(Q83081676)

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From bacteria to humans, chromatin to elongation, and activation to repression: The expanding roles of noncoding RNAs in regulating transcription

scientific article published on 01 January 2009

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scholarly article

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19 January 2020

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From bacteria to humans, chromatin to elongation, and activation to repression: The expanding roles of noncoding RNAs in regulating transcription (English)

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19 January 2020

author name string

James A Goodrich

1

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19 January 2020

Jennifer F Kugel

2

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19 January 2020

publication date

1 January 2009

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19 January 2020

Critical Reviews in Biochemistry and Molecular Biology

1 reference

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19 January 2020

44

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19 January 2020

3-15

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19 January 2020

1

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19 January 2020

RNA maps reveal new RNA classes and a possible function for pervasive transcription

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Target identification of small noncoding RNAs in bacteria

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A chromatin landmark and transcription initiation at most promoters in human cells

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Acetylation of histones and transcription-related factors

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Heterochromatin and epigenetic control of gene expression

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Initiation of dosage compensation in Drosophila embryos depends on expression of the roX RNAs.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Gene silencing of the p15/INK4B cell-cycle inhibitor by hypermethylation: an early or later epigenetic alteration in myelodysplastic syndromes?

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genomic imprinting: intricacies of epigenetic regulation in clusters.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Inhibition of P-TEFb (CDK9/Cyclin T) kinase and RNA polymerase II transcription by the coordinated actions of HEXIM1 and 7SK snRNA

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Regulation of RNA polymerase II transcription by sequence-specific DNA binding factors

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Binding of the 7SK snRNA turns the HEXIM1 protein into a P-TEFb (CDK9/cyclin T) inhibitor

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Regulation of nuclear receptor activity by a pseudouridine synthase through posttranscriptional modification of steroid receptor RNA activator

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

B2 RNA binds directly to RNA polymerase II to repress transcript synthesis

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The SINE-encoded mouse B2 RNA represses mRNA transcription in response to heat shock

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

On mechanisms that control heat shock transcription factor activity in metazoan cells

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Novel transcripts from the Ultrabithorax domain of the bithorax complex.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Deletions of the cyclin-dependent kinase-4 inhibitor gene in multiple human cancers

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Cell stress and translational inhibitors transiently increase the abundance of mammalian SINE transcripts

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Comparing transcriptional initiation by RNA polymerases I and III.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Long-range cis effects of ectopic X-inactivation centres on a mouse autosome

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Regulation of the heat shock transcriptional response: cross talk between a family of heat shock factors, molecular chaperones, and negative regulators

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Tsix, a gene antisense to Xist at the X-inactivation centre

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A steroid receptor coactivator, SRA, functions as an RNA and is present in an SRC-1 complex

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Enhancer competition between H19 and Igf2 does not mediate their imprinting

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A highly conserved 6S RNA structure is required for regulation of transcription

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The role of the RNAi machinery in heterochromatin formation

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Antisense transcription in the mammalian transcriptome

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The severity of roX1 mutations is predicted by MSL localization on the X chromosome

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The silence of the ribosomal RNA genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Sigma and RNA polymerase: an on-again, off-again relationship?

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Noncoding RNAs of trithorax response elements recruit Drosophila Ash1 to Ultrabithorax

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RNA-mediated response to heat shock in mammalian cells

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Intergenic transcripts regulate the epigenetic state of rRNA genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Elongation of the Kcnq1ot1 transcript is required for genomic imprinting of neighboring genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The Evf-2 noncoding RNA is transcribed from the Dlx-5/6 ultraconserved region and functions as a Dlx-2 transcriptional coactivator

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Chromatin modifications by methylation and ubiquitination: implications in the regulation of gene expression

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

SLIRP, a small SRA binding protein, is a nuclear receptor corepressor.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A role for the catalytic ribonucleoprotein RNase P in RNA polymerase III transcription

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Dosage compensation in mammals: fine-tuning the expression of the X chromosome

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The general transcription machinery and general cofactors

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Nucleosome displacement in transcription

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Controlling the elongation phase of transcription with P-TEFb

