Gene promoters dictate histone occupancy within genes

Making sense of transcribing chromatin

(2012) Tom Owen-Hughes et al.   CURRENT OPINION IN CELL BIOLOGY

CTD Tyrosine Phosphorylation Impairs Termination Factor Recruitment to RNA Polymerase II

(2012) A. Mayer et al.   SCIENCE

Promoter Elements Regulate Cytoplasmic mRNA Decay

(2011) Almog Bregman et al.   CELL

Single-Molecule mRNA Decay Measurements Reveal Promoter- Regulated mRNA Stability in Yeast

(2011) Tatjana Trcek et al.   CELL

A genomic model of condition-specific nucleosome behavior explains transcriptional activity in yeast

(2011) J. B. Zaugg et al.   GENOME RESEARCH

Histone Occupancy In Vivo at the 601 Nucleosome Binding Element Is Determined by Transcriptional History

(2011) R. Perales et al.   MOLECULAR AND CELLULAR BIOLOGY

Chromatin remodelers clear nucleosomes from intrinsically unfavorable sites to establish nucleosome-depleted regions at promoters

(2011) Denis Tolkunov et al.   MOLECULAR BIOLOGY OF THE CELL

The elongation rate of RNA polymerase determines the fate of transcribed nucleosomes

(2011) Lacramioara Bintu et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Pre-mRNA splicing is a determinant of histone H3K36 methylation

(2011) S. Kim et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Mammalian Genes Are Transcribed with Widely Different Bursting Kinetics

(2011) D. M. Suter et al.   SCIENCE

Pause locally, splice globally

(2011) Fernando Carrillo Oesterreich et al.   TRENDS IN CELL BIOLOGY

Genome-Wide Analysis of Nascent Transcription in Saccharomyces cerevisiae

(2011) Anastasia McKinlay et al.   G3-Genes Genomes Genetics

Bursts and pulses: insights from single cell studies into transcriptional mechanisms

(2010) Jonathan R Chubb et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

Intergenic transcription causes repression by directing nucleosome assembly

(2010) S. J. Hainer et al.   GENES & DEVELOPMENT

Chromatin Remodeling around Nucleosome-Free Regions Leads to Repression of Noncoding RNA Transcription

(2010) A. N. Yadon et al.   MOLECULAR AND CELLULAR BIOLOGY

Control of Chromatin Structure by Spt6: Different Consequences in Coding and Regulatory Regions

(2010) I. Ivanovska et al.   MOLECULAR AND CELLULAR BIOLOGY

Structure and Biological Importance of the Spn1-Spt6 Interaction, and Its Regulatory Role in Nucleosome Binding

(2010) Seth M. McDonald et al.   MOLECULAR CELL

Gene-specific RNA polymerase II phosphorylation and the CTD code

(2010) Hyunmin Kim et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Synergistic action of RNA polymerases in overcoming the nucleosomal barrier

(2010) Jing Jin et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Uniform transitions of the general RNA polymerase II transcription complex

(2010) Andreas Mayer et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Nucleosome depletion at yeast terminators is not intrinsic and can occur by a transcriptional mechanism linked to 3'-end formation

(2010) X. Fan et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

FACT Prevents the Accumulation of Free Histones Evicted from Transcribed Chromatin and a Subsequent Cell Cycle Delay in G1

(2010) Macarena Morillo-Huesca et al.   PLoS Genetics

Mechanisms that Specify Promoter Nucleosome Location and Identity

(2009) Paul D. Hartley et al.   CELL

Spt6 enhances the elongation rate of RNA polymerase II in vivo

(2009) M Behfar Ardehali et al.   EMBO JOURNAL

A canonical promoter organization of the transcription machinery and its regulators in the Saccharomyces genome

(2009) B. J. Venters et al.   GENOME RESEARCH

Histone Chaperone Spt16 Promotes Redeposition of the Original H3-H4 Histones Evicted by Elongating RNA Polymerase

(2009) Adil Jamai et al.   MOLECULAR CELL

The logic of chromatin architecture and remodelling at promoters

(2009) Bradley R. Cairns   NATURE

Ultradian hormone stimulation induces glucocorticoid receptor-mediated pulses of gene transcription

(2009) Diana A. Stavreva et al.   NATURE CELL BIOLOGY

Evidence for Gene-Specific Rather Than Transcription Rate–Dependent Histone H3 Exchange in Yeast Coding Regions

(2009) Irit Gat-Viks et al.   PLoS Computational Biology

Regulon-Specific Control of Transcription Elongation across the Yeast Genome

(2009) Vicent Pelechano et al.   PLoS Genetics

Ultrafast and memory-efficient alignment of short DNA sequences to the human genome

(2009) Ben Langmead et al.   GENOME BIOLOGY

Requirements for chromatin reassembly during transcriptional downregulation of a heat shock gene in Saccharomyces cerevisiae

(2008) Mette M. Jensen et al.   FEBS Journal

Two strategies for gene regulation by promoter nucleosomes

(2008) I. Tirosh et al.   GENOME RESEARCH

A barrier nucleosome model for statistical positioning of nucleosomes throughout the yeast genome

(2008) T. N. Mavrich et al.   GENOME RESEARCH

A Library of Yeast Transcription Factor Motifs Reveals a Widespread Function for Rsc3 in Targeting Nucleosome Exclusion at Promoters

(2008) Gwenael Badis et al.   MOLECULAR CELL

Single-RNA counting reveals alternative modes of gene expression in yeast

(2008) Daniel Zenklusen et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Chromatin- and Transcription-Related Factors Repress Transcription from within Coding Regions throughout the Saccharomyces cerevisiae Genome

(2008) Vanessa Cheung et al.   PLOS BIOLOGY

Distinct Modes of Regulation by Chromatin Encoded through Nucleosome Positioning Signals

(2008) Yair Field et al.   PLoS Computational Biology