Selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution

Kevin A Wilkinson; Edward J Merino; Kevin M Weeks

doi:10.1038/nprot.2006.249

Selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE): quantitative RNA structure analysis at single nucleotide resolution

Nature Protocols ◽

10.1038/nprot.2006.249 ◽

2006 ◽

Vol 1 (3) ◽

pp. 1610-1616 ◽

Cited By ~ 476

Author(s):

Kevin A Wilkinson ◽

Edward J Merino ◽

Kevin M Weeks

Keyword(s):

Structure Analysis ◽

Rna Structure ◽

Primer Extension ◽

Single Nucleotide ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Faculty Opinions recommendation of RNA structure analysis at single nucleotide resolution by selective 2'-hydroxyl acylation and primer extension (SHAPE).

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.1024946.293765 ◽

2005 ◽

Author(s):

Douglas Turner

Keyword(s):

Structure Analysis ◽

Rna Structure ◽

Primer Extension ◽

Single Nucleotide ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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RNA Structure Analysis at Single Nucleotide Resolution by Selective 2‘-Hydroxyl Acylation and Primer Extension (SHAPE)

Journal of the American Chemical Society ◽

10.1021/ja043822v ◽

2005 ◽

Vol 127 (12) ◽

pp. 4223-4231 ◽

Cited By ~ 475

Author(s):

Edward J. Merino ◽

Kevin A. Wilkinson ◽

Jennifer L. Coughlan ◽

Kevin M. Weeks

Keyword(s):

Structure Analysis ◽

Rna Structure ◽

Primer Extension ◽

Single Nucleotide ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Time-resolved RNA SHAPE chemistry: quantitative RNA structure analysis in one-second snapshots and at single-nucleotide resolution

Nature Protocols ◽

10.1038/nprot.2009.126 ◽

2009 ◽

Vol 4 (10) ◽

pp. 1413-1421 ◽

Cited By ~ 79

Author(s):

Stefanie A Mortimer ◽

Kevin M Weeks

Keyword(s):

Structure Analysis ◽

Rna Structure ◽

Single Nucleotide ◽

Time Resolved ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Genome-wide profiling of in vivo RNA structure at single-nucleotide resolution using structure-seq

Nature Protocols ◽

10.1038/nprot.2015.064 ◽

2015 ◽

Vol 10 (7) ◽

pp. 1050-1066 ◽

Cited By ~ 62

Author(s):

Yiliang Ding ◽

Chun Kit Kwok ◽

Yin Tang ◽

Philip C Bevilacqua ◽

Sarah M Assmann

Keyword(s):

Rna Structure ◽

Single Nucleotide ◽

Genome Wide ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Profiling of RNA Structure at Single-Nucleotide Resolution Using nextPARS

Methods in Molecular Biology - RNA Bioinformatics ◽

10.1007/978-1-0716-1307-8_4 ◽

2021 ◽

pp. 51-61

Author(s):

Uciel Chorostecki ◽

Jesse R. Willis ◽

Ester Saus ◽

Toni Gabaldon

Keyword(s):

Rna Structure ◽

Single Nucleotide ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Faculty Opinions recommendation of Mapping Causal Variants with Single-Nucleotide Resolution Reveals Biochemical Drivers of Phenotypic Change.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.732571454.793543140 ◽

2018 ◽

Author(s):

Michael Travisano

Keyword(s):

Phenotypic Change ◽

Single Nucleotide ◽

Causal Variants ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Faculty Opinions recommendation of Single-nucleotide-resolution mapping of DNA gyrase cleavage sites across the Escherichia coli genome.

Faculty Opinions – Post-Publication Peer Review of the Biomedical Literature ◽

10.3410/f.734563155.793554762 ◽

2019 ◽

Author(s):

Anthony Maxwell

Keyword(s):

Escherichia Coli ◽

Dna Gyrase ◽

Cleavage Sites ◽

Single Nucleotide ◽

Resolution Mapping ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Light–Nucleotide versus Ion–Nucleotide Interactions for Single-Nucleotide Resolution

The Journal of Physical Chemistry B ◽

10.1021/acs.jpcb.0c10759 ◽

2021 ◽

Author(s):

Mohsen Farshad ◽

Jayendran C. Rasaiah

Keyword(s):

Single Nucleotide ◽

Nucleotide Interactions ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Chemical probing of the homopurine·homopyrimidine tract in supercoiled DNA at single-nucleotide resolution

FEBS Letters ◽

10.1016/0014-5793(88)80102-9 ◽

1988 ◽

Vol 234 (2) ◽

pp. 295-299 ◽

Cited By ~ 26

Author(s):

M. Vojtíšková ◽

S. Mirkin ◽

V. Lyamichev ◽

O. Voloshin ◽

M. Frank-Kamenetskii ◽

...

Keyword(s):

Single Nucleotide ◽

Supercoiled Dna ◽

Chemical Probing ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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Mapping ribonucleotides embedded in genomic DNA to single-nucleotide resolution using Ribose-Map

Nature Protocols ◽

10.1038/s41596-021-00553-x ◽

2021 ◽

Author(s):

Alli L. Gombolay ◽

Francesca Storici

Keyword(s):

Genomic Dna ◽

Single Nucleotide ◽

Nucleotide Resolution ◽

Single Nucleotide Resolution

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