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Non-coding RNA in fly dosage compensation

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The RNA helicases p68/p72 and the noncoding RNA SRA are coregulators of MyoD and skeletal muscle differentiation

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Synthesis-mediated release of a small RNA inhibitor of RNA polymerase.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Transcription of bxd noncoding RNAs promoted by trithorax represses Ubx in cis by transcriptional interference

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Eukaryotic regulatory RNAs: an answer to the 'genome complexity' conundrum

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Noncoding RNA synthesis and loss of Polycomb group repression accompanies the colinear activation of the human HOXA cluster

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Repression of the human dihydrofolate reductase gene by a non-coding interfering transcript

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Pus3p- and Pus1p-dependent pseudouridylation of steroid receptor RNA activator controls a functional switch that regulates nuclear receptor signaling

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Characterization of the structure, function, and mechanism of B2 RNA, an ncRNA repressor of RNA polymerase II transcription

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Noncoding RNA transcription beyond annotated genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Studies on the function of the riboregulator 6S RNA from E. coli: RNA polymerase binding, inhibition of in vitro transcription and synthesis of RNA-directed de novo transcripts

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Genome-wide transcription and the implications for genomic organization

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Silencing by imprinted noncoding RNAs: is transcription the answer?

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Raising the estimate of functional human sequences

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Non-coding transcripts in the H19 imprinting control region mediate gene silencing in transgenic Drosophila

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Two distinct mechanisms of silencing by the KvDMR1 imprinting control region

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Epigenetic silencing of tumour suppressor gene p15 by its antisense RNA

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

How does noncoding transcription regulate Hox genes?

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Non-coding RNAs in imprinted gene clusters

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Human Alu RNA is a modular transacting repressor of mRNA transcription during heat shock

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A La-related protein modulates 7SK snRNP integrity to suppress P-TEFb-dependent transcriptional elongation and tumorigenesis

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The RNA coregulator SRA, its binding proteins and nuclear receptor signaling activity.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RNA and transcriptional modulation of gene expression

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

PP2B and PP1alpha cooperatively disrupt 7SK snRNP to release P-TEFb for transcription in response to Ca2+ signaling

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Intersection of the RNA interference and X-inactivation pathways

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

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

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Transcription and RNAi in heterochromatic gene silencing

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

6S RNA regulates E. coli RNA polymerase activity

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

A subfamily of RNA-binding DEAD-box proteins acts as an estrogen receptor alpha coactivator through the N-terminal activation domain (AF-1) with an RNA coactivator, SRA

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Sharp, an inducible cofactor that integrates nuclear receptor repression and activation

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Bidirectional action of the Igf2r imprint control element on upstream and downstream imprinted genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The 7SK small nuclear RNA inhibits the CDK9/cyclin T1 kinase to control transcription

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

7SK small nuclear RNA binds to and inhibits the activity of CDK9/cyclin T complexes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Chromosomal silencing and localization are mediated by different domains of Xist RNA.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The non-coding Air RNA is required for silencing autosomal imprinted genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

The roX genes encode redundant male-specific lethal transcripts required for targeting of the MSL complex

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Combinatorial control of gene expression by nuclear receptors and coregulators

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Eukaryotic ribonuclease P: a plurality of ribonucleoprotein enzymes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Developmental functions of the Distal-less/Dlx homeobox genes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Regional loss of imprinting and growth deficiency in mice with a targeted deletion of KvDMR1

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Xist RNA and the mechanism of X chromosome inactivation

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Role of histone H3 lysine 27 methylation in X inactivation

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Establishment of histone h3 methylation on the inactive X chromosome requires transient recruitment of Eed-Enx1 polycomb group complexes

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Functional redundancy within roX1, a noncoding RNA involved in dosage compensation in Drosophila melanogaster.

1 reference

https://pubmed.ncbi.nlm.nih.gov/19107624

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

10.1080/10409230802593995

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19107624%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19107624%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

1 reference

Europe PubMed Central

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:19107624%20AND%20SRC:MED&resulttype=core&format=json

19 January 2020

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