The Role of Nucleosome Positioning in the Evolution of Gene Regulation

Schizosaccharomyces pombe genome-wide nucleosome mapping reveals positioning mechanisms distinct from those of Saccharomyces cerevisiae

(2010) Alexandra B Lantermann et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Gene duplication and the evolution of ribosomal protein gene regulation in yeast

(2010) I. Wapinski et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Evolutionary Tinkering with Conserved Components of a Transcriptional Regulatory Network

(2010) Hugo Lavoie et al.   PLOS BIOLOGY

Genome-Wide Views of Chromatin Structure

(2009) Oliver J. Rando et al.   Annual Review of Biochemistry

The Biology of Chromatin Remodeling Complexes

(2009) Cedric R. Clapier et al.   Annual Review of Biochemistry

G+C content dominates intrinsic nucleosome occupancy

(2009) Desiree Tillo et al.   BMC BIOINFORMATICS

Mechanisms that Specify Promoter Nucleosome Location and Identity

(2009) Paul D. Hartley et al.   CELL

From elements to modules: regulatory evolution in Ascomycota fungi

(2009) Dana J Wohlbach et al.   CURRENT OPINION IN GENETICS & DEVELOPMENT

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

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

High-resolution DNA-binding specificity analysis of yeast transcription factors

(2009) C. Zhu et al.   GENOME RESEARCH

Bidirectional promoters generate pervasive transcription in yeast

(2009) Zhenyu Xu et al.   NATURE

Defining mechanisms that regulate RNA polymerase II transcription in vivo

(2009) Nicholas J. Fuda et al.   NATURE

Intrinsic variability of gene expression encoded in nucleosome positioning sequences

(2009) Jung Kyoon Choi et al.   NATURE GENETICS

Gene expression divergence in yeast is coupled to evolution of DNA-encoded nucleosome organization

(2009) Yair Field et al.   NATURE GENETICS

Nucleosome positioning and gene regulation: advances through genomics

(2009) Cizhong Jiang et al.   NATURE REVIEWS GENETICS

Intrinsic histone-DNA interactions are not the major determinant of nucleosome positions in vivo

(2009) Yong Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

A Yeast Hybrid Provides Insight into the Evolution of Gene Expression Regulation

(2009) I. Tirosh et al.   SCIENCE

What controls nucleosome positions?

(2009) Eran Segal et al.   TRENDS IN GENETICS

Dynamic Regulation of Nucleosome Positioning in the Human Genome

(2008) Dustin E. Schones et al.   CELL

The Asexual YeastCandida glabrataMaintains Distinctaand α Haploid Mating Types

(2008) Héloïse Muller et al.   EUKARYOTIC CELL

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

Transcription Factor Substitution during the Evolution of Fungal Ribosome Regulation

(2008) Hervé Hogues et al.   MOLECULAR CELL

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

On the relation between promoter divergence and gene expression evolution

(2008) Itay Tirosh et al.   Molecular Systems Biology

Chromatin decouples promoter threshold from dynamic range

(2008) Felix H. Lam et al.   NATURE

Nucleosome organization in the Drosophila genome

(2008) Travis N. Mavrich et al.   NATURE

Nucleosome repeat length and linker histone stoichiometry determine chromatin fiber structure

(2008) Andrew Routh et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Chromatin-Associated Periodicity in Genetic Variation Downstream of Transcriptional Start Sites

(2008) S. Sasaki et al.   SCIENCE

Evolutionary footprints of nucleosome positions in yeast

(2008) Stefan Washietl et al.   TRENDS IN GENETICS

The Evolution of Combinatorial Gene Regulation in Fungi

(2008) Brian B Tuch et al.   PLOS BIOLOGY

Dynamic Remodeling of Individual Nucleosomes Across a Eukaryotic Genome in Response to Transcriptional Perturbation

(2008) Sushma Shivaswamy et al.   PLOS BIOLOGY

Distinct Modes of Regulation by Chromatin Encoded through Nucleosome Positioning Signals

(2008) Yair Field et al.   PLoS Computational Biology

The Impact of the Nucleosome Code on Protein-Coding Sequence Evolution in Yeast

(2008) Tobias Warnecke et al.   PLoS Genetics