PSEUDOVIEWER
PSEUDOVIEWER generates planar drawings of RNA pseudoknots to provide visual representations for analysis of known and hypothetical pseudoknot structures.
Key Features:
- Automatic Visualization: Generates planar drawings of RNA pseudoknots automatically.
- Planarity and Aesthetic Appeal: Represents pseudoknots as planar graphs without edge crossings to produce uniform, unambiguous diagrams.
- Versatility in Visualization: Handles diverse types of known and hypothetical pseudoknot structures across RNA datasets.
Scientific Applications:
- Bioinformatics Analysis: Provides visualizations to aid analysis and interpretation of complex RNA molecules' biological functions and interactions.
Methodology:
Uses a new representation and algorithm to handle RNA pseudoknots as planar graphs without edge crossings, implemented in Java for compatibility across computing systems.
Topics
Details
- Tool Type:
- web application
- Operating Systems:
- Linux, Windows, Mac
- Programming Languages:
- Java
- Added:
- 2/10/2017
- Last Updated:
- 11/25/2024
Operations
Publications
Byun Y, Han K. PseudoViewer3: generating planar drawings of large-scale RNA structures with pseudoknots. Bioinformatics. 2009;25(11):1435-1437. doi:10.1093/bioinformatics/btp252. PMID:19369500.
Byun Y, Han K. PseudoViewer: web application and web service for visualizing RNA pseudoknots and secondary structures. Nucleic Acids Research. 2006;34(Web Server):W416-W422. doi:10.1093/nar/gkl210. PMID:16845039. PMCID:PMC1538805.
Han K, Lee Y, Kim W. PseudoViewer: automatic visualization of RNA pseudoknots. Bioinformatics. 2002;18(suppl_1):S321-S328. doi:10.1093/bioinformatics/18.suppl_1.s321. PMID:12169562.
Han K. PSEUDOVIEWER2: visualization of RNA pseudoknots of any type. Nucleic Acids Research. 2003;31(13):3432-3440. doi:10.1093/nar/gkg539. PMID:12824341. PMCID:PMC168946.