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. 2009 Aug 1;25(15):1974-5.
doi: 10.1093/bioinformatics/btp250. Epub 2009 Apr 27.

VARNA: Interactive drawing and editing of the RNA secondary structure

Kévin Darty  1 , Alain Denise, Yann Ponty
Affiliations

VARNA: Interactive drawing and editing of the RNA secondary structure

Kévin Darty et al. Bioinformatics. .

Abstract

Description: VARNA is a tool for the automated drawing, visualization and annotation of the secondary structure of RNA, designed as a companion software for web servers and databases.

Features: VARNA implements four drawing algorithms, supports input/output using the classic formats dbn, ct, bpseq and RNAML and exports the drawing as five picture formats, either pixel-based (JPEG, PNG) or vector-based (SVG, EPS and XFIG). It also allows manual modification and structural annotation of the resulting drawing using either an interactive point and click approach, within a web server or through command-line arguments.

Availability: VARNA is a free software, released under the terms of the GPLv3.0 license and available at http://varna.lri.fr.

Supplementary information: Supplementary data are available at Bioinformatics online.

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Figures

Fig. 1.
Fig. 1.
Four representations (Radial, Circular, Linear and NAView) of the GAG-Pol -1 frameshift-inducing element in HIV-1 (PDBID:1ZC5) as rendered by VARNA under default settings.
See this image and copyright information in PMC

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References

    1. Blin G, et al. Alignment of RNA structures. IEEE/ACM Trans. Comput. Biol. Bioinform. 2008 [Epub ahead of print, doi: 10.1109/TCBB.2008.28, February 15, 2008] - PubMed
    1. Bruccoleri RE, Heinrich G. An improved algorithm for nucleic acid secondary structure display. Comput. Appl. Biosci. 1988;4:167–173. - PubMed
    1. Cannone J, et al. The comparative RNA web (CRW) site: an online database of comparative sequence and structure information for ribosomal, intron, and other RNAs. BMC Bioinformatics. 2002;3 - PMC - PubMed
    1. Ding Y, et al. SFold web server for statistical folding and rational design of nucleic acids. Nucleic Acids Res. 2004;32(Web Server Issue):135–141. - PMC - PubMed
    1. Leontis N, Westhof E. Geometric nomenclature and classification of RNA base pairs. RNA. 2001;7:499–512. - PMC - PubMed

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