RnaViz 2: an improved representation of RNA secondary structure - PubMed (original) (raw)
RnaViz 2: an improved representation of RNA secondary structure
Peter De Rijk et al. Bioinformatics. 2003.
Abstract
Summary: RnaViz has been developed to easily create nice, publication quality drawings of RNA secondary structure. RnaViz 2 supports CT, DCSE, and RNAML input formats and improves on many aspects of the first version, notably portability and structure annotation. RnaViz is written using a hybrid programming approach combining pieces written in C and in the scripting language Tcl/Tk, making the program very portable and extensible.
Availability: Source code, binaries for Linux and MS Windows, and additional documentation are available athttp://rrna.uia.ac.be/rnaviz/
Similar articles
- RnaViz, a program for the visualisation of RNA secondary structure.
De Rijk P, De Wachter R. De Rijk P, et al. Nucleic Acids Res. 1997 Nov 15;25(22):4679-84. doi: 10.1093/nar/25.22.4679. Nucleic Acids Res. 1997. PMID: 9358182 Free PMC article. - Genquire: genome annotation browser/editor.
Wilkinson MD, Block D, Crosby WL. Wilkinson MD, et al. Bioinformatics. 2002 Oct;18(10):1398-9. doi: 10.1093/bioinformatics/18.10.1398. Bioinformatics. 2002. PMID: 12376386 - ACGT-a comparative genomics tool.
Xie T, Hood L. Xie T, et al. Bioinformatics. 2003 May 22;19(8):1039-40. doi: 10.1093/bioinformatics/btg121. Bioinformatics. 2003. PMID: 12761070 - The GeneAround GO viewer.
Tanoue J, Yoshikawa M, Uemura S. Tanoue J, et al. Bioinformatics. 2002 Dec;18(12):1705-6. doi: 10.1093/bioinformatics/18.12.1705. Bioinformatics. 2002. PMID: 12490464 - CINEMA-MX: a modular multiple alignment editor.
Lord PW, Selley JN, Attwood TK. Lord PW, et al. Bioinformatics. 2002 Oct;18(10):1402-3. doi: 10.1093/bioinformatics/18.10.1402. Bioinformatics. 2002. PMID: 12376388
Cited by
- PSEUDOVIEWER2: Visualization of RNA pseudoknots of any type.
Han K, Byun Y. Han K, et al. Nucleic Acids Res. 2003 Jul 1;31(13):3432-40. doi: 10.1093/nar/gkg539. Nucleic Acids Res. 2003. PMID: 12824341 Free PMC article. - Jalview Version 2--a multiple sequence alignment editor and analysis workbench.
Waterhouse AM, Procter JB, Martin DM, Clamp M, Barton GJ. Waterhouse AM, et al. Bioinformatics. 2009 May 1;25(9):1189-91. doi: 10.1093/bioinformatics/btp033. Epub 2009 Jan 16. Bioinformatics. 2009. PMID: 19151095 Free PMC article. - The putative Leishmania telomerase RNA (LeishTER) undergoes trans-splicing and contains a conserved template sequence.
Vasconcelos EJ, Nunes VS, da Silva MS, Segatto M, Myler PJ, Cano MI. Vasconcelos EJ, et al. PLoS One. 2014 Nov 12;9(11):e112061. doi: 10.1371/journal.pone.0112061. eCollection 2014. PLoS One. 2014. PMID: 25391020 Free PMC article. - A New Molecular Approach Based on the Secondary Structure of Ribosomal RNA for Phylogenetic Analysis of Mobilid Ciliates.
Du YH, Zhao YJ, Tang FH. Du YH, et al. Curr Microbiol. 2018 Mar;75(3):296-304. doi: 10.1007/s00284-017-1379-7. Epub 2017 Oct 26. Curr Microbiol. 2018. PMID: 29075838 - RNA2DMap: A Visual Exploration Tool of the Information in RNA's Higher-Order Structure.
Xu W, Wongsa A, Lee J, Shang L, Cannone JJ, Gutell RR. Xu W, et al. Proceedings (IEEE Int Conf Bioinformatics Biomed). 2011:613-617. doi: 10.1109/BIBM.2011.60. Proceedings (IEEE Int Conf Bioinformatics Biomed). 2011. PMID: 22983261 Free PMC article.
Publication types
MeSH terms
Substances
LinkOut - more resources
Full Text Sources
Other Literature Sources