Genome-wide expression of non-coding RNA and global chromatin modification: Figure 1

A Rapid, Extensive, and Transient Transcriptional Response to Estrogen Signaling in Breast Cancer Cells

(2011) Nasun Hah et al.   CELL

Stable and dynamic nucleosome states during a meiotic developmental process

(2011) L. Zhang et al.   GENOME RESEARCH

A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression

(2011) Kevin C. Wang et al.   NATURE

Mapping and analysis of chromatin state dynamics in nine human cell types

(2011) Jason Ernst et al.   NATURE

Nascent transcript sequencing visualizes transcription at nucleotide resolution

(2011) L. Stirling Churchman et al.   NATURE

Reprogramming transcription by distinct classes of enhancers functionally defined by eRNA

(2011) Dong Wang et al.   NATURE

Genome-wide mapping of 5-hydroxymethylcytosine in embryonic stem cells

(2011) William A. Pastor et al.   NATURE

Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters

(2011) Tiffany Hung et al.   NATURE GENETICS

Genome-scale epigenetic reprogramming during epithelial-to-mesenchymal transition

(2011) Oliver G McDonald et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Role for piRNAs and Noncoding RNA in de Novo DNA Methylation of the Imprinted Mouse Rasgrf1 Locus

(2011) T. Watanabe et al.   SCIENCE

The long noncoding RNA RNCR2 directs mouse retinal cell specification.

(2010) Nicole A Rapicavoli et al.   BMC DEVELOPMENTAL BIOLOGY

Dicer-Independent Primal RNAs Trigger RNAi and Heterochromatin Formation

(2010) Mario Halic et al.   CELL

Long Noncoding RNAs with Enhancer-like Function in Human Cells

(2010) Ulf Andersson Ørom et al.   CELL

A Large Intergenic Noncoding RNA Induced by p53 Mediates Global Gene Repression in the p53 Response

(2010) Maite Huarte et al.   CELL

Histone H1 Poly[ADP]-Ribosylation Regulates the Chromatin Alterations Required for Learning Consolidation

(2010) A. Fontan-Lozano et al.   JOURNAL OF NEUROSCIENCE

DNA Methylation Increases Nucleosome Compaction and Rigidity

(2010) John S. Choy et al.   JOURNAL OF THE AMERICAN CHEMICAL SOCIETY

New class of gene-termini-associated human RNAs suggests a novel RNA copying mechanism

(2010) Philipp Kapranov et al.   NATURE

Widespread transcription at neuronal activity-regulated enhancers

(2010) Tae-Kyung Kim et al.   NATURE

Mediator and cohesin connect gene expression and chromatin architecture

(2010) Michael H. Kagey et al.   NATURE

A coding-independent function of gene and pseudogene mRNAs regulates tumour biology

(2010) Laura Poliseno et al.   NATURE

Ab initio reconstruction of cell type–specific transcriptomes in mouse reveals the conserved multi-exonic structure of lincRNAs

(2010) Mitchell Guttman et al.   NATURE BIOTECHNOLOGY

Transcriptional regulation by small RNAs at sequences downstream from 3′ gene termini

(2010) Xuan Yue et al.   Nature Chemical Biology

Large intergenic non-coding RNA-RoR modulates reprogramming of human induced pluripotent stem cells

(2010) Sabine Loewer et al.   NATURE GENETICS

Pol II and its associated epigenetic marks are present at Pol III–transcribed noncoding RNA genes

(2010) Artem Barski et al.   NATURE STRUCTURAL & MOLECULAR BIOLOGY

Long Noncoding RNA as Modular Scaffold of Histone Modification Complexes

(2010) M.-C. Tsai et al.   SCIENCE

The human Mediator complex: a versatile, genome-wide regulator of transcription

(2010) Dylan J. Taatjes   TRENDS IN BIOCHEMICAL SCIENCES

Widespread Antisense Transcription in Escherichia coli

(2010) J. E. Dornenburg et al.   mBio

A Large Fraction of Extragenic RNA Pol II Transcription Sites Overlap Enhancers

(2010) Francesca De Santa et al.   PLOS BIOLOGY

Promoter-specific transcriptional interference and c-myc gene silencing by siRNAs in human cells

(2009) Sara Napoli et al.   EMBO JOURNAL

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals

(2009) Mitchell Guttman et al.   NATURE

Human DNA methylomes at base resolution show widespread epigenomic differences

(2009) Ryan Lister et al.   NATURE

Targeted and genome-scale strategies reveal gene-body methylation signatures in human cells

(2009) Madeleine P Ball et al.   NATURE BIOTECHNOLOGY

Large histone H3 lysine 9 dimethylated chromatin blocks distinguish differentiated from embryonic stem cells

(2009) Bo Wen et al.   NATURE GENETICS

The impact of retrotransposons on human genome evolution

(2009) Richard Cordaux et al.   NATURE REVIEWS GENETICS

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression

(2009) Ahmad M. Khalil et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Global Analysis of Short RNAs Reveals Widespread Promoter-Proximal Stalling and Arrest of Pol II in Drosophila

(2009) S. Nechaev et al.   SCIENCE

Telomeres Acquire Distinct Heterochromatin Characteristics during siRNA-Induced RNA Interference in Mouse Cells

(2008) Cecilia Yuen Sze Ho et al.   CURRENT BIOLOGY

A natural antisense transcript regulates Zeb2/Sip1 gene expression during Snail1-induced epithelial-mesenchymal transition

(2008) M. Beltran et al.   GENES & DEVELOPMENT

Long noncoding RNAs in mouse embryonic stem cell pluripotency and differentiation

(2008) M. E. Dinger et al.   GENOME RESEARCH

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

(2008) Kouji Hirota et al.   NATURE

Epigenetic silencing of tumour suppressor gene p15 by its antisense RNA

(2008) Wenqiang Yu et al.   NATURE

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

(2008) Lars Guelen et al.   NATURE

Induced ncRNAs allosterically modify RNA-binding proteins in cis to inhibit transcription

(2008) Xiangting Wang et al.   NATURE

An intronic microRNA silences genes that are functionally antagonistic to its host gene

(2008) S. Barik   NUCLEIC ACIDS RESEARCH

MicroRNA-373 induces expression of genes with complementary promoter sequences

(2008) R. F. Place et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Divergent Transcription from Active Promoters

(2008) Amy C. Seila et al.   SCIENCE

The Air Noncoding RNA Epigenetically Silences Transcription by Targeting G9a to Chromatin

(2008) T. Nagano et al.   SCIENCE

Polycomb Proteins Targeted by a Short Repeat RNA to the Mouse X Chromosome

(2008) J. Zhao et al.   SCIENCE

Inputs and outputs for chromatin-targeted RNAi

(2008) Simon W-L. Chan   TRENDS IN PLANT SCIENCE

Bidirectional Transcription Directs Both Transcriptional Gene Activation and Suppression in Human Cells

(2008) Kevin V. Morris et al.   PLoS Genetics