ArticleCell reports2015
Regulation of Nucleosome Architecture and Factor Binding Revealed by Nuclease Footprinting of the ESC Genome.
Article in Cell reports, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 19 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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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
19 citing papers in PubMed, 33 citations in OpenAlex.
- esBAF and INO80C fine-tune subcompartments and differentially regulate enhancer-promoter interactions.Genetics · 2026Article
- FACT depletion results in a temporal cascade of chromatin disruption preceding transcriptional collapse in stem cells.bioRxiv : the preprint server for biology · 2026Article
- A Scalable MNase-seq Framework for Reproducible Nucleosome Profiling across Pluripotent Stem Cell and Cardiomyocyte Models.Computational and structural biotechnology journal · 2026Article
- esBAF and INO80C fine-tune subcompartments and differentially regulate enhancer-promoter interactions.bioRxiv : the preprint server for biology · 2025Article
- Multifunctional histone variants in genome function.Nature reviews. Genetics · 2025Review
- Epigenetic modulation via the C-terminal tail of H2A.Z.Nature communications · 2024Article
- The BAF chromatin remodeler synergizes with RNA polymerase II and transcription factors to evict nucleosomes.Nature genetics · 2024Article
- FACT regulates pluripotency through proximal and distal regulation of gene expression in murine embryonic stem cells.BMC biology · 2023Article
- The Role of the Histone Variant H2A.Z in Metazoan Development.Journal of developmental biology · 2022Review
- Organization of the Pluripotent Genome.Cold Spring Harbor perspectives in biology · 2021Review
- Epigenetic homogeneity in histone methylation underlies sperm programming for embryonic transcription.Nature communications · 2020Article
- Specialized RSC: Substrate Specificities for a Conserved Chromatin Remodeler.BioEssays : news and reviews in molecular, cellular and developmental biology · 2020Article
- Genomic methods in profiling DNA accessibility and factor localization.Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology · 2020Article
- Chromatin regulation and dynamics in stem cells.Current topics in developmental biology · 2020Review
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- Targeting cancer addiction for SALL4 by shifting its transcriptome with a pharmacologic peptide.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- TOP2 synergizes with BAF chromatin remodeling for both resolution and formation of facultative heterochromatin.Nature structural & molecular biology · 2017Article
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Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
Abstract
Functional interactions between gene regulatory factors and chromatin architecture have been difficult to directly assess. Here, we use micrococcal nuclease (MNase) footprinting to probe the functions of two chromatin-remodeling complexes. By simultaneously quantifying alterations in small MNase footprints over the binding sites of 30 regulatory factors in mouse embryonic stem cells (ESCs), we provide evidence that esBAF and Mbd3/NuRD modulate the binding of several regulatory proteins. In addition, we find that nucleosome occupancy is reduced at specific loci in favor of subnucleosomes upon depletion of esBAF, including sites of histone H2A.Z localization. Consistent with these data, we demonstrate that esBAF is required for normal H2A.Z localization in ESCs, suggesting esBAF either stabilizes H2A.Z-containing nucleosomes or promotes subnucleosome to nucleosome conversion by facilitating H2A.Z deposition. Therefore, integrative examination of MNase footprints reveals insights into nucleosome dynamics and functional interactions between chromatin structure and key gene-regulatory factors.
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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.