ArticleBMC biophysics2013
A biophysical model for transcription factories.
Article in BMC biophysics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 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
14 citing papers in PubMed, 20 citations in OpenAlex.
- Virus Infection Induces Immune Gene Activation with CTCF-anchored Enhancers and Chromatin Interactions in Pig Genome.Genomics, proteomics & bioinformatics · 2024Article
- Surfactancy in a tadpole model of proteins.Journal of the Royal Society, Interface · 2022Article
- Review
- Weak interactions in higher-order chromatin organization.Nucleic acids research · 2020Review
- Soft culture substrates favor stem-like cellular phenotype and facilitate reprogramming of human mesenchymal stem/stromal cells (hMSCs) through mechanotransduction.Scientific reports · 2019Article
- Exploring chromatin hierarchical organization via Markov State Modelling.PLoS computational biology · 2018Article
- Osmotic modulation of chromatin impacts on efficiency and kinetics of cell fate modulation.Scientific reports · 2018Article
- Visualizing transcription factor dynamics in living cells.The Journal of cell biology · 2018Review
- Nucleoporins redistribute inside the nucleus after cell cycle arrest induced by histone deacetylases inhibition.Nucleus (Austin, Tex.) · 2017Article
- Dynamic Behavior of the RNA Polymerase II and the Ubiquitin Proteasome System During the Neuronal DNA Damage Response to Ionizing Radiation.Molecular neurobiology · 2016Article
- Morphology of nuclear transcription.Histochemistry and cell biology · 2016Review
- Mitochondrial content is central to nuclear gene expression: Profound implications for human health.BioEssays : news and reviews in molecular, cellular and developmental biology · 2016Review
- Global variability in gene expression and alternative splicing is modulated by mitochondrial content.Genome research · 2015Article
- Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 2 institutions in 2 countries.
Funding
Abstract
summaryTranscription factories are nuclear domains where gene transcription takes place although the molecular basis for their formation and maintenance are unknown. In this study, we explored how the properties of chromatin as a polymer may contribute to the structure of transcription factories. We found that transcriptional active chromatin contains modifications like histone H4 acetylated at Lysine 16 (H4K16ac). Single fibre analysis showed that this modification spans the entire body of the gene. Furthermore, H4K16ac genes cluster in regions up to 500 Kb alternating active and inactive chromatin. The introduction of H4K16ac in chromatin induces stiffness in the chromatin fibre. The result of this change in flexibility is that chromatin could behave like a multi-block copolymer with repetitions of stiff-flexible (active-inactive chromatin) components. Copolymers with such structure self-organize through spontaneous phase separation into microdomains. Consistent with such model H4K16ac chromatin form foci that associates with nascent transcripts. We propose that transcription factories are the result of the spontaneous concentration of H4K16ac chromatin that are in proximity, mainly in cis.
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.