Regulation of Hox gene activity by transcriptional elongation in Drosophila.

PubWeight™: 1.55‹?› | Rank: Top 4%

🔗 View Article (PMC 2754200)

Published in Curr Biol on April 02, 2009

Authors

Vivek S Chopra1, Joung-Woo Hong, Michael Levine

Author Affiliations

1: Division of Genetics, Center for Integrative Genomics, University of California, Berkeley, Berkeley, CA 94720-3200, USA.

Articles citing this

Mechanisms of polycomb gene silencing: knowns and unknowns. Nat Rev Mol Cell Biol (2009) 9.29

Short RNAs are transcribed from repressed polycomb target genes and interact with polycomb repressive complex-2. Mol Cell (2010) 4.36

Pol II waiting in the starting gates: Regulating the transition from transcription initiation into productive elongation. Biochim Biophys Acta (2010) 2.86

Paused RNA polymerase II as a developmental checkpoint. Cell (2011) 2.61

The PAF complex synergizes with MLL fusion proteins at HOX loci to promote leukemogenesis. Cancer Cell (2010) 2.50

The pathogenesis of mixed-lineage leukemia. Annu Rev Pathol (2011) 1.95

Erk1/2 activity promotes chromatin features and RNAPII phosphorylation at developmental promoters in mouse ESCs. Cell (2014) 1.85

Modifications of RNA polymerase II are pivotal in regulating gene expression states. EMBO Rep (2009) 1.78

Polycomb preferentially targets stalled promoters of coding and noncoding transcripts. Genome Res (2010) 1.63

Stalled Hox promoters as chromosomal boundaries. Genes Dev (2009) 1.55

P-TEFb, the super elongation complex and mediator regulate a subset of non-paused genes during early Drosophila embryo development. PLoS Genet (2015) 1.45

Extensive polymerase pausing during Drosophila axis patterning enables high-level and pliable transcription. Genes Dev (2013) 1.43

MLL-AF9 and MLL-ENL alter the dynamic association of transcriptional regulators with genes critical for leukemia. Exp Hematol (2010) 1.35

Leukemia fusion target AF9 is an intrinsically disordered transcriptional regulator that recruits multiple partners via coupled folding and binding. Structure (2012) 1.18

Stm1 modulates translation after 80S formation in Saccharomyces cerevisiae. RNA (2011) 1.08

Molecular pathways of notch signaling in vascular smooth muscle cells. Front Physiol (2012) 1.07

Evolution of insect dorsoventral patterning mechanisms. Cold Spring Harb Symp Quant Biol (2009) 1.06

H3K27 modifications define segmental regulatory domains in the Drosophila bithorax complex. Elife (2014) 1.03

The polycomb group mutant esc leads to augmented levels of paused Pol II in the Drosophila embryo. Mol Cell (2011) 1.02

Transcriptional elongation checkpoint control in development and disease. Genes Dev (2013) 0.98

P-TEFb- the final frontier. Cell Div (2009) 0.98

Genome-wide analysis of the binding of the Hox protein Ultrabithorax and the Hox cofactor Homothorax in Drosophila. PLoS One (2011) 0.96

Lsh mediated RNA polymerase II stalling at HoxC6 and HoxC8 involves DNA methylation. PLoS One (2010) 0.95

Negative elongation factor-mediated suppression of RNA polymerase II elongation of Kaposi's sarcoma-associated herpesvirus lytic gene expression. J Virol (2012) 0.93

High-resolution mapping defines the cooperative architecture of Polycomb response elements. Genome Res (2014) 0.90

Transcriptional repression via antilooping in the Drosophila embryo. Proc Natl Acad Sci U S A (2012) 0.89

NELF potentiates gene transcription in the Drosophila embryo. PLoS One (2010) 0.89

PAFc, a key player in MLL-rearranged leukemogenesis. Oncotarget (2010) 0.89

The Drosophila 7SK snRNP and the essential role of dHEXIM in development. Nucleic Acids Res (2012) 0.88

