(Q24798615)

3 July 2017

A method for aligning RNA secondary structures and its application to RNA motif detection (English)

1 reference

3 July 2017

Jianghui Liu

1

1 reference

3 July 2017

Jason T L Wang

series ordinal

2

1 reference

3 July 2017

Jun Hu

series ordinal

3

1 reference

3 July 2017

Bin Tian

series ordinal

4

1 reference

3 July 2017

language of work or name

English

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publication date

7 April 2005

1 reference

3 July 2017

1 reference

3 July 2017

6

1 reference

3 July 2017

1

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page(s)

89

1 reference

https://scigraph.springernature.com/pub.10.1186/1471-2105-6-89

3 July 2017

0 references

cites work

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Pfold: RNA secondary structure prediction using stochastic context-free grammars

7 April 2017

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A uniform system for microRNA annotation

7 April 2017

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Rfam: an RNA family database

7 April 2017

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7 April 2017

1 reference

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RNA sequence analysis using covariance models

7 April 2017

1 reference

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Improved tools for biological sequence comparison

7 April 2017

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Methods for assessing the statistical significance of molecular sequence features by using general scoring schemes

7 April 2017

1 reference

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Basic local alignment search tool

7 April 2017

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

7 April 2017

1 reference

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Vienna RNA secondary structure server

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Secondary structure prediction for aligned RNA sequences

7 April 2017

1 reference

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Dynalign: an algorithm for finding the secondary structure common to two RNA sequences

7 April 2017

1 reference

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A computational screen for methylation guide snoRNAs in yeast

7 April 2017

1 reference

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A dynamic programming algorithm for RNA structure prediction including pseudoknots

7 April 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

On finding all suboptimal foldings of an RNA molecule

7 April 2017

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7 April 2017

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The power of the 3' UTR: translational control and development

28 September 2017

1 reference

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PatSearch: A program for the detection of patterns and structural motifs in nucleotide sequences

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Translational control by the 3'-UTR: the ends specify the means.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Finding the common structure shared by two homologous RNAs.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Histone mRNA expression: multiple levels of cell cycle regulation and important developmental consequences

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

UTRdb and UTRsite: specialized databases of sequences and functional elements of 5' and 3' untranslated regions of eukaryotic mRNAs. Update 2002.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

RNAMotif, an RNA secondary structure definition and search algorithm

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Direct RNA motif definition and identification from multiple sequence alignments using secondary structure profiles

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Discovering common stem-loop motifs in unaligned RNA sequences

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

A phylogenetic approach to RNA structure prediction.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Prediction of common secondary structures of RNAs: a genetic algorithm approach

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Stochastic context-free grammars for tRNA modeling

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Computer prediction of RNA structure

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Improved predictions of secondary structures for RNA

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

A comparison of optimal and suboptimal RNA secondary structures predicted by free energy minimization with structures determined by phylogenetic comparison

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Comparing multiple RNA secondary structures using tree comparisons

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

A graph theoretical approach for predicting common RNA secondary structure motifs including pseudoknots in unaligned sequences

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Using multiple alignments and phylogenetic trees to detect RNA secondary structure

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Alignment of possible secondary structures in multiple RNA sequences using simulated annealing.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Conserved RNA secondary structures in viral genomes: a survey.

30 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

Pairwise RNA structure comparison with stochastic context-free grammars.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

PatSearch: a pattern matcher software that finds functional elements in nucleotide and protein sequences and assesses their statistical significance.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

From sequences to shapes and back: a case study in RNA secondary structures.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

An RNA pattern matching program with enhanced performance and portability.

28 November 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=1090556

28 November 2018

Identifiers

DOI

10.1186/1471-2105-6-89

1 reference

3 July 2017

journals/bmcbi/LiuWHT05

1 reference

DBLP Dataset 2021-01-02

Dimensions Publication ID

28 January 2021

0 references

0 references

1 reference