Evaluating the accuracy of SHAPE-directed RNA secondary structure predictions (Q36684726)

15 August 2017

Evaluating the accuracy of SHAPE-directed RNA secondary structure predictions (English)

1 reference

15 August 2017

Zsuzsanna Sükösd

1

1 reference

15 August 2017

M Shel Swenson

series ordinal

2

1 reference

15 August 2017

Jørgen Kjems

series ordinal

3

1 reference

15 August 2017

Christine E Heitsch

series ordinal

4

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15 August 2017

language of work or name

English

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publication date

15 January 2013

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15 August 2017

Nucleic Acids Research

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15 August 2017

41

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15 August 2017

5

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15 August 2017

2807-2816

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Creative Commons Attribution-NonCommercial 3.0 Unported

15 August 2017

start time

7 November 2016

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

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

30 September 2017

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Understanding the errors of SHAPE-directed RNA structure modeling

30 September 2017

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Correlating SHAPE signatures with three-dimensional RNA structures

30 September 2017

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30 September 2017

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30 September 2017

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

30 September 2017

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NNDB: the nearest neighbor parameter database for predicting stability of nucleic acid secondary structure

30 September 2017

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

30 September 2017

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Influence of nucleotide identity on ribose 2'-hydroxyl reactivity in RNA

30 September 2017

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Accurate SHAPE-directed RNA structure determination

30 September 2017

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30 September 2017

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High-throughput SHAPE analysis reveals structures in HIV-1 genomic RNA strongly conserved across distinct biological states

30 September 2017

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Bridging the gap in RNA structure prediction.

30 September 2017

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

30 September 2017

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Local RNA structural changes induced by crystallization are revealed by SHAPE

30 September 2017

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Prediction of RNA secondary structure by free energy minimization

30 September 2017

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Revolutions in RNA secondary structure prediction

30 September 2017

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Statistical and Bayesian approaches to RNA secondary structure prediction

30 September 2017

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A statistical analysis of RNA folding algorithms through thermodynamic parameter perturbation

30 September 2017

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A comprehensive comparison of comparative RNA structure prediction approaches

30 September 2017

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30 September 2017

Abstract shapes of RNA

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Evaluation of the suitability of free-energy minimization using nearest-neighbor energy parameters for RNA secondary structure prediction

30 September 2017

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Using an RNA secondary structure partition function to determine confidence in base pairs predicted by free energy minimization

30 September 2017

1 reference

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

A statistical sampling algorithm for RNA secondary structure prediction

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

The accuracy of ribosomal RNA comparative structure models

30 September 2017

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The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs

30 September 2017

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

Prediction of alternative RNA secondary structures based on fluctuating thermodynamic parameters

30 September 2017

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

On finding all suboptimal foldings of an RNA molecule

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

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

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

Complete suboptimal folding of RNA and the stability of secondary structures.

30 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

A comparison of thermodynamic foldings with comparatively derived structures of 16S and 16S-like rRNAs.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

An analysis of large rRNA sequences folded by a thermodynamic method.

28 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3597644

Beyond energy minimization: approaches to the kinetic folding of RNA

5 September 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093/NAR/GKS1283

Fast folding and comparison of RNA secondary structures

21 January 2018

1 reference

Crossref

https://api.crossref.org/works/10.1093/NAR/GKS1283

21 January 2018

Identifiers

DOI

10.1093/NAR/GKS1283

1 reference

15 August 2017

1 reference

15 August 2017

PubMed publication ID

23325843

1 reference