MLLT1 YEATS domain mutations in clinically distinctive Favourable Histology Wilms tumours. Nat Commun (2015) 0.84

Repression of Hox genes by LMP1 in nasopharyngeal carcinoma and modulation of glycolytic pathway genes by HoxC8. Oncogene (2015) 0.83

Analysis of dynamic changes in retinoid-induced transcription and epigenetic profiles of murine Hox clusters in ES cells. Genome Res (2015) 0.80

Assembly of the Elongin A Ubiquitin Ligase Is Regulated by Genotoxic and Other Stresses. J Biol Chem (2015) 0.78

Stress from Nucleotide Depletion Activates the Transcriptional Regulator HEXIM1 to Suppress Melanoma. Mol Cell (2016) 0.78

The Bin3 RNA methyltransferase targets 7SK RNA to control transcription and translation. Wiley Interdiscip Rev RNA (2012) 0.77

Connecting the Dots: Interplay between Ubiquitylation and SUMOylation at DNA Double-Strand Breaks. Genes Cancer (2010) 0.77

Defective Hfp-dependent transcriptional repression of dMYC is fundamental to tissue overgrowth in Drosophila XPB models. Nat Commun (2015) 0.77

Maintenance of Tissue Pluripotency by Epigenetic Factors Acting at Multiple Levels. PLoS Genet (2016) 0.76

Pleiohomeotic interacts with the core transcription elongation factor Spt5 to regulate gene expression in Drosophila. PLoS One (2013) 0.75

Articles cited by this

Analysis of genetic mosaics in developing and adult Drosophila tissues. Development (1993) 13.43

Epigenetic regulation of cellular memory by the Polycomb and Trithorax group proteins. Annu Rev Genet (2004) 11.31

RNA polymerase is poised for activation across the genome. Nat Genet (2007) 9.57

RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat Genet (2007) 9.56

Breaking barriers to transcription elongation. Nat Rev Mol Cell Biol (2006) 8.18

The RNA polymerase II molecule at the 5' end of the uninduced hsp70 gene of D. melanogaster is transcriptionally engaged. Cell (1988) 7.23

Histone trimethylation and the maintenance of transcriptional ON and OFF states by trxG and PcG proteins. Genes Dev (2006) 5.03

Genetic organization of Drosophila bithorax complex. Nature (1985) 4.30

Postinitiation transcriptional control in Drosophila melanogaster. Mol Cell Biol (1990) 3.83

dMi-2, a hunchback-interacting protein that functions in polycomb repression. Science (1998) 3.48

Coordination of transcription, RNA processing, and surveillance by P-TEFb kinase on heat shock genes. Mol Cell (2004) 3.26

Growth-related changes in phosphorylation of yeast RNA polymerase II. J Biol Chem (1998) 3.24

Polycomb group proteins and heritable silencing of Drosophila Hox genes. Development (2001) 2.67

Transcription elongation controls cell fate specification in the Drosophila embryo. Genes Dev (2007) 2.08

Chromatin immunoprecipitation (ChIP) coupled to detection by quantitative real-time PCR to study transcription factor binding to DNA in Caenorhabditis elegans. Nat Protoc (2008) 1.89

Identification and characterization of a parasegment specific regulatory element of the abdominal-B gene of Drosophila. Cell (1986) 1.59

dELL is an essential RNA polymerase II elongation factor with a general role in development. Proc Natl Acad Sci U S A (2002) 1.34

Regulation of the transcriptional activity of poised RNA polymerase II by the elongation factor ELL. Proc Natl Acad Sci U S A (2008) 1.30

The bithorax complex: the first fifty years. Int J Dev Biol (1998) 0.98

Articles by these authors

The draft genome of Ciona intestinalis: insights into chordate and vertebrate origins. Science (2002) 11.11

RNA polymerase stalling at developmental control genes in the Drosophila melanogaster embryo. Nat Genet (2007) 9.56

