(Q38881648)

7 September 2017

Argonaute 2 Binds Directly to tRNA Genes and Promotes Gene Repression in cis. (English)

1 reference

7 September 2017

Jessica L Woolnough

1

1 reference

7 September 2017

Blake L Atwood

series ordinal

2

1 reference

7 September 2017

Keith E Giles

series ordinal

3

1 reference

7 September 2017

language of work or name

English

0 references

publication date

1 July 2015

1 reference

Molecular and Cellular Biology

7 September 2017

1 reference

7 September 2017

35

1 reference

7 September 2017

13

1 reference

7 September 2017

2278-2294

1 reference

describes a project that uses

7 September 2017

1 reference

10 June 2022

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=pmc&rettype=xml&id=4456445

ImageJ

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC4456445/fullTextXML

inferred from PubMed Central ID database lookup

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ARGONAUTE2 cooperates with SWI/SNF complex to determine nucleosome occupancy at human Transcription Start Sites

1 reference

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Argonaute-1 binds transcriptional enhancers and controls constitutive and alternative splicing in human cells

9 September 2017

1 reference

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A dual program for translation regulation in cellular proliferation and differentiation

9 September 2017

1 reference

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The histone H2A deubiquitinase Usp16 regulates embryonic stem cell gene expression and lineage commitment

9 September 2017

1 reference

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Derivation and characterization of Dicer- and microRNA-deficient human cells

9 September 2017

1 reference

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Differential RISC association of endogenous human microRNAs predicts their inhibitory potential

9 September 2017

1 reference

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9 September 2017

1 reference

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Identification of distinct miRNA target regulation between breast cancer molecular subtypes using AGO2-PAR-CLIP and patient datasets

9 September 2017

1 reference

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RNAi factors are present and active in human cell nuclei

9 September 2017

1 reference

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Slicing tRNAs to boost functional ncRNA diversity

9 September 2017

1 reference

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Cohesin and CTCF differentially affect chromatin architecture and gene expression in human cells

9 September 2017

1 reference

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Practical guidelines for the comprehensive analysis of ChIP-seq data

9 September 2017

1 reference

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Ago1 Interacts with RNA polymerase II and binds to the promoters of actively transcribed genes in human cancer cells

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Mod5 protein binds to tRNA gene complexes and affects local transcriptional silencing.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Large-scale gene function analysis with the PANTHER classification system

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Silencing near tRNA genes is nucleosome-mediated and distinct from boundary element function

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Description of plant tRNA-derived RNA fragments (tRFs) associated with argonaute and identification of their putative targets.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Mechanisms coordinating ELAV/Hu mRNA regulons

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

DICER- and AGO3-dependent generation of retinoic acid-induced DR2 Alu RNAs regulates human stem cell proliferation

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

ChIP-seq guidelines and practices of the ENCODE and modENCODE consortia

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Widespread plasticity in CTCF occupancy linked to DNA methylation

9 September 2017

1 reference

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An integrated encyclopedia of DNA elements in the human genome

9 September 2017

1 reference

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Alu expression in human cell lines and their retrotranspositional potential

9 September 2017

1 reference

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Fast gapped-read alignment with Bowtie 2

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Senescence is an endogenous trigger for microRNA-directed transcriptional gene silencing in human cells

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

The viral and cellular microRNA targetome in lymphoblastoid cell lines

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Different means, same end-heterochromatin formation by RNAi and RNAi-independent RNA processing factors in fission yeast

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Human tRNA genes function as chromatin insulators

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Genome-wide identification of microRNA targets in human ES cells reveals a role for miR-302 in modulating BMP response

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Transfer RNA-derived fragments: origins, processing, and functions

9 September 2017

1 reference

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RNAi-independent role for Argonaute2 in CTCF/CP190 chromatin insulator function

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

tRNA genes protect a reporter gene from epigenetic silencing in mouse cells

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Integrative genomic analysis of human ribosomal DNA.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Integrative genomics viewer

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform switching during cell differentiation

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Human RNA polymerase III transcriptomes and relationships to Pol II promoter chromatin and enhancer-binding factors

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Human tRNA-derived small RNAs in the global regulation of RNA silencing

