Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP). (Q35971227)

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31 March 2020

title

Robust transcriptome-wide discovery of RNA-binding protein binding sites with enhanced CLIP (eCLIP) (English)

1 reference

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31 March 2020

0 references

1 reference

1

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31 March 2020

Balaji Sundararaman

6

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31 March 2020

Steven M Blue

7

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31 March 2020

13

Mitchell Guttman

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31 March 2020

author name string

Gabriel A Pratt

2

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31 March 2020

Alexander A Shishkin

3

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31 March 2020

Chelsea Gelboin-Burkhart

4

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31 March 2020

Mark Y Fang

5

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31 March 2020

Thai B Nguyen

8

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31 March 2020

Christine Surka

9

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31 March 2020

Keri Elkins

10

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31 March 2020

Rebecca Stanton

11

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31 March 2020

Frank Rigo

12

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31 March 2020

Gene W Yeo

14

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31 March 2020

publication date

28 March 2016

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31 March 2020

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31 March 2020

volume

13

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31 March 2020

issue

6

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31 March 2020

page(s)

508-514

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describes a project that uses

31 March 2020

ImageJ

1 reference

11 June 2022

https://www.ebi.ac.uk/europepmc/webservices/rest/PMC4887338/fullTextXML

based on heuristic

inferred from PubMed Central ID database lookup

cites work

Resources for the Comprehensive Discovery of Functional RNA Elements

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

A multiprotein occupancy map of the mRNP on the 3' end of histone mRNAs.

2 October 2017

1 reference

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Regulation of MALAT1 expression by TDP43 controls the migration and invasion of non-small cell lung cancer cells in vitro

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

BackCLIP: a tool to identify common background presence in PAR-CLIP datasets

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

The Xist lncRNA interacts directly with SHARP to silence transcription through HDAC3.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

Systematic discovery of Xist RNA binding proteins

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

RNA-binding proteins in neurodegeneration: Seq and you shall receive

2 October 2017

1 reference

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Simultaneous generation of many RNA-seq libraries in a single reaction

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

HITS-CLIP and integrative modeling define the Rbfox splicing-regulatory network linked to brain development and autism

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

A bifunctional protein regulates mitochondrial protein synthesis

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

A day in the life of the spliceosome

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

Advancing the functional utility of PAR-CLIP by quantifying background binding to mRNAs and lncRNAs

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

Rbfox proteins regulate alternative mRNA splicing through evolutionarily conserved RNA bridges.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

iCLIP: protein-RNA interactions at nucleotide resolution

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

RNA-binding proteins in Mendelian disease.

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

The human mitochondrial transcriptome and the RNA-binding proteins that regulate its expression

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

FMRP stalls ribosomal translocation on mRNAs linked to synaptic function and autism

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

The Nuclear-Retained Noncoding RNA MALAT1 Regulates Alternative Splicing by Modulating SR Splicing Factor Phosphorylation

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

The A-repeat links ASF/SF2-dependent Xist RNA processing with random choice during X inactivation

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

iCLIP reveals the function of hnRNP particles in splicing at individual nucleotide resolution

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

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

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

An RNA code for the FOX2 splicing regulator revealed by mapping RNA-protein interactions in stem cells

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

PeakSeq enables systematic scoring of ChIP-seq experiments relative to controls

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

LARP7 is a stable component of the 7SK snRNP while P-TEFb, HEXIM1 and hnRNP A1 are reversibly associated

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

Prp8 protein: at the heart of the spliceosome

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

CLIP identifies Nova-regulated RNA networks in the brain

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

SPF30 is an essential human splicing factor required for assembly of the U4/U5/U6 tri-small nuclear ribonucleoprotein into the spliceosome

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

Identifying mRNA subsets in messenger ribonucleoprotein complexes by using cDNA arrays

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

A census of human RNA-binding proteins

2 October 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4887338

14 November 2018

Identifiers

DOI

10.1038/NMETH.3810

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27018577%20AND%20SRC:MED&resulttype=core&format=json

31 March 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:27018577%20AND%20SRC:MED&resulttype=core&format=json

31 March 2020

PubMed publication ID

27018577

1 reference