Understanding nucleosome dynamics and their links to gene expression and DNA replication

WKM Lai, BF Pugh - Nature reviews Molecular cell biology, 2017 - nature.com
Advances in genomics technology have provided the means to probe myriad chromatin
interactions at unprecedented spatial and temporal resolution. This has led to a profound …

New insights into nucleosome and chromatin structure: an ordered state or a disordered affair?

K Luger, ML Dechassa, DJ Tremethick - Nature reviews Molecular cell …, 2012 - nature.com
The compaction of genomic DNA into chromatin has profound implications for the regulation
of key processes such as transcription, replication and DNA repair. Nucleosomes, the …

Controls of nucleosome positioning in the human genome

DJ Gaffney, G McVicker, AA Pai… - PLoS …, 2012 - journals.plos.org
Nucleosomes are important for gene regulation because their arrangement on the genome
can control which proteins bind to DNA. Currently, few human nucleosomes are thought to …

Disentangling the many layers of eukaryotic transcriptional regulation

KM Lelli, M Slattery, RS Mann - Annual review of genetics, 2012 - annualreviews.org
Regulation of gene expression in eukaryotes is an extremely complex process. In this
review, we break down several critical steps, emphasizing new data and techniques that …

Nucleosome structure (s) and stability: variations on a theme

AJ Andrews, K Luger - Annual review of biophysics, 2011 - annualreviews.org
Chromatin is a highly regulated, modular nucleoprotein complex that is central to many
processes in eukaryotes. The organization of DNA into nucleosomes and higher-order …

CpG islands and GC content dictate nucleosome depletion in a transcription-independent manner at mammalian promoters

R Fenouil, P Cauchy, F Koch, N Descostes… - Genome …, 2012 - genome.cshlp.org
One clear hallmark of mammalian promoters is the presence of CpG islands (CGIs) at more
than two-thirds of genes, whereas TATA boxes are only present at a minority of promoters …

Chromatin and DNA replication

DM MacAlpine, G Almouzni - Cold Spring Harbor …, 2013 - cshperspectives.cshlp.org
The size of a eukaryotic genome presents a unique challenge to the cell: package and
organize the DNA to fit within the confines of the nucleus while at the same time ensuring …

Precise genome-wide map** of single nucleosomes and linkers in vivo

RV Chereji, S Ramachandran, TD Bryson, S Henikoff - Biophysical Journal, 2018 - cell.com
We have developed a chemical cleavage method that allows precise map** of both single
nucleosomes and linkers genome-wide in budding yeast. We confirm that S. cerevisiae …

Cis and trans acting factors involved in human cytomegalovirus experimental and natural latent infection of CD14 (+) monocytes and CD34 (+) cells

CC Rossetto, M Tarrant-Elorza, GS Pari - PLoS pathogens, 2013 - journals.plos.org
The parameters involved in human cytomegalovirus (HCMV) latent infection in CD14 (+) and
CD34 (+) cells remain poorly identified. Using next generation sequencing we deduced the …

Predicting the human epigenome from DNA motifs

JW Whitaker, Z Chen, W Wang - Nature methods, 2015 - nature.com
The epigenome is established and maintained by the site-specific recruitment of chromatin-
modifying enzymes and their cofactors. Identifying the cis elements that regulate epigenomic …