Neighboring Genes Show Correlated Evolution in Gene Expression

Relating gene expression evolution with CpG content changes

(2014) Huan Yang et al.   BMC GENOMICS

Bidirectional promoters are the major source of gene activation-associated non-coding RNAs in mammals

(2014) Masahiro Uesaka et al.   BMC GENOMICS

Rapid Evolution of the Cerebellum in Humans and Other Great Apes

(2014) Robert A. Barton et al.   CURRENT BIOLOGY

Functional and topological characteristics of mammalian regulatory domains

(2014) O. Symmons et al.   GENOME RESEARCH

The impact of chromosomal rearrangements on regulation of gene expression

(2014) L. Harewood et al.   HUMAN MOLECULAR GENETICS

Domains of genome-wide gene expression dysregulation in Down’s syndrome

(2014) Audrey Letourneau et al.   NATURE

A promoter-level mammalian expression atlas

(2014)   NATURE

Whole-genome analysis of 5-hydroxymethylcytosine and 5-methylcytosine at base resolution in the human brain

(2014) Lu Wen et al.   GENOME BIOLOGY

Spinning the Web of Cell Fate

(2013) Kevin Van Bortle et al.   CELL

Dynamic Readers for 5-(Hydroxy)Methylcytosine and Its Oxidized Derivatives

(2013) Cornelia G. Spruijt et al.   CELL

Gene clustering in plant specialized metabolism

(2013) Hans-Wilhelm Nützmann et al.   CURRENT OPINION IN BIOTECHNOLOGY

Ensembl 2014

(2013) Paul Flicek et al.   NUCLEIC ACIDS RESEARCH

Alteration of genic 5-hydroxymethylcytosine patterning in olfactory neurons correlates with changes in gene expression and cell identity

(2013) Bradley M. Colquitt et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

MeCP2 Binds to 5hmC Enriched within Active Genes and Accessible Chromatin in the Nervous System

(2012) Marian Mellén et al.   CELL

Nucleosome Organization Affects the Sensitivity of Gene Expression to Promoter Mutations

(2012) Gil Hornung et al.   MOLECULAR CELL

An integrated encyclopedia of DNA elements in the human genome

(2012)   NATURE

Architecture of the human regulatory network derived from ENCODE data

(2012) Mark B. Gerstein et al.   NATURE

Inflammasomes in carcinogenesis and anticancer immune responses

(2012) Laurence Zitvogel et al.   NATURE IMMUNOLOGY

Regional Astrocyte Allocation Regulates CNS Synaptogenesis and Repair

(2012) H.-H. Tsai et al.   SCIENCE

Human-Specific Histone Methylation Signatures at Transcription Start Sites in Prefrontal Neurons

(2012) Hennady P. Shulha et al.   PLOS BIOLOGY

Promoter Nucleosome Organization Shapes the Evolution of Gene Expression

(2012) Dalia Rosin et al.   PLoS Genetics

Advances in DNA methylation: 5-hydroxymethylcytosine revisited

(2011) Christina Dahl et al.   CLINICA CHIMICA ACTA

Evolution of Promoter Affinity for Transcription Factors in the Human Lineage

(2011) I. Molineris et al.   MOLECULAR BIOLOGY AND EVOLUTION

The evolution of gene expression levels in mammalian organs

(2011) David Brawand et al.   NATURE

ENCODE whole-genome data in the UCSC Genome Browser: update 2012

(2011) K. R. Rosenbloom et al.   NUCLEIC ACIDS RESEARCH

Gene clustering pattern, promoter architecture, and gene expression stability in eukaryotic genomes

(2011) Y. H. Woo et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Functional consequences of bidirectional promoters

(2011) Wu Wei et al.   TRENDS IN GENETICS

Support for multiple classes of local expression clusters in Drosophila melanogaster, but no evidence for gene order conservation

(2011) Claudia C Weber et al.   GENOME BIOLOGY

BEDTools: a flexible suite of utilities for comparing genomic features

(2010) Aaron R. Quinlan et al.   BIOINFORMATICS

Molecular Maps of the Reorganization of Genome-Nuclear Lamina Interactions during Differentiation

(2010) Daan Peric-Hupkes et al.   MOLECULAR CELL

Analysis of Gene Order Conservation in Eukaryotes Identifies Transcriptionally and Functionally Linked Genes

(2010) Marcela Dávila López et al.   PLoS One

GOrilla: a tool for discovery and visualization of enriched GO terms in ranked gene lists

(2009) Eran Eden et al.   BMC BIOINFORMATICS

Coexpression of Linked Genes in Mammalian Genomes Is Generally Disadvantageous

(2008) B.-Y. Liao et al.   MOLECULAR BIOLOGY AND EVOLUTION

Evolution of Closely Linked Gene Pairs in Vertebrate Genomes

(2008) E. Franck et al.   MOLECULAR BIOLOGY AND EVOLUTION

Domain organization of human chromosomes revealed by mapping of nuclear lamina interactions

(2008) Lars Guelen et al.   NATURE

Transcriptional repression mediated by repositioning of genes to the nuclear lamina

(2008) K. L. Reddy et al.   NATURE

Ripples from neighbouring transcription

(2008) Miki Ebisuya et al.   NATURE CELL BIOLOGY

Transcriptional regulation constrains the organization of genes on eukaryotic chromosomes

(2008) S. C. Janga et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Coexpression, coregulation, and cofunctionality of neighboring genes in eukaryotic genomes

(2007) Pawel Michalak   GENOMICS