Widespread changes in nucleosome accessibility without changes in nucleosome occupancy during a rapid transcriptional induction

B Mueller, J Mieczkowski, S Kundu… - Genes & …, 2017 - genesdev.cshlp.org
Activation of transcription requires alteration of chromatin by complexes that increase the
accessibility of nucleosomal DNA. Removing nucleosomes from regulatory sequences has …

Sequence‐specific targeting of chromatin remodelers organizes precisely positioned nucleosomes throughout the genome

GD Bowman, JN McKnight - BioEssays, 2017 - Wiley Online Library
Eukaryotic genomes are functionally organized into chromatin, a compact packaging of
nucleoproteins with the basic repeating unit known as the nucleosome. A major focus for the …

Coupling between sequence-mediated nucleosome organization and genome evolution

J Barbier, C Vaillant, JN Volff, FG Brunet, B Audit - Genes, 2021 - mdpi.com
The nucleosome is a major modulator of DNA accessibility to other cellular factors.
Nucleosome positioning has a critical importance in regulating cell processes such as …

Multiple roles of H2A. Z in regulating promoter chromatin architecture in human cells

L Cole, S Kurscheid, M Nekrasov… - Nature …, 2021 - nature.com
Chromatin accessibility of a promoter is fundamental in regulating transcriptional activity.
The histone variant H2A. Z has been shown to contribute to this regulation, but its role has …

Differential nuclease sensitivity profiling of chromatin reveals biochemical footprints coupled to gene expression and functional DNA elements in maize

DL Vera, TF Madzima, JD Labonne, MP Alam… - The Plant …, 2014 - academic.oup.com
The eukaryotic genome is organized into nucleosomes, the fundamental units of chromatin.
The positions of nucleosomes on DNA regulate protein-DNA interactions and in turn …

Role of cell-type specific nucleosome positioning in inducible activation of mammalian promoters

A Oruba, S Saccani, D van Essen - Nature communications, 2020 - nature.com
The organization of nucleosomes across functional genomic elements represents a critical
layer of control. Here, we present a strategy for high-resolution nucleosome profiling at …

The sequence of nucleosomal DNA modulates sliding by the Chd1 chromatin remodeler

J Winger, GD Bowman - Journal of molecular biology, 2017 - Elsevier
Chromatin remodelers are ATP-dependent enzymes that are critical for reorganizing and
repositioning nucleosomes in concert with many basic cellular processes. For the …

Regulated large-scale nucleosome density patterns and precise nucleosome positioning correlate with V (D) J recombination

SR Pulivarthy, M Lion, G Kuzu… - Proceedings of the …, 2016 - National Acad Sciences
We show that the physical distribution of nucleosomes at antigen receptor loci is subject to
regulated cell type-specific and lineage-specific positioning and correlates with the …

Genome-wide nucleosome occupancy and organization modulates the plasticity of gene transcriptional status in maize

J Chen, E Li, X Zhang, X Dong, L Lei, W Song, H Zhao… - Molecular Plant, 2017 - cell.com
Nucleosomes are fundamental units of chromatin that play critical roles in gene regulation
by modulating DNA accessibility. However, their roles in regulating tissue-specific gene …

Categorical spectral analysis of periodicity in nucleosomal DNA

H Jin, HT Rube, JS Song - Nucleic acids research, 2016 - academic.oup.com
DNA helical twist imposes geometric constraints on the location of histone–DNA interaction
sites along nucleosomal DNA. Certain 10.5-bp periodic nucleotides in phase with these …