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PseudoViewer3: generating planar drawings of large-scale RNA structures with pseudoknots

https://doi.org/10.1093/bioinformatics/btp252
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1093/bioinformatics/18.2.321openalex-snapshot
Avoiding cross hybridization by choosing nonredundant targets on cDNA arrays
inferredcites →https://doi.org/10.1093/bioinformatics/18.suppl_1.s321openalex-snapshot
PseudoViewer: automatic visualization of RNA pseudoknots
inferredcites →https://doi.org/10.1093/bioinformatics/19.2.299openalex-snapshot
RnaViz 2: an improved representation of RNA secondary structure
inferredcites →https://doi.org/10.1093/nar/29.1.194openalex-snapshot
PseudoBase: structural information on RNA pseudoknots
inferredcites →https://doi.org/10.1093/nar/gkg539openalex-snapshot
PSEUDOVIEWER2: visualization of RNA pseudoknots of any type
inferredcites →https://doi.org/10.1093/nar/gkg599openalex-snapshot
Vienna RNA secondary structure server
inferredcites →https://doi.org/10.1093/nar/gkl210openalex-snapshot
PseudoViewer: web application and web service for visualizing RNA pseudoknots and secondary structures
inferredcites →https://doi.org/10.1109/cbms.2006.104openalex-snapshot
jViz.Rna - An Interactive Graphical Tool for Visualizing RNA Secondary Structure Including Pseudoknots

