Long non-coding RNAs and enhancers.

Braveheart, a long noncoding RNA required for cardiovascular lineage commitment. Cell (2013) 3.35

Analysis of nascent RNA identifies a unified architecture of initiation regions at mammalian promoters and enhancers. Nat Genet (2014) 2.58

Two-step epigenetic Mendelian randomization: a strategy for establishing the causal role of epigenetic processes in pathways to disease. Int J Epidemiol (2012) 2.12

LincRNA-p21 activates p21 in cis to promote Polycomb target gene expression and to enforce the G1/S checkpoint. Mol Cell (2014) 1.79

Antisense long noncoding RNAs regulate var gene activation in the malaria parasite Plasmodium falciparum. Proc Natl Acad Sci U S A (2015) 1.58

Comprehensive analysis of long non-coding RNAs in human breast cancer clinical subtypes. Oncotarget (2014) 1.34

Long non-coding RNAs: versatile master regulators of gene expression and crucial players in cancer. Am J Transl Res (2012) 1.33

Mtr4-like protein coordinates nuclear RNA processing for heterochromatin assembly and for telomere maintenance. Cell (2013) 1.19

Noncoding RNAs and enhancers: complications of a long-distance relationship. Trends Genet (2011) 1.13

Long noncoding RNAs-related diseases, cancers, and drugs. ScientificWorldJournal (2013) 1.07

Long noncoding RNA MRUL promotes ABCB1 expression in multidrug-resistant gastric cancer cell sublines. Mol Cell Biol (2014) 1.07

Non-coding RNAs: multi-tasking molecules in the cell. Int J Mol Sci (2013) 1.07

Enhancers and silencers: an integrated and simple model for their function. Epigenetics Chromatin (2012) 1.05

Mechanisms of long noncoding RNA function in development and disease. Cell Mol Life Sci (2016) 1.04

A statistical model of ChIA-PET data for accurate detection of chromatin 3D interactions. Nucleic Acids Res (2014) 1.04

RNA splicing control: yet another gene regulatory role for long nuclear noncoding RNAs. RNA Biol (2011) 1.03

Identification of biologically relevant enhancers in human erythroid cells. J Biol Chem (2013) 1.03

Inflammation-sensitive super enhancers form domains of coordinately regulated enhancer RNAs. Proc Natl Acad Sci U S A (2015) 1.01

Long non-coding RNAs and chromatin modifiers: their place in the epigenetic code. Epigenetics (2013) 0.99

Hormone-regulated transcriptomes: lessons learned from estrogen signaling pathways in breast cancer cells. Mol Cell Endocrinol (2013) 0.99

Trim24-repressed VL30 retrotransposons regulate gene expression by producing noncoding RNA. Nat Struct Mol Biol (2013) 0.99

Genetic and epigenetic regulation of human lincRNA gene expression. Am J Hum Genet (2013) 0.97

Human genetics and genomics a decade after the release of the draft sequence of the human genome. Hum Genomics (2011) 0.95

Global transcriptome analysis and enhancer landscape of human primary T follicular helper and T effector lymphocytes. Blood (2014) 0.95

Differential lncRNA expression profiles in recurrent gliomas compared with primary gliomas identified by microarray analysis. Int J Clin Exp Med (2015) 0.95

RIPSeeker: a statistical package for identifying protein-associated transcripts from RIP-seq experiments. Nucleic Acids Res (2013) 0.93

Computational identification of active enhancers in model organisms. Genomics Proteomics Bioinformatics (2013) 0.92

Terminate and make a loop: regulation of transcriptional directionality. Trends Biochem Sci (2014) 0.91

Regulatory mechanisms of long noncoding RNAs in vertebrate central nervous system development and function. Neuroscience (2013) 0.89

Fine-mapping of 5q12.1-13.3 unveils new genetic contributors to caries. Caries Res (2013) 0.88

Enhancers compete with a long non-coding RNA for regulation of the Kcnq1 domain. Nucleic Acids Res (2014) 0.87

Mutation of Rubie, a novel long non-coding RNA located upstream of Bmp4, causes vestibular malformation in mice. PLoS One (2012) 0.83

Current status of long non-coding RNAs in human cancer with specific focus on colorectal cancer. Int J Mol Sci (2014) 0.82

Identification of an enhancer that increases miR-200b~200a~429 gene expression in breast cancer cells. PLoS One (2013) 0.82

Transcription control by long non-coding RNAs. Transcription (2012) 0.80

MicroRNAs and Drug Addiction. Front Genet (2013) 0.80

Methamphetamine induces alterations in the long non-coding RNAs expression profile in the nucleus accumbens of the mouse. BMC Neurosci (2015) 0.79

