RNA folding with soft constraints: reconciliation of probing data and thermodynamic secondary structure prediction (Q34144418)

31 July 2017

RNA folding with soft constraints: reconciliation of probing data and thermodynamic secondary structure prediction (English)

1 reference

31 July 2017

2

1 reference

31 July 2017

3

1 reference

31 July 2017

4

Manolis Kellis

1 reference

31 July 2017

Stefan Washietl

1

1 reference

PubMed ID

22287623

31 July 2017

language of work or name

English

0 references

publication date

28 January 2012

1 reference

31 July 2017

Nucleic Acids Research

1 reference

31 July 2017

40

1 reference

31 July 2017

4261-4272

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31 July 2017

10

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Creative Commons Attribution-NonCommercial 3.0 Unported

31 July 2017

start time

7 November 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Multiplexed RNA structure characterization with selective 2'-hydroxyl acylation analyzed by primer extension sequencing (SHAPE-Seq)

5 July 2018

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A mutate-and-map strategy accurately infers the base pairs of a 35-nucleotide model RNA

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Genome-wide measurement of RNA secondary structure in yeast

5 July 2018

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tRNA stabilization by modified nucleotides

5 July 2018

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Advances in RNA structure analysis by chemical probing

5 July 2018

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Evaluation of the information content of RNA structure mapping data for secondary structure prediction

5 July 2018

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RNAstructure: software for RNA secondary structure prediction and analysis

5 July 2018

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Improved RNA secondary structure prediction by maximizing expected pair accuracy

5 July 2018

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Architecture and secondary structure of an entire HIV-1 RNA genome

5 July 2018

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One RNA aptamer sequence, two structures: a collaborating pair that inhibits AMPA receptors

5 July 2018

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Accurate SHAPE-directed RNA structure determination

5 July 2018

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MODOMICS: a database of RNA modification pathways. 2008 update

5 July 2018

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ShapeFinder: a software system for high-throughput quantitative analysis of nucleic acid reactivity information resolved by capillary electrophoresis

5 July 2018

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High-throughput single-nucleotide structural mapping by capillary automated footprinting analysis

5 July 2018

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The Eukaryotic Genome as an RNA Machine

5 July 2018

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CONTRAfold: RNA secondary structure prediction without physics-based models

5 July 2018

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Post-transcriptional nucleotide modification and alternative folding of RNA

5 July 2018

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

5 July 2018

1 reference

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A comprehensive comparison of comparative RNA structure prediction approaches

5 July 2018

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Incorporating chemical modification constraints into a dynamic programming algorithm for prediction of RNA secondary structure

5 July 2018

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Hfq, a new chaperoning role: binding to messenger RNA determines access for small RNA regulator

5 July 2018

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A statistical sampling algorithm for RNA secondary structure prediction

5 July 2018

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Mfold web server for nucleic acid folding and hybridization prediction

5 July 2018

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Correlating structural dynamics and function in single ribozyme molecules

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378861

Expanded sequence dependence of thermodynamic parameters improves prediction of RNA secondary structure

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378861

The presence of modified nucleotides is required for cloverleaf folding of a human mitochondrial tRNA

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378861

Probing the structure of RNAs in solution

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378861

The equilibrium partition function and base pair binding probabilities for RNA secondary structure

5 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3378861

Fast folding and comparison of RNA secondary structures

5 July 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKS009

Generation of synthetic RNA-based thermosensors.

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093%2FNAR%2FGKS009

Enzymatic approaches to probing of RNA secondary and tertiary structure

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22287623

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

One sequence, two ribozymes: implications for the emergence of new ribozyme folds

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/22287623

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKS009

1 reference

31 July 2017

1 reference

31 July 2017

1 reference

PubMed ID

22287623