(Q24657990)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

title

Unifying evolutionary and thermodynamic information for RNA folding of multiple alignments (English)

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

1

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

Jan Gorodkin

series ordinal

2

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

Rolf Backofen

series ordinal

3

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

author name string

Stefan E Seemann

series ordinal

1

0 references

language of work or name

English

0 references

publication date

4 October 2008

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

published in

Nucleic Acids Research

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

volume

36

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

issue

20

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

page(s)

6355-6362

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

PARTS: probabilistic alignment for RNA joinT secondary structure prediction

15 January 2020

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Semiautomated improvement of RNA alignments

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

SimulFold: simultaneously inferring RNA structures including pseudoknots, alignments, and trees using a Bayesian MCMC framework

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Efficient pairwise RNA structure prediction using probabilistic alignment constraints in Dynalign

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Inferring noncoding RNA families and classes by means of genome-scale structure-based clustering

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Efficient pairwise RNA structure prediction and alignment using sequence alignment constraints

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Thousands of corresponding human and mouse genomic regions unalignable in primary sequence contain common RNA structure

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Identification and classification of conserved RNA secondary structures in the human genome

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

A computational screen for mammalian pseudouridylation guide H/ACA RNAs

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

The FOLDALIGN web server for pairwise structural RNA alignment and mutual motif search

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

A benchmark of multiple sequence alignment programs upon structural RNAs

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Accelerated probabilistic inference of RNA structure evolution

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

ProbCons: Probabilistic consistency-based multiple sequence alignment

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Fast and reliable prediction of noncoding RNAs

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Rfam: annotating non-coding RNAs in complete genomes

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

A comprehensive comparison of comparative RNA structure prediction approaches

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Biased hypermutagenesis associated with mutations in an untranslated hairpin of an RNA virus

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Evaluation of several lightweight stochastic context-free grammars for RNA secondary structure prediction

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

A cis-acting replication element in the sequence encoding the NS5B RNA-dependent RNA polymerase is required for hepatitis C virus RNA replication

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

New microRNAs from mouse and human

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

cis-acting sequences required for coronavirus infectious bronchitis virus defective-RNA replication and packaging.

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

The rhinovirus type 14 genome contains an internally located RNA structure that is required for viral replication

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

The sequence of the stem and flanking sequences at the 3' end of histone mRNA are critical determinants for the binding of the stem-loop binding protein

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Coaxial stacking of helixes enhances binding of oligoribonucleotides and improves predictions of RNA folding

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

RNA molecules with structure dependent functions are uniquely folded

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

CONTRAfold: RNA secondary structure prediction without physics-based models

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Human box H/ACA pseudouridylation guide RNA machinery

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Alignment of RNA base pairing probability matrices

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Secondary structure prediction for aligned RNA sequences

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

The ins and outs of group II introns

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Features of the 3'-consensus sequence of rotavirus mRNAs critical to minus strand synthesis

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Differentially expressed snoRNAs in Bungarus multicinctus (Taiwan banded krait)

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

A common RNA motif in the 3' end of the genomes of astroviruses, avian infectious bronchitis virus and an equine rhinovirus

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

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

7 April 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Comparison of the predicted and observed secondary structure of T4 phage lysozyme

7 April 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

7 April 2017

https://api.crossref.org/works/10.1093%2FNAR%2FGKN544

Centroid estimation in discrete high-dimensional spaces with applications in biology

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Fast pairwise structural RNA alignments by pruning of the dynamical programming matrix

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

SnoReport: computational identification of snoRNAs with unknown targets

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Multiple structural alignment and clustering of 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=2582601

Mining frequent stem patterns from 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=2582601

Identification of consensus RNA secondary structures using suffix arrays

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

CMfinder--a covariance model based RNA motif finding 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=2582601

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=2582601

RNA secondary structure prediction using stochastic context-free grammars and evolutionary history

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Finding the most significant common sequence and structure motifs in a set of 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=2582601

A reliable sequence alignment method based on probabilities of residue correspondences.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=2582601

Fast folding and comparison of RNA secondary structures

30 May 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKN544

PSSMTS: position specific scoring matrices on tree structures.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKN544

Local sequence-structure motifs in RNA.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKN544

Robust prediction of consensus secondary structures using averaged base pairing probability matrices.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKN544

Consensus folding of unaligned RNA sequences revisited

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKN544

Comparing two K-category assignments by a K-category correlation coefficient.

21 January 2018

1 reference

https://api.crossref.org/works/10.1093%2FNAR%2FGKN544

Prediction of RNA secondary structure by energy minimization

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/18836192

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1093/NAR/GKN544

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:18836192%20AND%20SRC:MED&resulttype=core&format=json

15 January 2020

1 reference