ArticleNucleic acids research2025
R2DT: a comprehensive platform for visualizing RNA secondary structure.
Article in Nucleic acids research, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
17 citing papers in PubMed.
- R3DCID: circular interaction diagrams for RNA and DNA 3D structures of all sizes.RNA (New York, N.Y.) · 2026Article
- OTTR-seq profiling reveals dynamic tRNA modification landscapes across diverse archaeal species.Genome biology · 2026Article
- Chronology of tRNA structural dynamics prior to and during interaction with a pseudouridine synthase.RNA (New York, N.Y.) · 2026Article
- LinearCapR: linear-time computation of per-nucleotide structural-context probabilities of RNA without base-pair span limits.Bioinformatics (Oxford, England) · 2026Article
- SnoRNA Expression and RNA 2'-O-Methylation inbioRxiv : the preprint server for biology · 2026Article
- Viral non-coding RNA structure annotation and API-based data retrieval with Rfam and R2DT.bioRxiv : the preprint server for biology · 2026Article
- Group I introns in tRNA genes of Patescibacteria.mSystems · 2026Article
- RNA-KG v2.0: an RNA-centered Knowledge Graph with Properties.NAR genomics and bioinformatics · 2026Article
- Circularization of 23S rRNA but not 16S rRNA within archaeal ribosomes.Genome biology · 2026Article
- ADAM-tRNA-seq: an optimized approach for demultiplexing and enhanced hierarchal mapping in direct tRNA sequencing.Nucleic acids research · 2026Article
- RNAcentral in 2026: genes and literature integration.Nucleic acids research · 2026Article
- GlycoRNAdb: a database of glycoRNA sequences, structures, abundance, and glycan information across tissues and cell lines.Nucleic acids research · 2026Article
- Bioinformatic pipeline to identify candidate mRNA transcripts targeted by the putative Regulated Ire1-Dependent Decay pathway ofmicroPublication biology · 2026Article
- The yxiD gene from Bacillus subtilis 6633 encodes a polymorphic toxin with tRNase activity and is neutralized by the cognate immunity protein YxxD.Nucleic acids research · 2025Article
- The Landscape of tRNA Modifications in Archaea.bioRxiv : the preprint server for biology · 2025Article
- TARNAS: A Software Tool for Abstracting and Translating RNA Secondary Structures.International journal of molecular sciences · 2025Article
- The RNA-binding protein ProQ directly binds and regulates virulence genes in enterohemorrhagicFrontiers in cellular and infection microbiology · 2025Article
Corrections and comments
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Authors and funding
22 authors.
Funding
Abstract
RNA secondary (2D) structure visualization is an essential tool for understanding RNA function. R2DT is a software package designed to visualize RNA 2D structures in consistent, recognizable, and reproducible layouts. The latest release, R2DT 2.0, introduces multiple significant features, including the ability to display position-specific information, such as single nucleotide polymorphisms or SHAPE reactivities. It also offers a new template-free mode allowing visualization of RNAs without pre-existing templates, alongside a constrained folding mode and support for animated visualizations. Users can interactively modify R2DT diagrams, either manually or using natural language prompts, to generate new templates or create publication-quality images. Additionally, R2DT features faster performance, an expanded template library, and a growing collection of compatible tools and utilities. Already integrated into multiple biological databases, R2DT has evolved into a comprehensive platform for RNA 2D visualization, accessible at https://r2dt.bio.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.