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

BEDTools: a flexible suite of utilities for comparing genomic features

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Maintenance of a constitutive heterochromatin domain in vertebrates by a Dicer-dependent mechanism

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Expanded RNA-binding activities of mammalian Argonaute 2.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

The Sequence Alignment/Map format and SAMtools

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Prediction and verification of mouse tRNA gene families

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Cells lacking the fragile X mental retardation protein (FMRP) have normal RISC activity but exhibit altered stress granule assembly

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

TFIIIC binding sites function as both heterochromatin barriers and chromatin insulators in Saccharomyces cerevisiae

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Model-based analysis of ChIP-Seq (MACS)

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Clustering of yeast tRNA genes is mediated by specific association of condensin with tRNA gene transcription complexes.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Genome-wide mapping of in vivo protein-DNA interactions

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Hypoxic stress suppresses RNA polymerase III recruitment and tRNA gene transcription in cardiomyocytes.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Galaxy: a platform for interactive large-scale genome analysis

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Purified Argonaute2 and an siRNA form recombinant human RISC

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Silencing near tRNA genes requires nucleolar localization.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Mechanisms of gene silencing by double-stranded RNA

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Argonaute2 is the catalytic engine of mammalian RNAi

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

The UCSC Table Browser data retrieval tool

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

The crystal structure of the Argonaute2 PAZ domain reveals an RNA binding motif in RNAi effector complexes

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

DAVID: Database for Annotation, Visualization, and Integrated Discovery

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Transcriptional interactions between yeast tRNA genes, flanking genes and Ty elements: a genomic point of view.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Recruitment of RNA polymerase III to its target promoters

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Gene Expression Omnibus: NCBI gene expression and hybridization array data repository

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

A CBF5 mutation that disrupts nucleolar localization of early tRNA biosynthesis in yeast also suppresses tRNA gene-mediated transcriptional silencing.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Interspersed repeats and other mementos of transposable elements in mammalian genomes

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

The boundaries of the silenced HMR domain in Saccharomyces cerevisiae

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

tRNA genes as transcriptional repressor elements

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Identification of new eukaryotic tRNA genes in genomic DNA databases by a multistep weight matrix analysis of transcriptional control regions.

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

RNA sequence analysis using covariance models

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Genomic binding profiles of functionally distinct RNA polymerase III transcription complexes in human cells

9 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

The origin of interspersed repeats in the human genome

14 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Alu- and 7SL RNA Analogues Suppress MCF-7 Cell Viability through Modulating the Transcription of Endoplasmic Reticulum Stress Response Genes

25 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Chromatin-associated RNA interference components contribute to transcriptional regulation in Drosophila

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

GtRNAdb: a database of transfer RNA genes detected in genomic sequence

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Human mitochondrial tRNAMet is exported to the cytoplasm and associates with the Argonaute 2 protein

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Identifying potential tRNA genes in genomic DNA sequences.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

A variety of dicer substrates in human and C. elegans.

17 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Argonaute proteins couple chromatin silencing to alternative splicing.

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Identification of novel transcripts in annotated genomes using RNA-Seq

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

A quantitative analysis of CLIP methods for identifying binding sites of RNA-binding proteins

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Replication stress checkpoint signaling controls tRNA gene transcription.

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Control of alternative splicing through siRNA-mediated transcriptional gene silencing.

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

One Argonaute family member, Eif2c2 (Ago2), is essential for development and appears not to be involved in DNA methylation.

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

A heterochromatin barrier partitions the fission yeast centromere into discrete chromatin domains.

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Proofreading and aminoacylation of tRNAs before export from the nucleus.

22 August 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4456445

Order and intracellular location of the events involved in the maturation of a spliced tRNA

22 August 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25918241

12 December 2020

inferred from PubMed ID database lookup

Distinct passenger strand and mRNA cleavage activities of human Argonaute proteins

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25918241

12 December 2020

inferred from PubMed ID database lookup

A role for TFIIIC transcription factor complex in genome organization

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25918241

12 December 2020

inferred from PubMed ID database lookup

Identifiers

DOI

10.1128/MCB.00076-15

1 reference

7 September 2017

1 reference

7 September 2017

PubMed publication ID

25918241

1 reference