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

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inferred← citeshttps://doi.org/10.15421/021782openalex-snapshot
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inferred← citeshttps://doi.org/10.1615/interjalgae.v18.i4.10openalex-snapshot
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inferred← citeshttps://doi.org/10.1615/interjalgae.v23.i1.20openalex-snapshot
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inferred← citeshttps://doi.org/10.1615/interjalgae.v25.i4.10openalex-snapshot
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inferred← citeshttps://doi.org/10.1639/0007-2745-118.1.046openalex-snapshot
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inferred← citeshttps://doi.org/10.17706/ijbbb.2016.6.1.9-17openalex-snapshot
RNA Secondary Structure Visualization using Tree Edit Distance
inferred← citeshttps://doi.org/10.19047/0136-1694-2018-93-105-120openalex-snapshot
Choosing an approach for identification of soil coccoid green microalgae (Trebouxiophyceae, Chlorophyta)
inferred← citeshttps://doi.org/10.21203/rs.3.rs-69915/v1openalex-snapshot
The Association of Group IIB Intron with Integrons in Hypersaline Environments
inferred← citeshttps://doi.org/10.21203/rs.3.rs-9111901/v1openalex-snapshot
Elliptochloris, not Coccomyxa, is the photobiont of three lichenized Multiclavula species collected in Japan
inferred← citeshttps://doi.org/10.2196/58899openalex-snapshot
Exploring the Accuracy of Ab Initio Prediction Methods for Viral Pseudoknotted RNA Structures: Retrospective Cohort Study
inferred← citeshttps://doi.org/10.2478/s11756-010-0045-3openalex-snapshot
Ribosomal RNA phylogenetics: the third dimension
inferred← citeshttps://doi.org/10.25365/thesis.11587openalex-snapshot
RNA secondary structure prediction including pseudoknots
inferred← citeshttps://doi.org/10.30550/j.lil/1982openalex-snapshot
Morfoanatomía foliar, análisis meiótico y caracterización del marcador ITS2 de Adesmia incana var. incana (Fabaceae, Papilionoideae)
inferred← citeshttps://doi.org/10.3389/fgene.2016.00129openalex-snapshot
An Adaptive Defect Weighted Sampling Algorithm to Design Pseudoknotted RNA Secondary Structures
inferred← citeshttps://doi.org/10.3389/fmicb.2017.01960openalex-snapshot
Molecular Characterization of Novel Totivirus-Like Double-Stranded RNAs from Puccinia striiformis f. sp. tritici, the Causal Agent of Wheat Stripe Rust
inferred← citeshttps://doi.org/10.3389/fmicb.2020.585836openalex-snapshot
Adaptation to Aquatic and Terrestrial Environments in Chlorella vulgaris (Chlorophyta)
inferred← citeshttps://doi.org/10.3389/fmicb.2021.671742openalex-snapshot
Emendation of the Coccoid Cyanobacterial Genus Gloeocapsopsis and Description of the New Species Gloeocapsopsis diffluens sp. nov. and Gloeocapsopsis dulcis sp. nov. Isolated From the Coastal Range of the Atacama Desert (Chile)
inferred← citeshttps://doi.org/10.3389/fmicb.2025.1517865openalex-snapshot
Phylogeny and fatty acid profiles of new Coccomyxa (Chlorophyta) species from soils of Vietnam
inferred← citeshttps://doi.org/10.3389/fpls.2022.890663openalex-snapshot
Opportunities and Challenges of Predictive Approaches for the Non-coding RNA in Plants
inferred← citeshttps://doi.org/10.3390/app13085168openalex-snapshot
Syntactic Pattern Recognition for the Prediction of L-Type Pseudoknots in RNA
inferred← citeshttps://doi.org/10.3390/d12060240openalex-snapshot
Endosymbiotic Green Algae in Paramecium bursaria: A New Isolation Method and a Simple Diagnostic PCR Approach for the Identification
inferred← citeshttps://doi.org/10.3390/d14060481openalex-snapshot
Description of Limnomonas gen. nov., L. gaiensis sp. nov. and L. spitsbergensis sp. nov. (Chlamydomonadales, Chlorophyta)
inferred← citeshttps://doi.org/10.3390/d14121013openalex-snapshot
Three New Plectolyngbya Species (Leptolyngbyaceae, Cyanobacteria) Isolated from Rocks and Saltern of the Republic of Korea
inferred← citeshttps://doi.org/10.3390/d15010065openalex-snapshot
Trichotorquatus salinus sp. nov. (Oculatellaceae, Cyanobacteria) from a Saltern of Gomso, Republic of Korea
inferred← citeshttps://doi.org/10.3390/d15080926openalex-snapshot
Katagnymene terrestris sp. nov. (Gomontiellaceae, Cyanobacteria) Isolated from the Soil between Rocks in the Republic of Korea
inferred← citeshttps://doi.org/10.3390/d15121174openalex-snapshot
Limnonema gen. nov. (Aerosakkonemataceae, Cyanobacteria): Two Novel Species from Republic of Korea Characterized by Morphological and Molecular Analyses
inferred← citeshttps://doi.org/10.3390/ijms26125728openalex-snapshot
TARNAS: A Software Tool for Abstracting and Translating RNA Secondary Structures
inferred← citeshttps://doi.org/10.3390/microorganisms14102224openalex-snapshot
Halotetraselmis gen. nov. and Halotetraselmis indica comb. nov. (Chlorodendrophyceae, Chlorophyta): New Halophilic Green Algae from Geographically Distant Hypersaline Habitats
inferred← citeshttps://doi.org/10.3390/molecules15085742openalex-snapshot
Development of a Sphingosylphosphorylcholine Detection System Using RNA Aptamers
inferred← citeshttps://doi.org/10.3390/plants13172405openalex-snapshot
Prasiolopsis wulf-kochii (Prasiolales, Trebouxiophyceae), a New Species Occurring in Hairs of the Sloth Bradypus tridactylus
inferred← citeshttps://doi.org/10.3390/v10120720openalex-snapshot
A Divergent Hepatitis D-Like Agent in Birds
inferred← citeshttps://doi.org/10.3390/v11060577openalex-snapshot
Novel Victorivirus from a Pakistani Isolate of Alternaria alternata Lacking a Typical Translational Stop/Restart Sequence Signature
inferred← citeshttps://doi.org/10.3390/v13101931openalex-snapshot
Novel Fusari- and Toti-like Viruses, with Probable Different Origins, in the Plant Pathogenic Oomycete Globisporangium ultimum
inferred← citeshttps://doi.org/10.3390/v13112319openalex-snapshot
Characterization of Four Novel dsRNA Viruses Isolated from Mucor hiemalis Strains
inferred← citeshttps://doi.org/10.3390/v14112343openalex-snapshot
Molecular Characterization of Novel Mycoviruses in Seven Umbelopsis Strains
inferred← citeshttps://doi.org/10.3906/bot-1712-52openalex-snapshot
Resolving the position of Astragalus borysthenicus Klokov within the Astragalus L. species
inferred← citeshttps://doi.org/10.4137/ebo.s4058openalex-snapshot
A Comparative Taxonomy of Parallel Algorithms for RNA Secondary Structure Prediction
inferred← citeshttps://doi.org/10.4490/algae.2023.38.11.30openalex-snapshot
Morphology and phylogenetic relationships of two Antarctic strains within the genera Carolibrandtia and Chlorella (Chlorellaceae, Trebouxiophyceae)
inferred← citeshttps://doi.org/10.4490/algae.2025.40.4.15openalex-snapshot
Evaluating nuclear (18S, ITS, and 28S) and chloroplast (psbB, psbC, rbcL, and tufA) genes of the green algae Monoraphidium (Sphaeropleales, Chlorophyta) for DNA barcoding
inferred← citeshttps://doi.org/10.5507/fot.2016.010openalex-snapshot
Selenastraceae (Sphaeropleales, Chlorophyceae): rbcL, 18S rDNA and ITS-2 secondary structure enlightens traditional taxonomy, with description of two new genera, Messastrum gen. nov. and Curvastrum gen. nov.
inferred← citeshttps://doi.org/10.5507/fot.2025.004openalex-snapshot
Streptosarcina costaricana var. goloustica var. nov. (Klebsormidiophyceae, Charophyta) from soils of Baikal mountains, Russia
inferred← citeshttps://doi.org/10.6084/m9.figshare.14140432openalex-snapshot
Additional file 1 of The association of group IIB intron with integrons in hypersaline environments
inferred← citeshttps://doi.org/10.6084/m9.figshare.14140435openalex-snapshot
Additional file 2 of The association of group IIB intron with integrons in hypersaline environments
inferred← citeshttps://doi.org/10.7287/peerj.1017v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Recent mobility of plastid encoded group II introns and twintrons in five strains of the unicellular red alga Porphyridium (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.1017v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Recent mobility of plastid encoded group II introns and twintrons in five strains of the unicellular red alga Porphyridium (v0.1)"
inferred← citeshttps://doi.org/10.7717/peerj.1017openalex-snapshot
Recent mobility of plastid encoded group II introns and twintrons in five strains of the unicellular red alga Porphyridium
Editorial review for independent work. ICSAC — the Institute for Complexity Science and Advanced Computing — runs a structured editorial panel for researchers publishing outside journals, and publishes on CiteStamp rails. Submission is free and goes through ORCID: icsacinstitute.org/submit.