Expression and regulation of long noncoding RNAs in TLR4 signaling in mouse macrophages. BMC Genomics (2015) 0.78

The long reach of noncoding RNAs. Nat Genet (2011) 0.78

Transcriptional silencing of long noncoding RNA GNG12-AS1 uncouples its transcriptional and product-related functions. Nat Commun (2016) 0.78

Neocortical development as an evolutionary platform for intragenomic conflict. Front Neuroanat (2013) 0.78

A catalogue of novel bovine long noncoding RNA across 18 tissues. PLoS One (2015) 0.77

Non coding RNAs and viruses in the framework of the phylogeny of the genes, epigenesis and heredity. Int J Mol Sci (2012) 0.76

Noncoding RNA as regulators of cardiac fibrosis: current insight and the road ahead. Pflugers Arch (2016) 0.76

Vernalization-Triggered Intragenic Chromatin Loop Formation by Long Noncoding RNAs. Dev Cell (2017) 0.75

The yeast histone chaperone hif1p functions with RNA in nucleosome assembly. PLoS One (2014) 0.75

Seeking sense of antisense switch transcripts. Transcription (2011) 0.75

Downregulation of Lnc-Spry1 mediates TGF-β-induced epithelial-mesenchymal transition by transcriptional and posttranscriptional regulatory mechanisms. Cell Death Differ (2017) 0.75

A Novel Gonadotropin-Releasing Hormone 1 (Gnrh1) Enhancer-Derived Noncoding RNA Regulates Gnrh1 Gene Expression in GnRH Neuronal Cell Models. PLoS One (2016) 0.75

Analyses of germline variants associated with ovarian cancer survival identify functional candidates at the 1q22 and 19p12 outcome loci. Oncotarget (2017) 0.75

Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project. Nature (2007) 75.09

Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature (2009) 35.48

Distinct and predictive chromatin signatures of transcriptional promoters and enhancers in the human genome. Nat Genet (2007) 32.41

Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs. Cell (2007) 30.22

Histone modifications at human enhancers reflect global cell-type-specific gene expression. Nature (2009) 24.41

Capturing chromosome conformation. Science (2002) 23.93

Many human large intergenic noncoding RNAs associate with chromatin-modifying complexes and affect gene expression. Proc Natl Acad Sci U S A (2009) 20.66

RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science (2007) 18.59

ChIP-seq accurately predicts tissue-specific activity of enhancers. Nature (2009) 18.38

Evolution and functions of long noncoding RNAs. Cell (2009) 17.54

Transcriptional maps of 10 human chromosomes at 5-nucleotide resolution. Science (2005) 16.82

Widespread transcription at neuronal activity-regulated enhancers. Nature (2010) 16.52

Nascent RNA sequencing reveals widespread pausing and divergent initiation at human promoters. Science (2008) 16.48

GENCODE: producing a reference annotation for ENCODE. Genome Biol (2006) 15.08

Mediator and cohesin connect gene expression and chromatin architecture. Nature (2010) 14.34

Long noncoding RNAs with enhancer-like function in human cells. Cell (2010) 13.00

Divergent transcription from active promoters. Science (2008) 11.03

Analyses of deep mammalian sequence alignments and constraint predictions for 1% of the human genome. Genome Res (2007) 7.05

RNA exosome depletion reveals transcription upstream of active human promoters. Science (2008) 6.80

The genetic signatures of noncoding RNAs. PLoS Genet (2009) 6.72

A large fraction of extragenic RNA pol II transcription sites overlap enhancers. PLoS Biol (2010) 6.01

Nucleosome dynamics define transcriptional enhancers. Nat Genet (2010) 5.94

The landscape of histone modifications across 1% of the human genome in five human cell lines. Genome Res (2007) 5.67

The Evf-2 noncoding RNA is transcribed from the Dlx-5/6 ultraconserved region and functions as a Dlx-2 transcriptional coactivator. Genes Dev (2006) 4.94

Ripples from neighbouring transcription. Nat Cell Biol (2008) 3.87

Genomic and transcriptional co-localization of protein-coding and long non-coding RNA pairs in the developing brain. PLoS Genet (2009) 3.38

The long noncoding RNA, Jpx, is a molecular switch for X chromosome inactivation. Cell (2010) 3.18

Catalogues of mammalian long noncoding RNAs: modest conservation and incompleteness. Genome Biol (2009) 2.70

Enhancers: the abundance and function of regulatory sequences beyond promoters. Dev Biol (2009) 2.50

