Altered promoter nucleosome positioning is an early event in gene silencing

Reconfiguration of nucleosome-depleted regions at distal regulatory elements accompanies DNA methylation of enhancers and insulators in cancer

(2014) Phillippa C. Taberlay et al.   GENOME RESEARCH

Genomic Aberrations Occurring in Subsets of Serrated Colorectal Lesions but not Conventional Adenomas

(2013) A. N. Burnett-Hartman et al.   CANCER RESEARCH

Establishing the clinical utility of epigenetic markers in cancer: many challenges ahead

(2013) Peter Zarzour et al.   Epigenomics

Regulation of a Mammalian Gene Bearing a CpG Island Promoter and a Distal Enhancer

(2013) Georgina Berrozpe et al.   Cell Reports

Reassembly of Nucleosomes at the MLH1 Promoter Initiates Resilencing Following Decitabine Exposure

(2013) Luke B. Hesson et al.   PLoS Genetics

Polycomb-Repressed Genes Have Permissive Enhancers that Initiate Reprogramming

(2011) Phillippa C. Taberlay et al.   CELL

Determinants of nucleosome organization in primary human cells

(2011) Anton Valouev et al.   NATURE

Transcriptionally repressed genes become aberrantly methylated and distinguish tumors of different lineages in breast cancer

(2011) D. Sproul et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

OCT4 establishes and maintains nucleosome-depleted regions that provide additional layers of epigenetic regulation of its target genes

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

Nucleosomes and the accessibility problem

(2011) Xin Wang et al.   TRENDS IN GENETICS

H2A.Z Maintenance during Mitosis Reveals Nucleosome Shifting on Mitotically Silenced Genes

(2010) Theresa K. Kelly et al.   MOLECULAR CELL

Simple Combinations of Lineage-Determining Transcription Factors Prime cis-Regulatory Elements Required for Macrophage and B Cell Identities

(2010) Sven Heinz et al.   MOLECULAR CELL

Hypomethylation of a LINE-1 Promoter Activates an Alternate Transcript of the MET Oncogene in Bladders with Cancer

(2010) Erika M. Wolff et al.   PLoS Genetics

A scaling normalization method for differential expression analysis of RNA-seq data

(2010) Mark D Robinson et al.   GENOME BIOLOGY

TopHat: discovering splice junctions with RNA-Seq

(2009) Cole Trapnell et al.   BIOINFORMATICS

Fast and accurate short read alignment with Burrows-Wheeler transform

(2009) H. Li et al.   BIOINFORMATICS

Nucleosome positioning and gene regulation: advances through genomics

(2009) Cizhong Jiang et al.   NATURE REVIEWS GENETICS

Dynamic Regulation of Nucleosome Positioning in the Human Genome

(2008) Dustin E. Schones et al.   CELL

Activator Control of Nucleosome Occupancy in Activation and Repression of Transcription

(2008) Gene O Bryant et al.   PLOS BIOLOGY