Exploiting transcription factor binding site clustering to identify cis-regulatory modules involved in pattern formation in the Drosophila genome. Proc Natl Acad Sci U S A (2002) 8.56

Whole-genome ChIP-chip analysis of Dorsal, Twist, and Snail suggests integration of diverse patterning processes in the Drosophila embryo. Genes Dev (2007) 4.59

Whole-genome analysis of dorsal-ventral patterning in the Drosophila embryo. Cell (2002) 4.00

Synchronous and stochastic patterns of gene activation in the Drosophila embryo. Science (2009) 3.58

Genomic regulatory networks and animal development. Dev Cell (2005) 3.01

Characterization of the intergenic RNA profile at abdominal-A and Abdominal-B in the Drosophila bithorax complex. Proc Natl Acad Sci U S A (2002) 2.94

Regulatory blueprint for a chordate embryo. Science (2006) 2.67

Shadow enhancers foster robustness of Drosophila gastrulation. Curr Biol (2010) 2.63

Immunity regulatory DNAs share common organizational features in Drosophila. Mol Cell (2004) 2.58

A regulatory code for neurogenic gene expression in the Drosophila embryo. Development (2004) 2.41

Promoter elements associated with RNA Pol II stalling in the Drosophila embryo. Proc Natl Acad Sci U S A (2008) 2.25

miRTRAP, a computational method for the systematic identification of miRNAs from high throughput sequencing data. Genome Biol (2010) 2.18

Dorsal gradient networks in the Drosophila embryo. Dev Biol (2002) 2.18

Coordinate enhancers share common organizational features in the Drosophila genome. Proc Natl Acad Sci U S A (2004) 1.90

Multiple enhancers ensure precision of gap gene-expression patterns in the Drosophila embryo. Proc Natl Acad Sci U S A (2011) 1.80

Promoter-proximal tethering elements regulate enhancer-promoter specificity in the Drosophila Antennapedia complex. Proc Natl Acad Sci U S A (2002) 1.74

pyramus and thisbe: FGF genes that pattern the mesoderm of Drosophila embryos. Genes Dev (2004) 1.73

Ciona intestinalis: an emerging model for whole-genome analyses. Trends Genet (2003) 1.69

Quantitative analysis of binding motifs mediating diverse spatial readouts of the Dorsal gradient in the Drosophila embryo. Proc Natl Acad Sci U S A (2005) 1.67

Clusters of temporal discordances reveal distinct embryonic patterning mechanisms in Drosophila and anopheles. PLoS Biol (2011) 1.65

The snail repressor inhibits release, not elongation, of paused Pol II in the Drosophila embryo. Curr Biol (2011) 1.63

Stalled Hox promoters as chromosomal boundaries. Genes Dev (2009) 1.55

A simplified miRNA-based gene silencing method for Drosophila melanogaster. Dev Biol (2008) 1.54

Anti-inflammatory effects of crocin and crocetin in rat brain microglial cells. Eur J Pharmacol (2010) 1.40

Neural-specific elongation of 3' UTRs during Drosophila development. Proc Natl Acad Sci U S A (2011) 1.40

Mechanisms of transcriptional precision in animal development. Trends Genet (2012) 1.38

Genome-wide identification of tissue-specific enhancers in the Ciona tadpole. Proc Natl Acad Sci U S A (2002) 1.36

Evolutionary origins of the vertebrate heart: Specification of the cardiac lineage in Ciona intestinalis. Proc Natl Acad Sci U S A (2003) 1.34

The transcription/migration interface in heart precursors of Ciona intestinalis. Science (2008) 1.32

Early chordate origins of the vertebrate second heart field. Science (2010) 1.31

Identification of a rudimentary neural crest in a non-vertebrate chordate. Nature (2012) 1.30

Long-range enhancer-promoter interactions in the Scr-Antp interval of the Drosophila Antennapedia complex. Proc Natl Acad Sci U S A (2003) 1.30

