Categorical spectral analysis of periodicity in nucleosomal DNA

DNA-guided establishment of nucleosome patterns within coding regions of a eukaryotic genome

(2015) Leslie Y. Beh et al.   GENOME RESEARCH

The transcription factor GABP selectively binds and activates the mutant TERT promoter in cancer

(2015) R. J. A. Bell et al.   SCIENCE

Comprehensive nucleosome mapping of the human genome in cancer progression

(2015) Brooke R. Druliner et al.   Oncotarget

Nucleosome Repositioning: A Novel Mechanism for Nicotine- and Cocaine-Induced Epigenetic Changes

(2015) Amber N. Brown et al.   PLoS One

Mechanisms Underlying Nucleosome Positioning In Vivo

(2014) Amanda L. Hughes et al.   Annual Review of Biophysics

Training-free atomistic prediction of nucleosome occupancy

(2014) P. Minary et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MMCTest-A Safe Algorithm for Implementing Multiple Monte Carlo Tests

(2014) Axel Gandy et al.   SCANDINAVIAN JOURNAL OF STATISTICS

The spring-loaded genome: Nucleosome redistributions are widespread, transient, and DNA-directed

(2013) B. S. Sexton et al.   GENOME RESEARCH

A Locally Convoluted Cluster Model for Nucleosome Positioning Signals in Chemical Maps

(2013) Liqun Xi et al.   JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION

Quantifying the role of steric constraints in nucleosome positioning

(2013) H. Tomas Rube et al.   NUCLEIC ACIDS RESEARCH

Chemical map of Schizosaccharomyces pombe reveals species-specific features in nucleosome positioning

(2013) G. Moyle-Heyrman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Nucleosome Free Regions in Yeast Promoters Result from Competitive Binding of Transcription Factors That Interact with Chromatin Modifiers

(2013) Evgeniy A. Ozonov et al.   PLoS Computational Biology

A map of nucleosome positions in yeast at base-pair resolution

(2012) Kristin Brogaard et al.   NATURE

Inferring gene regulatory logic from high-throughput measurements of thousands of systematically designed promoters

(2012) Eilon Sharon et al.   NATURE BIOTECHNOLOGY

Categorical spectral analysis of periodicity in human and viral genomes

(2012) Elizabeth D. Howe et al.   NUCLEIC ACIDS RESEARCH

Sequence-based prediction of single nucleosome positioning and genome-wide nucleosome occupancy

(2012) T. van der Heijden et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Controls of Nucleosome Positioning in the Human Genome

(2012) Daniel J. Gaffney et al.   PLoS Genetics

Discriminative prediction of mammalian enhancers from DNA sequence

(2011) D. Lee et al.   GENOME RESEARCH

Modeling DNA-Bending in the Nucleosome: Role of AA Periodicity

(2011) Tatiana R. Prytkova et al.   JOURNAL OF PHYSICAL CHEMISTRY B

A Packing Mechanism for Nucleosome Organization Reconstituted Across a Eukaryotic Genome

(2011) Z. Zhang et al.   SCIENCE

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

Evidence against a genomic code for nucleosome positioning Reply to “Nucleosome sequence preferences influence in vivo nucleosome organization”

(2010) Yong Zhang et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Nucleosome sequence preferences influence in vivo nucleosome organization

(2010) Noam Kaplan et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The Role of Nucleosome Positioning in the Evolution of Gene Regulation

(2010) Alexander M. Tsankov et al.   PLOS BIOLOGY

G+C content dominates intrinsic nucleosome occupancy

(2009) Desiree Tillo et al.   BMC BIOINFORMATICS

Poly(dA:dT) tracts: major determinants of nucleosome organization

(2009) Eran Segal et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

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

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

Are nucleosome positions in vivo primarily determined by histone–DNA sequence preferences?

(2009) Arnold Stein et al.   NUCLEIC ACIDS RESEARCH

Multiple Aspects of ATP-Dependent Nucleosome Translocation by RSC and Mi-2 Are Directed by the Underlying DNA Sequence

(2009) Joke J. F. A. van Vugt et al.   PLoS One

Nucleosome organization in the Drosophila genome

(2008) Travis N. Mavrich et al.   NATURE

The DNA-encoded nucleosome organization of a eukaryotic genome

(2008) Noam Kaplan et al.   NATURE

Genomic Sequence Is Highly Predictive of Local Nucleosome Depletion

(2008) Guo-Cheng Yuan et al.   PLoS Computational Biology