Accurate detection of chemical modifications in RNA by mutational profiling (MaP) with ShapeMapper 2. (Q47637096)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29114018%20AND%20SRC:MED&resulttype=core&format=json

9 April 2020

title

Accurate detection of chemical modifications in RNA by mutational profiling (MaP) with ShapeMapper 2 (English)

1 reference

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9 April 2020

2

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9 April 2020

author name string

Steven Busan

series ordinal

1

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9 April 2020

language of work or name

English

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publication date

7 November 2017

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9 April 2020

1 reference

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9 April 2020

volume

24

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9 April 2020

issue

2

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9 April 2020

page(s)

143-148

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Packaged and Free Satellite Tobacco Mosaic Virus (STMV) RNA Genomes Adopt Distinct Conformational States.

9 April 2020

cites work

1 reference

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Direct identification of base-paired RNA nucleotides by correlated chemical probing

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

SHAPE reveals transcript-wide interactions, complex structural domains, and protein interactions across the Xist lncRNA in living cells.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Detection of RNA-Protein Interactions in Living Cells with SHAPE.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Selective 2'-hydroxyl acylation analyzed by primer extension and mutational profiling (SHAPE-MaP) for direct, versatile and accurate RNA structure analysis

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Bias in ligation-based small RNA sequencing library construction is determined by adaptor and RNA structure

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

SHAPE Selection (SHAPES) enrich for RNA structure signal in SHAPE sequencing-based probing data

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Structural imprints in vivo decode RNA regulatory mechanisms

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Review toward all RNA structures, concisely

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

RiboVision suite for visualization and analysis of ribosomes.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Genome-wide profiling of mouse RNA secondary structures reveals key features of the mammalian transcriptome

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

SHAPE-Seq 2.0: systematic optimization and extension of high-throughput chemical probing of RNA secondary structure with next generation sequencing

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Single-molecule correlated chemical probing of RNA.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

RNA motif discovery by SHAPE and mutational profiling (SHAPE-MaP).

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Evaluating bias-reducing protocols for RNA sequencing library preparation

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Mod-seq: high-throughput sequencing for chemical probing of RNA structure

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Genome-wide probing of RNA structure reveals active unfolding of mRNA structures in vivo

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Determination of in vivo RNA structure in low-abundance transcripts.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

STAR: ultrafast universal RNA-seq aligner

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Fast gapped-read alignment with Bowtie 2

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Use of specific chemical reagents for detection of modified nucleotides in RNA.

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Advances in RNA structure analysis by chemical probing

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

RNAstructure: software for RNA secondary structure prediction and analysis

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Accurate SHAPE-directed RNA structure determination

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

DMS footprinting of structured RNAs and RNA-protein complexes

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

A fast-acting reagent for accurate analysis of RNA secondary and tertiary structure by SHAPE chemistry

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

Probing the structure of RNAs in solution

29 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=5769742

29 September 2018

Identifiers

DOI

10.1261/RNA.061945.117

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29114018%20AND%20SRC:MED&resulttype=core&format=json

9 April 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:29114018%20AND%20SRC:MED&resulttype=core&format=json

9 April 2020

1 reference