ArticleNature structural & molecular biology2009
Single-molecule imaging of DNA curtains reveals intrinsic energy landscapes for nucleosome deposition.
Article in Nature structural & molecular biology, 2009. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 51 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.
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Who cites it
51 citing papers in PubMed, 93 citations in OpenAlex.
- A custom two-in-one HIST and line-scanning confocal excitation module.bioRxiv : the preprint server for biology · 2026Article
- Single-molecule DNA-flow stretching assay as a versatile hybrid tool for investigating DNA-protein interactions.BMB reports · 2025Review
- Dynamic 1D search and processive nucleosome translocations by RSC and ISW2 chromatin remodelers.eLife · 2024Article
- Dynamic 1D Search and Processive Nucleosome Translocations by RSC and ISW2 Chromatin Remodelers.bioRxiv : the preprint server for biology · 2024Article
- Trends in Single-Molecule Total Internal Reflection Fluorescence Imaging and Their Biological Applications with Lab-on-a-Chip Technology.Sensors (Basel, Switzerland) · 2023Review
- Single-molecule study reveals Hmo1, not Hho1, promotes chromatin assembly in budding yeast.mBio · 2023Article
- Cooperative action of separate interaction domains promotes high-affinity DNA binding ofProceedings of the National Academy of Sciences of the United States of America · 2023Article
- Article
- How p53 Molecules Solve the Target DNA Search Problem: A Review.International journal of molecular sciences · 2020Review
- Single-molecule visualization reveals the damage search mechanism for the human NER protein XPC-RAD23B.Nucleic acids research · 2019Article
- Intrinsically disordered regions regulate both catalytic and non-catalytic activities of the MutLα mismatch repair complex.Nucleic acids research · 2019Article
- High Free-Energy Barrier of 1D Diffusion Along DNA by Architectural DNA-Binding Proteins.Journal of molecular biology · 2018Article
- Hide and seek: How do DNA glycosylases locate oxidatively damaged DNA bases amidst a sea of undamaged bases?Free radical biology & medicine · 2017Review
- Single-Molecule Methods for Nucleotide Excision Repair: Building a System to Watch Repair in Real Time.Methods in enzymology · 2017Article
- Single molecule and single cell epigenomics.Methods (San Diego, Calif.) · 2015Review
- Using supported bilayers to study the spatiotemporal organization of membrane-bound proteins.Methods in cell biology · 2015Article
- Single molecule fluorescence methodologies for investigating transcription factor binding kinetics to nucleosomes and DNA.Methods (San Diego, Calif.) · 2014Article
- Insights into the glycosylase search for damage from single-molecule fluorescence microscopy.DNA repair · 2014Review
- DNA dynamics and single-molecule biology.Chemical reviews · 2014Review
- Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Here we use single-molecule imaging to determine coarse-grained intrinsic energy landscapes for nucleosome deposition on model DNA substrates. Our results reveal distributions that are correlated with recent in silico predictions, reinforcing the hypothesis that DNA contains some intrinsic positioning information. We also show that cis-regulatory sequences in human DNA coincide with peaks in the intrinsic landscape, whereas valleys correspond to nonregulatory regions, and we present evidence arguing that nucleosome deposition in vertebrates is influenced by factors that are not accounted for by current theory. Finally, we demonstrate that intrinsic landscapes of nucleosomes containing the centromere-specific variant CenH3 are correlated with patterns observed for canonical nucleosomes, arguing that CenH3 does not alter sequence preferences of centromeric nucleosomes. However, the nonhistone protein Scm3 alters the intrinsic landscape of CenH3-containing nucleosomes, enabling them to overcome the otherwise exclusionary effects of poly(dA-dT) tracts, which are enriched in centromeric DNA.
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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.