Post-translational modifications of histones that influence nucleosome dynamics

GD Bowman, MG Poirier - Chemical reviews, 2014 - ACS Publications
Nucleosomes are efficient DNA-packaging units. The fundamental protein unit of the
nucleosome is the histone dimer, a simple α-helical domain possessing a highly basic …

Absence of a simple code: how transcription factors read the genome

M Slattery, T Zhou, L Yang, ACD Machado… - Trends in biochemical …, 2014 - cell.com
Transcription factors (TFs) influence cell fate by interpreting the regulatory DNA within a
genome. TFs recognize DNA in a specific manner; the mechanisms underlying this …

Transcription in living cells: molecular mechanisms of bursting

J Rodriguez, DR Larson - Annual review of biochemistry, 2020 - annualreviews.org
Transcription in several organisms from certain bacteria to humans has been observed to be
stochastic in nature: toggling between active and inactive states. Periods of active nascent …

Live‐cell imaging reveals the interplay between transcription factors, nucleosomes, and bursting

BT Donovan, A Huynh, DA Ball, HP Patel… - The EMBO …, 2019 - embopress.org
Transcription factors show rapid and reversible binding to chromatin in living cells, and
transcription occurs in sporadic bursts, but how these phenomena are related is unknown …

Two-parameter mobility assessments discriminate diverse regulatory factor behaviors in chromatin

J Lerner, PA Gomez-Garcia, RL McCarthy, Z Liu… - Molecular cell, 2020 - cell.com
Enzymatic probes of chromatin structure reveal accessible versus inaccessible chromatin
states, while super-resolution microscopy reveals a continuum of chromatin compaction …

RSC-associated subnucleosomes define MNase-sensitive promoters in yeast

S Brahma, S Henikoff - Molecular cell, 2019 - cell.com
The classic view of nucleosome organization at active promoters is that two well-positioned
nucleosomes flank a nucleosome-depleted region (NDR). However, this view has been …

Single-molecule FRET reveals multiscale chromatin dynamics modulated by HP1α

S Kilic, S Felekyan, O Doroshenko, I Boichenko… - Nature …, 2018 - nature.com
The dynamic architecture of chromatin fibers, a key determinant of genome regulation, is
poorly understood. Here, we employ multimodal single-molecule Förster resonance energy …

Biophysics of chromatin dynamics

B Fierz, MG Poirier - Annual review of biophysics, 2019 - annualreviews.org
Nucleosomes and chromatin control eukaryotic genome accessibility and thereby regulate
DNA processes, including transcription, replication, and repair. Conformational dynamics …

Single-molecule analysis and engineering of DNA motors

S Mohapatra, CT Lin, XA Feng, A Basu, T Ha - Chemical reviews, 2019 - ACS Publications
Molecular motors are diverse enzymes that transduce chemical energy into mechanical
work and, in doing so, perform critical cellular functions such as DNA replication and …

Epigenome regulation by dynamic nucleosome unwrapping

S Brahma, S Henikoff - Trends in biochemical sciences, 2020 - cell.com
Gene regulation in eukaryotes requires the controlled access of sequence-specific
transcription factors (TFs) to their sites in a chromatin landscape dominated by …