Search
Search Results
-
Structures of transcription preinitiation complex engaged with the +1 nucleosome
The preinitiation complex (PIC) assembles on promoters of protein-coding genes to position RNA polymerase II (Pol II) for transcription initiation....
-
Nucleosome density shapes kilobase-scale regulation by a mammalian chromatin remodeler
Nearly all essential nuclear processes act on DNA packaged into arrays of nucleosomes. However, our understanding of how these processes (for...
-
Structure of histone deacetylase complex Rpd3S bound to nucleosome
Crosstalk between histone modifications represents a fundamental epigenetic mechanism in gene regulation. During the transcription elongation...
-
DNA damage and repair in the nucleosome: insights from computational methods
Cellular DNA is constantly exposed to endogenous or exogenous factors that can induce lesions. Several types of lesions have been described that can...
-
General regulatory factors exert differential effects on nucleosome sliding activity of the ISW1a complex
BackgroundChromatin dynamics is deeply involved in processes that require access to DNA, such as transcriptional regulation. Among the factors...
-
Nucleosome-bound NR5A2 structure reveals pioneer factor mechanism by DNA minor groove anchor competition
Gene expression during natural and induced reprogramming is controlled by pioneer transcription factors that initiate transcription from closed...
-
ISWI catalyzes nucleosome sliding in condensed nucleosome arrays
How chromatin enzymes work in condensed chromatin and how they maintain diffusional mobility inside remains unexplored. Here we investigated these...
-
Structural and mechanistic insights into the DNA glycosylase AAG-mediated base excision in nucleosome
The engagement of a DNA glycosylase with a damaged DNA base marks the initiation of base excision repair. Nucleosome-based packaging of eukaryotic...
-
Genome-wide map** and cryo-EM structural analyses of the overlap** tri-nucleosome composed of hexasome-hexasome-octasome moieties
The nucleosome is a fundamental unit of chromatin in which about 150 base pairs of DNA are wrapped around a histone octamer. The overlap**...
-
Map** Nucleosome Location Using FS-Seq
The organization of nucleosomes in eukaryotic chromatin is thought to play a critical role in the regulation of the biological function of the...
-
Nucleosome Core Particle Reconstitution with Recombinant Histones and Widom 601 DNA
Reconstitution of nucleosomes from recombinant histones and DNA is a widely used tool for studying nucleosome structure, dynamics, and interactions....
-
Structural mechanism of synergistic targeting of the CX3CR1 nucleosome by PU.1 and C/EBPα
Pioneer transcription factors are vital for cell fate changes. PU.1 and C/EBPα work together to regulate hematopoietic stem cell differentiation....
-
A pioneer factor locally opens compacted chromatin to enable targeted ATP-dependent nucleosome remodeling
To determine how different pioneer transcription factors form a targeted, accessible nucleosome within compacted chromatin and collaborate with an...
-
Structural basis of nucleosome deacetylation and DNA linker tightening by Rpd3S histone deacetylase complex
In Saccharomyces cerevisiae , cryptic transcription at the coding region is prevented by the activity of Sin3 histone deacetylase (HDAC) complex...
-
NucHMM: a method for quantitative modeling of nucleosome organization identifying functional nucleosome states distinctly associated with splicing potentiality
We develop a novel computational method, NucHMM, to identify functional nucleosome states associated with cell type-specific combinatorial histone...
-
Dynamic nucleosome organization after fertilization reveals regulatory factors for mouse zygotic genome activation
Chromatin remodeling is essential for epigenome reprogramming after fertilization. However, the underlying mechanisms of chromatin remodeling remain...
-
Electron microscopy analysis of ATP-independent nucleosome unfolding by FACT
FACT is a histone chaperone that participates in nucleosome removal and reassembly during transcription and replication. We used electron microscopy...
-
Nucleosome positioning based on DNA sequence embedding and deep learning
BackgroundNucleosome positioning is the precise determination of the location of nucleosomes on DNA sequence. With the continuous advancement of...
-
MiOS, an integrated imaging and computational strategy to model gene folding with nucleosome resolution
The linear sequence of DNA provides invaluable information about genes and their regulatory elements along chromosomes. However, to fully understand...
-
Role of the Nhp6 Protein in Nucleosome Unfolding by the FACT Factor
AbstractControlled access to chromatin DNA is required for gene expression and is provided by regulatory factors, such as the FACT protein complex....
