Chemically induced proximity in biology and medicine
BZ Stanton, EJ Chory, GR Crabtree - Science, 2018 - science.org
BACKGROUND Nature has evolved elegant mechanisms to regulate the physical distance
between molecules, or proximity, for a wide variety of purposes. Whether it is activation of …
between molecules, or proximity, for a wide variety of purposes. Whether it is activation of …
Determinants of nucleosome positioning
Nucleosome positioning is critical for gene expression and most DNA-related processes.
Here we review the dominant patterns of nucleosome positioning that have been observed …
Here we review the dominant patterns of nucleosome positioning that have been observed …
Structured nucleosome fingerprints enable high-resolution mapping of chromatin architecture within regulatory regions
Transcription factors canonically bind nucleosome-free DNA, making the positioning of
nucleosomes within regulatory regions crucial to the regulation of gene expression. Using …
nucleosomes within regulatory regions crucial to the regulation of gene expression. Using …
Identifying and mitigating bias in next-generation sequencing methods for chromatin biology
Next-generation sequencing (NGS) technologies have been used in diverse ways to
investigate various aspects of chromatin biology by identifying genomic loci that are bound …
investigate various aspects of chromatin biology by identifying genomic loci that are bound …
A map of nucleosome positions in yeast at base-pair resolution
The exact positions of nucleosomes along genomic DNA can influence many aspects of
chromosome function. However, existing methods for mapping nucleosomes do not provide …
chromosome function. However, existing methods for mapping nucleosomes do not provide …
Global analysis of mRNA isoform half-lives reveals stabilizing and destabilizing elements in yeast
JV Geisberg, Z Moqtaderi, X Fan, F Ozsolak, K Struhl - Cell, 2014 - cell.com
We measured half-lives of 21,248 mRNA 3′ isoforms in yeast by rapidly depleting RNA
polymerase II from the nucleus and performing direct RNA sequencing throughout the decay …
polymerase II from the nucleus and performing direct RNA sequencing throughout the decay …
Unravelling the means to an end: RNA polymerase II transcription termination
JN Kuehner, EL Pearson, C Moore - Nature reviews Molecular cell …, 2011 - nature.com
The pervasiveness of RNA synthesis in eukaryotes is largely the result of RNA polymerase II
(Pol II)-mediated transcription, and termination of its activity is necessary to partition the …
(Pol II)-mediated transcription, and termination of its activity is necessary to partition the …
Genome-wide nucleosome positioning during embryonic stem cell development
VB Teif, Y Vainshtein, M Caudron-Herger… - Nature structural & …, 2012 - nature.com
We determined genome-wide nucleosome occupancies in mouse embryonic stem cells and
their neural progenitor and embryonic fibroblast counterparts to assess features associated …
their neural progenitor and embryonic fibroblast counterparts to assess features associated …
[HTML][HTML] Nucleosome-free region dominates histone acetylation in targeting SWR1 to promoters for H2A. Z replacement
A Ranjan, G Mizuguchi, PC FitzGerald, D Wei, F Wang… - Cell, 2013 - cell.com
The histone variant H2A. Z is a genome-wide signature of nucleosomes proximal to
eukaryotic regulatory DNA. Whereas the multisubunit chromatin remodeler SWR1 is known …
eukaryotic regulatory DNA. Whereas the multisubunit chromatin remodeler SWR1 is known …
MNase-sensitive complexes in yeast: nucleosomes and non-histone barriers
Micrococcal nuclease (MNase) is commonly used to map nucleosomes genome-wide, but
nucleosome maps are affected by the degree of digestion. It has been proposed that many …
nucleosome maps are affected by the degree of digestion. It has been proposed that many …