Uncoupling heart cell specification and migration in the simple chordate Ciona intestinalis. Development (2005) 1.27

Decoding cis-regulatory DNAs in the Drosophila genome. Curr Opin Genet Dev (2002) 1.26

Coordinated regulation of cholinergic motor neuron traits through a conserved terminal selector gene. Nat Neurosci (2011) 1.26

Developmental and evolutionary basis for drought tolerance of the Anopheles gambiae embryo. Dev Biol (2009) 1.26

Localized repressors delineate the neurogenic ectoderm in the early Drosophila embryo. Dev Biol (2005) 1.23

Ventral dominance governs sequential patterns of gene expression across the dorsal-ventral axis of the neuroectoderm in the Drosophila embryo. Dev Biol (2003) 1.19

Whole-genome analysis of Drosophila gastrulation. Curr Opin Genet Dev (2004) 1.18

A genomewide survey of developmentally relevant genes in Ciona intestinalis. I. Genes for bHLH transcription factors. Dev Genes Evol (2003) 1.18

Linear signaling in the Toll-Dorsal pathway of Drosophila: activated Pelle kinase specifies all threshold outputs of gene expression while the bHLH protein Twist specifies a subset. Development (2002) 1.16

ELAV mediates 3' UTR extension in the Drosophila nervous system. Genes Dev (2012) 1.16

International EMS systems: The United States: past, present, and future. Resuscitation (2004) 1.14

Precision of hunchback expression in the Drosophila embryo. Curr Biol (2012) 1.14

Gene regulatory networks underlying the compartmentalization of the Ciona central nervous system. Development (2008) 1.12

A genomewide survey of developmentally relevant genes in Ciona intestinalis. II. Genes for homeobox transcription factors. Dev Genes Evol (2003) 1.11

Rapid transcription fosters coordinate snail expression in the Drosophila embryo. Cell Rep (2013) 1.10

Analysis of the Tribolium homeotic complex: insights into mechanisms constraining insect Hox clusters. Dev Genes Evol (2008) 1.09

The cardiovascular effects of cocaine. J Emerg Med (2005) 1.08

Electroporation of transgenic DNAs in the sea squirt Ciona. Cold Spring Harb Protoc (2009) 1.07

The Snail repressor positions Notch signaling in the Drosophila embryo. Development (2002) 1.06

Organization of developmental enhancers in the Drosophila embryo. Nucleic Acids Res (2009) 1.06

Acute Methylenedioxypyrovalerone Toxicity. J Med Toxicol (2015) 1.04

The polycomb group mutant esc leads to augmented levels of paused Pol II in the Drosophila embryo. Mol Cell (2011) 1.02

Neural tube patterning by Ephrin, FGF and Notch signaling relays. Development (2011) 1.02

The Drosophila gap gene network is composed of two parallel toggle switches. PLoS One (2011) 1.00

FGF signaling establishes the anterior border of the Ciona neural tube. Development (2012) 1.00

Evolving enhancer-promoter interactions within the tinman complex of the flour beetle, Tribolium castaneum. Development (2009) 0.99

Analyzing gene regulation in ascidian embryos: new tools for new perspectives. Differentiation (2002) 0.99

A genomewide survey of developmentally relevant genes in Ciona intestinalis. III. Genes for Fox, ETS, nuclear receptors and NFkappaB. Dev Genes Evol (2003) 0.98

Conservation patterns in different functional sequence categories of divergent Drosophila species. Genomics (2006) 0.97

Ethanol ingestion in two infants under 2 months old: a previously unreported cause of ALTE. Pediatrics (2013) 0.93

Vectors and parameters that enhance the efficacy of RNAi-mediated gene disruption in transgenic Drosophila. Proc Natl Acad Sci U S A (2010) 0.93

Spatio-temporal intersection of Lhx3 and Tbx6 defines the cardiac field through synergistic activation of Mesp. Dev Biol (2009) 0.92

