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A comprehensive comparison of comparative RNA structure prediction approaches

BACKGROUND: An increasing number of researchers have released novel RNA structure analysis and prediction algorithms for comparative approaches to structure prediction. Yet, independent benchmarking of these algorithms is rarely performed as is now common practice for protein-folding, gene-finding a...

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Detalles Bibliográficos
Autores principales: Gardner, Paul P, Giegerich, Robert
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2004
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC526219/
https://www.ncbi.nlm.nih.gov/pubmed/15458580
http://dx.doi.org/10.1186/1471-2105-5-140
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author Gardner, Paul P
Giegerich, Robert
author_facet Gardner, Paul P
Giegerich, Robert
author_sort Gardner, Paul P
collection PubMed
description BACKGROUND: An increasing number of researchers have released novel RNA structure analysis and prediction algorithms for comparative approaches to structure prediction. Yet, independent benchmarking of these algorithms is rarely performed as is now common practice for protein-folding, gene-finding and multiple-sequence-alignment algorithms. RESULTS: Here we evaluate a number of RNA folding algorithms using reliable RNA data-sets and compare their relative performance. CONCLUSIONS: We conclude that comparative data can enhance structure prediction but structure-prediction-algorithms vary widely in terms of both sensitivity and selectivity across different lengths and homologies. Furthermore, we outline some directions for future research.
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spelling pubmed-5262192004-11-10 A comprehensive comparison of comparative RNA structure prediction approaches Gardner, Paul P Giegerich, Robert BMC Bioinformatics Research Article BACKGROUND: An increasing number of researchers have released novel RNA structure analysis and prediction algorithms for comparative approaches to structure prediction. Yet, independent benchmarking of these algorithms is rarely performed as is now common practice for protein-folding, gene-finding and multiple-sequence-alignment algorithms. RESULTS: Here we evaluate a number of RNA folding algorithms using reliable RNA data-sets and compare their relative performance. CONCLUSIONS: We conclude that comparative data can enhance structure prediction but structure-prediction-algorithms vary widely in terms of both sensitivity and selectivity across different lengths and homologies. Furthermore, we outline some directions for future research. BioMed Central 2004-09-30 /pmc/articles/PMC526219/ /pubmed/15458580 http://dx.doi.org/10.1186/1471-2105-5-140 Text en Copyright © 2004 Gardner and Giegerich; licensee BioMed Central Ltd.
spellingShingle Research Article
Gardner, Paul P
Giegerich, Robert
A comprehensive comparison of comparative RNA structure prediction approaches
title A comprehensive comparison of comparative RNA structure prediction approaches
title_full A comprehensive comparison of comparative RNA structure prediction approaches
title_fullStr A comprehensive comparison of comparative RNA structure prediction approaches
title_full_unstemmed A comprehensive comparison of comparative RNA structure prediction approaches
title_short A comprehensive comparison of comparative RNA structure prediction approaches
title_sort comprehensive comparison of comparative rna structure prediction approaches
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC526219/
https://www.ncbi.nlm.nih.gov/pubmed/15458580
http://dx.doi.org/10.1186/1471-2105-5-140
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