Chromatin Organization in Sperm May Be the Major Functional Consequence of Base Composition Variation in the Human Genome

Paternally Induced Transgenerational Environmental Reprogramming of Metabolic Gene Expression in Mammals

(2010) Benjamin R. Carone et al.   CELL

Epigenetic reprogramming — taking a lesson from the embryo

(2010) Petra Hajkova   CURRENT OPINION IN CELL BIOLOGY

p53 binds preferentially to genomic regions with high DNA-encoded nucleosome occupancy

(2010) E. Lidor Nili et al.   GENOME RESEARCH

CpG islands influence chromatin structure via the CpG-binding protein Cfp1

(2010) John P. Thomson et al.   NATURE

Relationship between nucleosome positioning and DNA methylation

(2010) Ramakrishna K. Chodavarapu et al.   NATURE

Chronic high-fat diet in fathers programs β-cell dysfunction in female rat offspring

(2010) Sheau-Fang Ng et al.   NATURE

Repressive and active histone methylation mark distinct promoters in human and mouse spermatozoa

(2010) Urszula Brykczynska et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

High Nucleosome Occupancy Is Encoded at Human Regulatory Sequences

(2010) Desiree Tillo et al.   PLoS One

G+C content dominates intrinsic nucleosome occupancy

(2009) Desiree Tillo et al.   BMC BIOINFORMATICS

A Unifying Model for the Selective Regulation of Inducible Transcription by CpG Islands and Nucleosome Remodeling

(2009) Vladimir R. Ramirez-Carrozzi et al.   CELL

High-resolution nucleosome mapping reveals transcription-dependent promoter packaging

(2009) A. Weiner et al.   GENOME RESEARCH

Endonuclease-sensitive regions of human spermatozoal chromatin are highly enriched in promoter and CTCF binding sequences

(2009) A. Arpanahi et al.   GENOME RESEARCH

Function of sperm chromatin structural elements in fertilization and development

(2009) W. S. Ward   MOLECULAR HUMAN REPRODUCTION

Developmental programming of CpG island methylation profiles in the human genome

(2009) Ravid Straussman et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

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

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

The UCSC Genome Browser database: update 2010

(2009) B. Rhead et al.   NUCLEIC ACIDS RESEARCH

An Abundance of Ubiquitously Expressed Genes Revealed by Tissue Transcriptome Sequence Data

(2009) Daniel Ramsköld et al.   PLoS Computational Biology

Transgenerational Epigenetic Effects

(2008) Neil A. Youngson et al.   Annual Review of Genomics and Human Genetics

Empirical methods for controlling false positives and estimating confidence in ChIP-Seq peaks

(2008) David A Nix et al.   BMC BIOINFORMATICS

Sperm-derived histones contribute to zygotic chromatin in humans

(2008) Godfried W van der Heijden et al.   BMC DEVELOPMENTAL BIOLOGY

Dynamic Regulation of Nucleosome Positioning in the Human Genome

(2008) Dustin E. Schones et al.   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

Sequence-dependent Nucleosome Positioning

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

Lineage-Specific Polycomb Targets and De Novo DNA Methylation Define Restriction and Potential of Neuronal Progenitors

(2008) Fabio Mohn et al.   MOLECULAR CELL

Alternative isoform regulation in human tissue transcriptomes

(2008) Eric T. Wang et al.   NATURE

Chromatin dynamics during epigenetic reprogramming in the mouse germ line

(2008) Petra Hajkova et al.   NATURE

The DNA-encoded nucleosome organization of a eukaryotic genome

(2008) Noam Kaplan et al.   NATURE

PRC1 and Suv39h specify parental asymmetry at constitutive heterochromatin in early mouse embryos

(2008) Mareike Puschendorf et al.   NATURE GENETICS

Mapping and quantifying mammalian transcriptomes by RNA-Seq

(2008) Ali Mortazavi et al.   NATURE METHODS

Substantial biases in ultra-short read data sets from high-throughput DNA sequencing

(2008) J. C. Dohm et al.   NUCLEIC ACIDS RESEARCH

Ensembl 2009

(2008) T. J. P. Hubbard et al.   NUCLEIC ACIDS RESEARCH

NCBI GEO: archive for high-throughput functional genomic data

(2008) T. Barrett et al.   NUCLEIC ACIDS RESEARCH

Distinct Modes of Regulation by Chromatin Encoded through Nucleosome Positioning Signals

(2008) Yair Field et al.   PLoS Computational Biology