Long noncoding RNA genes: conservation of sequence and brain expression among diverse amniotes. Genome Biol (2010) 2.20

HS2 enhancer function is blocked by a transcriptional terminator inserted between the enhancer and the promoter. J Biol Chem (2004) 2.01

The LPS-induced transcriptional upregulation of the chicken lysozyme locus involves CTCF eviction and noncoding RNA transcription. Mol Cell (2008) 1.81

Regulation of imprinting in clusters: noncoding RNAs versus insulators. Adv Genet (2008) 1.73

Transcription of the HS2 enhancer toward a cis-linked gene is independent of the orientation, position, and distance of the enhancer relative to the gene. Mol Cell Biol (1997) 1.62

Transcription factors mediate long-range enhancer-promoter interactions. Proc Natl Acad Sci U S A (2009) 1.51

Functional tests of enhancer conservation between distantly related species. Development (2003) 1.46

The HS2 enhancer of the beta-globin locus control region initiates synthesis of non-coding, polyadenylated RNAs independent of a cis-linked globin promoter. J Mol Biol (2005) 1.23

Regionalization within the mammalian telencephalon is mediated by changes in responsiveness to Sonic Hedgehog. Development (1998) 1.18

Transcriptional regulation of the SCL locus: identification of an enhancer that targets the primitive erythroid lineage in vivo. Mol Cell Biol (2005) 1.16

Identification and characterization of a novel transcript down-regulated in Dlx1/Dlx2 and up-regulated in Pax6 mutant telencephalon. Dev Dyn (2004) 1.01

Developmental regulation of EVF-1, a novel non-coding RNA transcribed upstream of the mouse Dlx6 gene. Gene Expr Patterns (2004) 0.99

Genomic approaches uncover increasing complexities in the regulatory landscape at the human SCL (TAL1) locus. PLoS One (2010) 0.99

The Microprocessor complex mediates the genesis of microRNAs. Nature (2004) 17.70

The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression. Genome Res (2012) 15.41

TRBP recruits the Dicer complex to Ago2 for microRNA processing and gene silencing. Nature (2005) 13.44

Long noncoding RNAs with enhancer-like function in human cells. Cell (2010) 13.00

Human RISC couples microRNA biogenesis and posttranscriptional gene silencing. Cell (2005) 9.27

Modulation of microRNA processing and expression through RNA editing by ADAR deaminases. Nat Struct Mol Biol (2005) 7.49

Demethylation of H3K27 regulates polycomb recruitment and H2A ubiquitination. Science (2007) 7.41

An essential role for CoREST in nucleosomal histone 3 lysine 4 demethylation. Nature (2005) 5.89

New nomenclature for chromatin-modifying enzymes. Cell (2007) 5.34

p53 is regulated by the lysine demethylase LSD1. Nature (2007) 4.53

MicroRNA biogenesis and cancer. Cancer Res (2005) 4.41

MicroRNA silencing through RISC recruitment of eIF6. Nature (2007) 4.37

An operational definition of epigenetics. Genes Dev (2009) 4.26

Activating RNAs associate with Mediator to enhance chromatin architecture and transcription. Nature (2013) 3.98

Retracted A TARBP2 mutation in human cancer impairs microRNA processing and DICER1 function. Nat Genet (2009) 3.88

Integrator, a multiprotein mediator of small nuclear RNA processing, associates with the C-terminal repeat of RNA polymerase II. Cell (2005) 3.66

RNA editing of the microRNA-151 precursor blocks cleavage by the Dicer-TRBP complex. EMBO Rep (2007) 3.40

Histone H3 lysine 4 demethylation is a target of nonselective antidepressive medications. Chem Biol (2006) 3.15

Regulation of BRCC, a holoenzyme complex containing BRCA1 and BRCA2, by a signalosome-like subunit and its role in DNA repair. Mol Cell (2003) 2.90

A core-BRAF35 complex containing histone deacetylase mediates repression of neuronal-specific genes. Proc Natl Acad Sci U S A (2002) 2.78

A chromatin remodelling complex that loads cohesin onto human chromosomes. Nature (2002) 2.53

Physical and functional association of a trimethyl H3K4 demethylase and Ring6a/MBLR, a polycomb-like protein. Cell (2007) 2.29

Functional interplay between histone demethylase and deacetylase enzymes. Mol Cell Biol (2006) 2.20

The trithorax-group gene in Drosophila little imaginal discs encodes a trimethylated histone H3 Lys4 demethylase. Nat Struct Mol Biol (2007) 2.05

A novel transcription regulatory complex containing death domain-associated protein and the ATR-X syndrome protein. J Biol Chem (2004) 1.98

