(Q33515133)

27 July 2017

title

RNA folding on the 3D triangular lattice (English)

1 reference

27 July 2017

Joel Gillespie

1

0 references

author name string

Martin Mayne

series ordinal

2

1 reference

27 July 2017

Minghui Jiang

series ordinal

3

1 reference

27 July 2017

publication date

5 November 2009

1 reference

27 July 2017

1 reference

27 July 2017

volume

10

1 reference

27 July 2017

page(s)

369

1 reference

Optimization by Simulated Annealing

27 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=2780420

Predicting RNA pseudoknot folding thermodynamics

21 June 2018

1 reference

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Folding thermodynamics of pseudoknotted chain conformations.

21 June 2018

1 reference

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21 June 2018

1 reference

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Statistical thermodynamics for chain molecules with simple RNA tertiary contacts.

21 June 2018

1 reference

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Design, implementation and evaluation of a practical pseudoknot folding algorithm based on thermodynamics

21 June 2018

1 reference

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PSEUDOVIEWER2: Visualization of RNA pseudoknots of any type

21 June 2018

1 reference

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Vienna RNA secondary structure server

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Mfold web server for nucleic acid folding and hybridization prediction

21 June 2018

1 reference

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RNA folding at elementary step resolution

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Protein folding using contact maps.

21 June 2018

1 reference

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RNA folding energy landscapes.

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

PseudoBase: a database with RNA pseudoknots

21 June 2018

1 reference

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

21 June 2018

1 reference

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RNA movies: visualizing RNA secondary structure spaces

21 June 2018

1 reference

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A dynamic programming algorithm for RNA structure prediction including pseudoknots

21 June 2018

1 reference

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Recovery of protein structure from contact maps

21 June 2018

1 reference

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Description of RNA folding by "simulated annealing".

21 June 2018

1 reference

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21 June 2018

How does a protein fold?

1 reference

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Principles of protein folding--a perspective from simple exact models.

21 June 2018

1 reference

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An APL-programmed genetic algorithm for the prediction of RNA secondary structure

21 June 2018

1 reference

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Improved Estimation of Secondary Structure in Ribonucleic Acids

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Theory for the folding and stability of globular proteins

21 June 2018

1 reference

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21 June 2018

1 reference

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Respective roles of short- and long-range interactions in protein folding

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Simulating RNA folding kinetics on approximated energy landscapes

21 June 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

RNA structures with pseudo-knots: graph-theoretical, combinatorial, and statistical properties.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Parsing nucleic acid pseudoknotted secondary structure: algorithm and applications.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Prediction of consensus RNA secondary structures including pseudoknots.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Pseudoknots in RNA secondary structures: representation, enumeration, and prevalence.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

HotKnots: heuristic prediction of RNA secondary structures including pseudoknots.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

An iterated loop matching approach to the prediction of RNA secondary structures with pseudoknots

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

A partition function algorithm for nucleic acid secondary structure including pseudoknots

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

RnaViz 2: an improved representation of RNA secondary structure.

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

An RNA folding method capable of identifying pseudoknots and base triples

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Local rules for protein folding on a triangular lattice and generalized hydrophobicity in the HP model

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

An improved algorithm for nucleic acid secondary structure display

31 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2780420

Protein folding on the hexagonal lattice in the HP model

31 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/19891777

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1186/1471-2105-10-369

1 reference

journals/bmcbi/GillespieMJ09

27 July 2017

DBLP publication ID

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

1 reference

27 July 2017

1 reference