at both gene ends, which are highly dependent on positioned nucleosomes. This is the first demonstration of the in vivo influence of positioned nucleosomes on transcription elongation. The particular features at the 5' end and around the polyadenylation site indicate that this polymerase undergoes extensive specific-activity regulation in the initial and final transcription elongation phases. The genes encoding for ribosomal proteins show distinctive features at both ends. BioGRO also provides the first nascentome analysis for RNA polymerase III, which indicates that transcription of tRNA genes is poorly regulated at the individual copy level. The present study provides a novel perspective of the transcription cycle that incorporates inactivation/reactivation as an important aspect of RNA polymerase dynamics.
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.