Requirement of dimerization for RNA editing activity of adenosine deaminases acting on RNA. J Biol Chem (2003) 1.93

The human Nup107-160 nuclear pore subcomplex contributes to proper kinetochore functions. EMBO J (2007) 1.92

Drosophila UTX is a histone H3 Lys27 demethylase that colocalizes with the elongating form of RNA polymerase II. Mol Cell Biol (2007) 1.89

Isolation of human NURF: a regulator of Engrailed gene expression. EMBO J (2003) 1.80

Structural basis for ubiquitin recognition by the Otu1 ovarian tumor domain protein. J Biol Chem (2008) 1.75

Activation of BRCA1/BRCA2-associated helicase BACH1 is required for timely progression through S phase. Mol Cell Biol (2007) 1.72

MicroRNA biogenesis: isolation and characterization of the microprocessor complex. Methods Mol Biol (2006) 1.69

A candidate X-linked mental retardation gene is a component of a new family of histone deacetylase-containing complexes. J Biol Chem (2002) 1.67

Long noncoding RNAs usher in a new era in the biology of enhancers. Cell (2013) 1.58

Functional dissection of the human TNRC6 (GW182-related) family of proteins. Mol Cell Biol (2009) 1.49

Structure and function of the SWIRM domain, a conserved protein module found in chromatin regulatory complexes. Proc Natl Acad Sci U S A (2006) 1.44

Regulation of transcription by long noncoding RNAs. Annu Rev Genet (2014) 1.43

Cell cycle regulation of chromatin at an origin of DNA replication. EMBO J (2005) 1.40

CECR2, a protein involved in neurulation, forms a novel chromatin remodeling complex with SNF2L. Hum Mol Genet (2005) 1.35

Huntington's disease protein contributes to RNA-mediated gene silencing through association with Argonaute and P bodies. Proc Natl Acad Sci U S A (2008) 1.35

Histone H3 K4 demethylation during activation and attenuation of GAL1 transcription in Saccharomyces cerevisiae. Mol Cell Biol (2007) 1.26

PHF8 targets histone methylation and RNA polymerase II to activate transcription. Mol Cell Biol (2010) 1.25

Functional analysis of Hes-1 in preadipocytes. Mol Endocrinol (2005) 1.21

Recruitment of MLL by HMG-domain protein iBRAF promotes neural differentiation. Nat Cell Biol (2005) 1.15

Jarid2 regulates mouse epidermal stem cell activation and differentiation. EMBO J (2011) 1.14

Noncoding RNAs and enhancers: complications of a long-distance relationship. Trends Genet (2011) 1.13

Polycomb repressive complex 2-dependent and -independent functions of Jarid2 in transcriptional regulation in Drosophila. Mol Cell Biol (2012) 1.10

Linking transcriptional elongation and messenger RNA export to metastatic breast cancers. Cancer Res (2005) 1.09

Human GTPases associate with RNA polymerase II to mediate its nuclear import. Mol Cell Biol (2011) 1.05

Plant homeodomain fingers form a helping hand for transcription. Epigenetics (2011) 0.96

A tissue-specific, naturally occurring human SNF2L variant inactivates chromatin remodeling. J Biol Chem (2004) 0.95

Analysis of Nedd8-associated polypeptides: a model for deciphering the pathway for ubiquitin-like modifications. Biochemistry (2006) 0.89

Chromatin modifiers and carcinogenesis. Trends Cell Biol (2004) 0.88

Fission yeast homologs of human histone H3 lysine 4 demethylase regulate a common set of genes with diverse functions. J Biol Chem (2006) 0.88

The many faces of long noncoding RNAs. FEBS J (2014) 0.87

Requirement for SNAPC1 in transcriptional responsiveness to diverse extracellular signals. Mol Cell Biol (2012) 0.84

Genome-wide analysis reveals a role for BRCA1 and PALB2 in transcriptional co-activation. EMBO J (2014) 0.83

Isolation and characterization of histone H3 lysine 4 demethylase-containing complexes. Methods (2006) 0.81

The motor protein kinesin-1 links neurofibromin and merlin in a common cellular pathway of neurofibromatosis. J Biol Chem (2002) 0.81

PINTing for p53. Genome Biol (2013) 0.78

Preparation and assays for mammalian ISWI complexes. Methods Enzymol (2004) 0.78

Thrilling transcription through threonine phosphorylation. Nat Cell Biol (2008) 0.77

Retraction: A TARBP2 mutation in human cancer impairs microRNA processing and DICER1 function. Nat Genet (2016) 0.75