Predicting nucleosome binding motif set and analyzing their distributions around functional sites of human genes

Widespread signatures of recent selection linked to nucleosome positioning in the human lineage

(2011) J. G. D. Prendergast et al.   GENOME RESEARCH

Prediction of nucleosome occupancy in Saccharomyces cerevisiae using position-correlation scoring function

(2011) Yongqiang Xing et al.   GENOMICS

Prediction of nucleosome DNA formation potential and nucleosome positioning using increment of diversity combined with quadratic discriminant analysis

(2010) Xiujuan Zhao et al.   CHROMOSOME RESEARCH

From chromatin to splicing: RNA-processing as a total artwork

(2010) Hagen Tilgner et al.   Epigenetics

Intergenic transcription causes repression by directing nucleosome assembly

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

Identification of TATA and TATA-less promoters in plant genomes by integrating diversity measure, GC-Skew and DNA geometric flexibility

(2010) Yong-Chun Zuo et al.   GENOMICS

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

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

Oligonucleotide Sequence Motifs as Nucleosome Positioning Signals

(2010) Clayton K. Collings et al.   PLoS One

Sequence Signatures of Nucleosome Positioning in Caenorhabditis elegans

(2010) Kaifu Chen et al.   GENOMICS PROTEOMICS & BIOINFORMATICS

A novel mechanism of epigenetic regulation: Nucleosome-space occupancy

(2009) Peng Cui et al.   BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS

G+C content dominates intrinsic nucleosome occupancy

(2009) Desiree Tillo et al.   BMC BIOINFORMATICS

Nucleosome positioning and gene regulation: advances through genomics

(2009) Cizhong Jiang et al.   NATURE REVIEWS GENETICS

High-resolution dynamic mapping of histone-DNA interactions in a nucleosome

(2009) Michael A Hall et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Chromatin organization marks exon-intron structure

(2009) Schraga Schwartz et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

The coexistence of the nucleosome positioning code with the genetic code on eukaryotic genomes

(2009) Amir B. Cohanim et al.   NUCLEIC ACIDS RESEARCH

Predicting nucleosome positions on the DNA: combining intrinsic sequence preferences and remodeler activities

(2009) Vladimir B. Teif et al.   NUCLEIC ACIDS RESEARCH

What controls nucleosome positions?

(2009) Eran Segal et al.   TRENDS IN GENETICS

Nucleosome deposition and DNA methylation at coding region boundaries

(2009) Jung Choi et al.   GENOME BIOLOGY

Genomic DNA k-mer spectra: models and modalities

(2009) Benny Chor et al.   GENOME BIOLOGY

Dynamic Regulation of Nucleosome Positioning in the Human Genome

(2008) Dustin E. Schones et al.   CELL

Sequence-dependent Nucleosome Positioning

(2008) Ho-Ryun Chung et al.   JOURNAL OF MOLECULAR BIOLOGY

Stepwise chromatin remodelling by a cascade of transcription initiation of non-coding RNAs

(2008) Kouji Hirota et al.   NATURE

The DNA-encoded nucleosome organization of a eukaryotic genome

(2008) Noam Kaplan et al.   NATURE

A novel DNA sequence periodicity decodes nucleosome positioning

(2008) Kaifu Chen et al.   NUCLEIC ACIDS RESEARCH

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

(2008) Sushma Shivaswamy et al.   PLOS BIOLOGY

Predicting Human Nucleosome Occupancy from Primary Sequence

(2008) Shobhit Gupta et al.   PLoS Computational Biology

Distinct Modes of Regulation by Chromatin Encoded through Nucleosome Positioning Signals

(2008) Yair Field et al.   PLoS Computational Biology