CentroidFold

A web server for RNA secondary structure prediction

Kengo Sato, Michiaki Hamada, Kiyoshi Asai, Toutai Mituyama

Research output: Contribution to journalArticle

143 Citations (Scopus)

Abstract

The CentroidFold web server (http://www.ncrna.org/centroidfold/) is a web application for RNA secondary structure prediction powered by one of the most accurate prediction engine. The server accepts two kinds of sequence data: a single RNA sequence and a multiple alignment of RNA sequences. It responses with a prediction result shown as a popular base-pair notation and a graph representation. PDF version of the graph representation is also available. For a multiple alignment sequence, the server predicts a common secondary structure. Usage of the server is quite simple. You can paste a single RNA sequence (FASTA or plain sequence text) or a multiple alignment (CLUSTAL-W format) into the textarea then click on the 'execute CentroidFold' button. The server quickly responses with a prediction result. The major advantage of this server is that it employs our original CentroidFold software as its prediction engine which scores the best accuracy in our benchmark results. Our web server is freely available with no login requirement.

Original languageEnglish
JournalNucleic Acids Research
Volume37
Issue numberSUPPL. 2
DOIs
Publication statusPublished - 2009
Externally publishedYes

Fingerprint

RNA
Benchmarking
Sequence Alignment
Ointments
Base Pairing
Software

ASJC Scopus subject areas

  • Genetics

Cite this

CentroidFold : A web server for RNA secondary structure prediction. / Sato, Kengo; Hamada, Michiaki; Asai, Kiyoshi; Mituyama, Toutai.

In: Nucleic Acids Research, Vol. 37, No. SUPPL. 2, 2009.

Research output: Contribution to journalArticle

Sato, Kengo ; Hamada, Michiaki ; Asai, Kiyoshi ; Mituyama, Toutai. / CentroidFold : A web server for RNA secondary structure prediction. In: Nucleic Acids Research. 2009 ; Vol. 37, No. SUPPL. 2.
@article{b83dbad3c3fa4b7ca2814efca946ecdb,
title = "CentroidFold: A web server for RNA secondary structure prediction",
abstract = "The CentroidFold web server (http://www.ncrna.org/centroidfold/) is a web application for RNA secondary structure prediction powered by one of the most accurate prediction engine. The server accepts two kinds of sequence data: a single RNA sequence and a multiple alignment of RNA sequences. It responses with a prediction result shown as a popular base-pair notation and a graph representation. PDF version of the graph representation is also available. For a multiple alignment sequence, the server predicts a common secondary structure. Usage of the server is quite simple. You can paste a single RNA sequence (FASTA or plain sequence text) or a multiple alignment (CLUSTAL-W format) into the textarea then click on the 'execute CentroidFold' button. The server quickly responses with a prediction result. The major advantage of this server is that it employs our original CentroidFold software as its prediction engine which scores the best accuracy in our benchmark results. Our web server is freely available with no login requirement.",
author = "Kengo Sato and Michiaki Hamada and Kiyoshi Asai and Toutai Mituyama",
year = "2009",
doi = "10.1093/nar/gkp367",
language = "English",
volume = "37",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "SUPPL. 2",

}

TY - JOUR

T1 - CentroidFold

T2 - A web server for RNA secondary structure prediction

AU - Sato, Kengo

AU - Hamada, Michiaki

AU - Asai, Kiyoshi

AU - Mituyama, Toutai

PY - 2009

Y1 - 2009

N2 - The CentroidFold web server (http://www.ncrna.org/centroidfold/) is a web application for RNA secondary structure prediction powered by one of the most accurate prediction engine. The server accepts two kinds of sequence data: a single RNA sequence and a multiple alignment of RNA sequences. It responses with a prediction result shown as a popular base-pair notation and a graph representation. PDF version of the graph representation is also available. For a multiple alignment sequence, the server predicts a common secondary structure. Usage of the server is quite simple. You can paste a single RNA sequence (FASTA or plain sequence text) or a multiple alignment (CLUSTAL-W format) into the textarea then click on the 'execute CentroidFold' button. The server quickly responses with a prediction result. The major advantage of this server is that it employs our original CentroidFold software as its prediction engine which scores the best accuracy in our benchmark results. Our web server is freely available with no login requirement.

AB - The CentroidFold web server (http://www.ncrna.org/centroidfold/) is a web application for RNA secondary structure prediction powered by one of the most accurate prediction engine. The server accepts two kinds of sequence data: a single RNA sequence and a multiple alignment of RNA sequences. It responses with a prediction result shown as a popular base-pair notation and a graph representation. PDF version of the graph representation is also available. For a multiple alignment sequence, the server predicts a common secondary structure. Usage of the server is quite simple. You can paste a single RNA sequence (FASTA or plain sequence text) or a multiple alignment (CLUSTAL-W format) into the textarea then click on the 'execute CentroidFold' button. The server quickly responses with a prediction result. The major advantage of this server is that it employs our original CentroidFold software as its prediction engine which scores the best accuracy in our benchmark results. Our web server is freely available with no login requirement.

UR - http://www.scopus.com/inward/record.url?scp=67849086863&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=67849086863&partnerID=8YFLogxK

U2 - 10.1093/nar/gkp367

DO - 10.1093/nar/gkp367

M3 - Article

VL - 37

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - SUPPL. 2

ER -