ArticleCell2008
Nucleosome retention and the stochastic nature of promoter chromatin remodeling for transcription.
Article in Cell, 2008. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 92 papers.
What it found
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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.
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.
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Who cites it
92 citing papers in PubMed.
- Cooperativity enables widespread role of low-affinity motifs in chromatin accessibility and increases regulatory potential.Cell genomics · 2026Article
- What makes genes burst.Trends in cell biology · 2026Review
- Widespread low-affinity motifs enhance chromatin accessibility and regulatory potential in mESCs.bioRxiv : the preprint server for biology · 2025Article
- Genotype inference from aggregated chromatin accessibility data reveals genetic regulatory mechanisms.Genome biology · 2025Article
- Chromatin enables precise and scalable gene regulation with factors of limited specificity.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Review and Evaluate the Bioinformatics Analysis Strategies of ATAC-seq and CUT&Tag Data.Genomics, proteomics & bioinformatics · 2024Review
- Genotype inference from aggregated chromatin accessibility data reveals genetic regulatory mechanisms.bioRxiv : the preprint server for biology · 2024Article
- Genome-scale chromatin binding dynamics of RNA Polymerase II general transcription machinery components.The EMBO journal · 2024Article
- Energy-driven genome regulation by ATP-dependent chromatin remodellers.Nature reviews. Molecular cell biology · 2024Review
- Gene expression model inference from snapshot RNA data using Bayesian non-parametrics.Nature computational science · 2023Article
- Molecular perspectives in hypertrophic heart disease: An epigenetic approach from chromatin modification.Frontiers in cell and developmental biology · 2022Review
- Sophisticated Conversations between Chromatin and Chromatin Remodelers, and Dissonances in Cancer.International journal of molecular sciences · 2021Review
- Microbial metabolic noise.WIREs mechanisms of disease · 2021Review
- TATA and paused promoters active in differentiated tissues have distinct expression characteristics.Molecular systems biology · 2021Article
- Identifying chromatin features that regulate gene expression distribution.Scientific reports · 2020Article
- Nucleosomal proofreading of activator-promoter interactions.Proceedings of the National Academy of Sciences of the United States of America · 2020Article
- Stochastic transcription in the p53-mediated response to DNA damage is modulated by burst frequency.Molecular systems biology · 2019Article
- Fold-Change Detection of NF-κB at Target Genes with Different Transcript Outputs.Biophysical journal · 2019Article
- Fine-tuning of noise in gene expression with nucleosome remodeling.APL bioengineering · 2018Article
- Mechanisms of action and regulation of ATP-dependent chromatin-remodelling complexes.Nature reviews. Molecular cell biology · 2017Review
32 more citing papers are in PubMed but not listed here.
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
The rate-limiting step of transcriptional activation in eukaryotes, and thus the critical point for gene regulation, is unknown. Combining biochemical analyses of the chromatin transition at the transcriptionally induced PHO5 promoter in yeast with modeling based on a small number of simple assumptions, we demonstrate that random removal and reformation of promoter nucleosomes can account for stochastic and kinetic properties of PHO5 expression. Our analysis suggests that the disassembly of promoter nucleosomes is rate limiting for PHO5 expression, and supports a model for the underlying mechanism of promoter chromatin remodeling, which appears to conserve a single nucleosome on the promoter at all times.
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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.