ReviewBriefings in functional genomics2015
Functional roles of nucleosome stability and dynamics.
Review in Briefings in functional genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 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
20 citing papers in PubMed, 50 citations in OpenAlex.
- Defining transcription factor nucleosome binding with Pioneer-seq.PLoS genetics · 2025Article
- Consecutive low-frequency shifts in A/T content denote nucleosome positions across microeukaryotes.iScience · 2025Article
- Spt6-Spn1 interaction is required for RNA polymerase II association and precise nucleosome positioning along transcribed genes.The Journal of biological chemistry · 2025Article
- Interpretable deep residual network uncovers nucleosome positioning and associated features.Nucleic acids research · 2024Article
- Yeast Chromatin Mutants Reveal Altered mtDNA Copy Number and Impaired Mitochondrial Membrane Potential.Journal of fungi (Basel, Switzerland) · 2023Article
- Regulation of Liver Glucose and Lipid Metabolism by Transcriptional Factors and Coactivators.Life (Basel, Switzerland) · 2023Review
- NUCOME: A comprehensive database of nucleosome organization referenced landscapes in mammalian genomes.BMC bioinformatics · 2021Article
- Inhibition of CRISPR-Cas12a DNA targeting by nucleosomes and chromatin.Science advances · 2021Article
- On the role of transcription in positioning nucleosomes.PLoS computational biology · 2021Article
- Major Determinants of Nucleosome Positioning.Biophysical journal · 2018Review
- SWI/SNF and RSC cooperate to reposition and evict promoter nucleosomes at highly expressed genes in yeast.Genes & development · 2018Article
- Precise genome-wide mapping of single nucleosomes and linkers in vivo.Genome biology · 2018Article
- Evolutionary mechanism and biological functions of 8-mers containing CG dinucleotide in yeast.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2017Article
- Targeted activation of diverse CRISPR-Cas systems for mammalian genome editing via proximal CRISPR targeting.Nature communications · 2017Article
- Scoring Targets of Transcription in Bacteria Rather than Focusing on Individual Binding Sites.Frontiers in microbiology · 2017Article
- Nucleosome fragility is associated with future transcriptional response to developmental cues and stress in C. elegans.Genome research · 2017Article
- Probing Nucleosome Stability with a DNA Origami Nanocaliper.ACS nano · 2016Article
- The ISW1 and CHD1 ATP-dependent chromatin remodelers compete to set nucleosome spacing in vivo.Nucleic acids research · 2016Article
- Genome-wide profiling of nucleosome sensitivity and chromatin accessibility in Drosophila melanogaster.Nucleic acids research · 2016Article
- Exogenous Expression of Human Protamine 1 (hPrm1) Remodels Fibroblast Nuclei into Spermatid-like Structures.Cell reports · 2015Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
2 authors at 2 institutions in 2 countries.
Funding
Abstract
Nucleosome is a histone-DNA complex known as the fundamental repeating unit of chromatin. Up to 90% of eukaryotic DNA is wrapped around consecutive octamers made of the core histones H2A, H2B, H3 and H4. Nucleosome positioning affects numerous cellular processes that require robust and timely access to genomic DNA, which is packaged into the tight confines of the cell nucleus. In living cells, nucleosome positions are determined by intrinsic histone-DNA sequence preferences, competition between histones and other DNA-binding proteins for genomic sequence, and ATP-dependent chromatin remodelers. We discuss the major energetic contributions to nucleosome formation and remodeling, focusing especially on partial DNA unwrapping off the histone octamer surface. DNA unwrapping enables efficient access to nucleosome-buried binding sites and mediates rapid nucleosome removal through concerted action of two or more DNA-binding factors. High-resolution, genome-scale maps of distances between neighboring nucleosomes have shown that DNA unwrapping and nucleosome crowding (mutual invasion of nucleosome territories) are much more common than previously thought. Ultimately, constraints imposed by nucleosome energetics on the rates of ATP-dependent and spontaneous chromatin remodeling determine nucleosome occupancy genome-wide, and shape pathways of cellular response to environmental stresses.
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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.