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Subtracting the sequence bias from partially digested MNase-seq data reveals a general contribution of TFIIS to nucleosome positioning
(2017)
Abstract
Background
TFIIS stimulates RNA cleavage by RNA polymerase II and promotes the resolution of backtracking events. TFIIS acts in the chromatin context, but its ...
Interplay among ATP-Dependent Chromatin Remodelers Determines Chromatin Organisation in Yeast
(Multidisciplinary Digital Publishing Institute, 2020-07)
Cellular DNA is packaged into chromatin, which is composed of regularly-spaced nucleosomes with occasional gaps corresponding to active regulatory elements, such as promoters and enhancers, called nucleosome-depleted regions ...
Intasome architecture and chromatin density modulate retroviral integration into nucleosome
(BioMed Central, 2015)
Background: Retroviral integration depends on the interaction between intasomes, host chromatin and cellular
targeting cofactors as LEDGF/p75 or BET proteins. Previous studies indicated that the retroviral integrase, by ...
Modulation of the functional association between the HIV-1 intasome and the nucleosome by histone amino-terminal tails
(Biomed Central Ltd., 2017)
Background: Stable insertion of the retroviral DNA genome into host chromatin requires the functional association between the intasome (integrase viral DNA complex) and the nucleosome. The data from the literature suggest ...
Intasome architecture and chromatin density modulate retroviral integration into nucleosome
(BioMed Central Ltd., 2015)
© Benleulmi et al. Background: Retroviral integration depends on the interaction between intasomes, host chromatin and cellular targeting cofactors as LEDGF/p75 or BET proteins. Previous studies indicated that the retroviral ...
Global histone protein surface accessibility in yeast indicates a uniformly loosely packed genome with canonical nucleosomes
(BioMed Central, 2021-12-11)
Background: The vast majority of methods available to characterize genome-wide chromatin structure exploit differences in DNA accessibility to nucleases or chemical crosslinking. We developed a novel method to gauge ...
Enhanced CRAd activity using artificial enhancers including nucleosome positioning sequences and Wnt-responsive elements
(2013)
Cancer development involves changes driven by the epigenetic machinery, including nucleosome positioning. Recently, the concept that adenoviral replication may be driven by tumor specific promoters (TSPs) gained support, ...
Contrasting roles of the RSC and ISW1/CHD1 chromatin remodelers in RNA polymerase II elongation and termination
(Cold Spring Harbor Laboratory Press, 2019-03)
Most yeast genes have a nucleosome-depleted region (NDR) at the promoter and an array of regularly spaced nucleosomes phased relative to the transcription start site. We have examined the interplay between RSC (a conserved ...
Nucleosome positioning and histone modifications define relationships between regulatory elements and nearby gene expression in breast epithelial cells
(BioMed Central, 2014)
Abstract
Background
The precise nature of how cell type specific chromatin structures at enhancer sites affect gene expression is largely unknown. Here we identified cell ...
Chromatin remodeling and transcription of the TPK1 subunit of PKA during stress in Saccharomyces cerevisiae
(Elsevier Science, 2020-09)
In response to environmental changes cells rapidly rearrange their gene expression pattern in order to adapt to the new conditions. Chromatin remodeling is critical for this process playing a major role in the induction ...