ArticleNucleic acids research2009
Analysis of individual remodeled nucleosomes reveals decreased histone-DNA contacts created by hSWI/SNF.
Article in Nucleic acids research, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 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
26 citing papers in PubMed, 36 citations in OpenAlex.
- Mechanisms of DNMT3A-3L-mediated de novo DNA methylation on chromatin.Nature structural & molecular biology · 2026Article
- FENGC: Targeted, Multiplexed, and Integrated Single-Molecule Profiling of Chromatin Accessibility and DNA Methylation.Methods in molecular biology (Clifton, N.J.) · 2026Article
- Structure and Dynamics of Compact Dinucleosomes: Analysis by Electron Microscopy and spFRET.International journal of molecular sciences · 2023Article
- Article
- Article
- The DNA repair protein SHPRH is a nucleosome-stimulated ATPase and a nucleosome-E3 ubiquitin ligase.Epigenetics & chromatin · 2019Article
- Crystallographic analysis of the overlapping dinucleosome as a novel chromatin unit.Biophysics and physicobiology · 2018Review
- Long non-coding RNAs (lncRNAs) and their transcriptional control of inflammatory responses.The Journal of biological chemistry · 2017Review
- LincRNA-Cox2 Promotes Late Inflammatory Gene Transcription in Macrophages through Modulating SWI/SNF-Mediated Chromatin Remodeling.Journal of immunology (Baltimore, Md. : 1950) · 2016Article
- Integration of Signaling Pathways with the Epigenetic Machinery in the Maintenance of Stem Cells.Stem cells international · 2016Review
- Comparative Genomics Reveals Chd1 as a Determinant of Nucleosome Spacing in Vivo.G3 (Bethesda, Md.) · 2015Article
- Mouse BAZ1A (ACF1) is dispensable for double-strand break repair but is essential for averting improper gene expression during spermatogenesis.PLoS genetics · 2013Article
- Nucleosome sliding mechanisms: new twists in a looped history.Nature structural & molecular biology · 2013Review
- ATP-dependent chromatin remodeling by Cockayne syndrome protein B and NAP1-like histone chaperones is required for efficient transcription-coupled DNA repair.PLoS genetics · 2013Article
- Genome-wide mapping of nucleosome positioning and DNA methylation within individual DNA molecules.Genome research · 2012Article
- Chromatin remodeling by the CHD7 protein is impaired by mutations that cause human developmental disorders.Proceedings of the National Academy of Sciences of the United States of America · 2012Article
- The ghosts in the machine: DNA methylation and the mystery of differentiation.Biochimica et biophysica acta · 2012Review
- Disparity in the DNA translocase domains of SWI/SNF and ISW2.Nucleic acids research · 2012Article
- Dynamic regulation of glucocorticoid signalling in health and disease.Rheumatology (Oxford, England) · 2012Review
- DNA methyltransferase accessibility protocol for individual templates by deep sequencing.Methods in enzymology · 2012Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
4 authors at 2 institutions in 1 country.
Funding
Abstract
Chromatin remodeling enzymes use the energy of ATP hydrolysis to alter histone-DNA contacts and regulate DNA-based processes in eukaryotes. Whether different subfamilies of remodeling complexes generate distinct products remains uncertain. We have developed a protocol to analyze nucleosome remodeling on individual products formed in vitro. We used a DNA methyltransferase to examine DNA accessibility throughout nucleosomes that had been remodeled by the ISWI and SWI/SNF families of enzymes. We confirmed that ISWI-family enzymes mainly created patterns of accessibility consistent with canonical nucleosomes. In contrast, SWI/SNF-family enzymes generated widespread DNA accessibility. The protection patterns created by these enzymes were usually located at the extreme ends of the DNA and showed no evidence for stable loop formation on individual molecules. Instead, SWI/SNF family proteins created extensive accessibility by generating heterogeneous products that had fewer histone-DNA contacts than a canonical nucleosome, consistent with models in which a canonical histone octamer has been 'pushed' off of the end of the DNA.
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.