Use of deoxyribozymes in RNA research (Q34214036)

31 July 2017

title

Use of deoxyribozymes in RNA research (English)

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31 July 2017

Dana A Baum

2

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author name string

Scott K Silverman

series ordinal

1

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31 July 2017

language of work or name

English

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publication date

17 November 2009

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31 July 2017

published in

Methods in Enzymology

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31 July 2017

volume

469

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31 July 2017

page(s)

95-117

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The spliceosome: design principles of a dynamic RNP machine

31 July 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Controlling the direction of site-selectivity and regioselectivity in RNA ligation by Zn2 -dependent deoxyribozymes that use 2',3'-cyclic phosphate RNA substrates

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Convergent and general one-step DNA-catalyzed synthesis of multiply branched DNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Catalytic DNA (deoxyribozymes) for synthetic applications-current abilities and future prospects

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

In vitro selection of small RNA-cleaving deoxyribozymes that cleave pyrimidine-pyrimidine junctions

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Deoxyribozymes: useful DNA catalysts in vitro and in vivo

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Sequence-function relationships provide new insight into the cleavage site selectivity of the 8-17 RNA-cleaving deoxyribozyme

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

An RNA ligase-mediated method for the efficient creation of large, synthetic RNAs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Conversion of a ribozyme to a deoxyribozyme through in vitro evolution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Efficient RNA 5'-adenylation by T4 DNA ligase to facilitate practical applications

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Adenosine is inherently favored as the branch-site RNA nucleotide in a structural context that resembles natural RNA splicing

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A general two-step strategy to synthesize lariat RNAs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

In vitro selection, characterization, and application of deoxyribozymes that cleave RNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Efficient one-step synthesis of biologically related lariat RNAs by a deoxyribozyme

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A deoxyribozyme that synthesizes 2',5'-branched RNA with any branch-site nucleotide

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Zn2 -dependent deoxyribozymes that form natural and unnatural RNA linkages

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Directed evolution of nucleic acid enzymes

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Dinucleotide junction cleavage versatility of 8-17 deoxyribozyme

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Practical and general synthesis of 5'-adenylated RNA (5'-AppRNA).

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Joining of RNAs by splinted ligation

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A simple and efficient method to reduce nontemplated nucleotide addition at the 3 terminus of RNAs transcribed by T7 RNA polymerase

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A DNA enzyme that cleaves RNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A general purpose RNA-cleaving DNA enzyme

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Use of cis- and trans-ribozymes to remove 5' and 3' heterogeneities from milligrams of in vitro transcribed RNA.

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Structure and activities of group II introns

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Lariat RNA's as Intermediates and Products in the Splicing of Messenger RNA precursors

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Excision of an intact intron as a novel lariat structure during pre-mRNA splicing in vitro

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Oligoribonucleotide synthesis using T7 RNA polymerase and synthetic DNA templates

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Synthesis of small RNAs using T7 RNA polymerase

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Folding of Circularly Permuted Transfer RNAs

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A hammerhead ribozyme allows synthesis of a new form of theTetrahymenaribozyme homogeneous in length with a 3' end blocked for transesterification

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Site-specific modification of pre-mRNA: the 2'-hydroxyl groups at the splice sites

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Solid-phase synthesis of branched oligoribonucleotides related to messenger RNA splicing intermediates

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Regioselective ligation of oligoribonucleotides using DNA splints

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Reactions at the termini of tRNA with T4 RNA ligase

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Parallel selections in vitro reveal a preference for 2'-5' RNA ligation upon deoxyribozyme-mediated opening of a 2',3'-cyclic phosphate

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A deoxyribozyme that forms a three-helix-junction complex with its RNA substrates and has general RNA branch-forming activity

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Gaining target access for deoxyribozymes.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

A DNA enzyme that mimics the first step of RNA splicing

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Characterization of deoxyribozymes that synthesize branched RNA.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

The position of site-directed cleavage of RNA using RNase H and 2'-O-methyl oligonucleotides is dependent on the enzyme source

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

RNase H cleavage for processing of in vitro transcribed RNA for NMR studies and RNA ligation.

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Lariat structures are in vivo intermediates in yeast pre-mRNA splicing

28 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2957665

Deoxyribozyme-catalyzed labeling of RNA

28 October 2018

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

Deoxyribozymes with 2'-5' RNA ligase activity

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

General deoxyribozyme-catalyzed synthesis of native 3'-5' RNA linkages

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

[10] Using DNAzylnes to cut, process, and map RNA molecules for structural studies or modification

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

In vivo characterization of yeast mRNA processing intermediates

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

Thermodynamic parameters to predict stability of RNA/DNA hybrid duplexes

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

Directing the outcome of deoxyribozyme selections to favor native 3'-5' RNA ligation

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

In vivo splicing products of the rabbit β-globin pre-mRNA

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

Allosteric control of ribozyme catalysis by using DNA constraints

1 reference

https://api.crossref.org/works/10.1016/S0076-6879(09)69005-4

7 January 2021

10.1016/S0076-6879(09)69005-4

Identifiers

DOI

1 reference

31 July 2017

1 reference

31 July 2017

1 reference