Neuronal subtype specification in the spinal cord of a protovertebrate. Development (2011) 0.91

FGF3 in the floor plate directs notochord convergent extension in the Ciona tadpole. Development (2008) 0.91

Transcriptional repression via antilooping in the Drosophila embryo. Proc Natl Acad Sci U S A (2012) 0.89

Isolation of sea squirt (Ciona) gametes, fertilization, dechorionation, and development. Cold Spring Harb Protoc (2009) 0.89

Whole-mount in situ hybridization on sea squirt (Ciona intestinalis) embryos. Cold Spring Harb Protoc (2009) 0.89

CtBP-independent repression in the Drosophila embryo. Mol Cell Biol (2003) 0.89

Tail morphogenesis in the ascidian, Ciona intestinalis, requires cooperation between notochord and muscle. Dev Biol (2002) 0.89

Media effects of experimental presentation of the ideal physique on eating disorder symptoms: a meta-analysis of laboratory studies. Clin Psychol Rev (2012) 0.89

BMP signaling coordinates gene expression and cell migration during precardiac mesoderm development. Dev Biol (2009) 0.88

Mosaic and regulative development: two faces of one coin. Curr Biol (2006) 0.88

Unraveling genomic regulatory networks in the simple chordate, Ciona intestinalis. Genome Res (2005) 0.88

Time series analysis of human and bovine brucellosis in South Korea from 2005 to 2010. Prev Vet Med (2012) 0.88

Modified reperfusion and ischemia-reperfusion injury in human lung transplantation. J Thorac Cardiovasc Surg (2003) 0.86

Control of intercalation is cell-autonomous in the notochord of Ciona intestinalis. Dev Biol (2002) 0.86

Paeoniflorin, a monoterpene glycoside, attenuates lipopolysaccharide-induced neuronal injury and brain microglial inflammatory response. Biotechnol Lett (2013) 0.85

Liberalization of donor criteria in lung transplantation. Am Surg (2003) 0.84

p120RasGAP mediates ephrin/Eph-dependent attenuation of FGF/ERK signals during cell fate specification in ascidian embryos. Development (2013) 0.84

Butein is a novel anti-adipogenic compound. J Lipid Res (2013) 0.84

Whole-genome expression profiles identify gene batteries in Drosophila. Dev Cell (2002) 0.84

The sea squirt Ciona intestinalis. Cold Spring Harb Protoc (2009) 0.84

Indirubin-3'-oxime inhibits inflammatory activation of rat brain microglia. Neurosci Lett (2010) 0.84

Dichloromethane extracts of Sophora japonica L. stimulate osteoblast differentiation in mesenchymal stem cells. Nutr Res (2013) 0.83

Morphogen gradients: limits to signaling or limits to measurement? Curr Biol (2010) 0.82

Silk proteins stimulate osteoblast differentiation by suppressing the Notch signaling pathway in mesenchymal stem cells. Nutr Res (2012) 0.82

Case files of the medical toxicology fellowship at Banner Good Samaritan Medical Center in Phoenix, AZ: methemoglobinemia following dapsone exposure. J Med Toxicol (2011) 0.82

Microinjection of morpholino oligos and RNAs in sea squirt (Ciona) embryos. Cold Spring Harb Protoc (2009) 0.81

Meteorological influence on the occurrence of gastric dilatation-volvulus in military working dogs in Texas. Int J Biometeorol (2007) 0.81

Genistein mediates the anti-adipogenic actions of Sophora japonica L. extracts. J Med Food (2011) 0.81

Isolation of individual cells and tissues from electroporated sea squirt (Ciona) embryos by fluorescence-activated cell sorting (FACS). Cold Spring Harb Protoc (2009) 0.80

HOT DNAs: a novel class of developmental enhancers. Genes Dev (2012) 0.80

Toxicology in the ICU: Part 2: specific toxins. Chest (2011) 0.80

Diphenhydramine-induced Brugada pattern. Resuscitation (2010) 0.80