ArticleGenome biology2025
ARTEM: a method for RNA and DNA tertiary motif identification with backbone permutations.
Article in Genome biology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 5 papers.
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Who cites it
5 citing papers in PubMed.
- ARTEM server: an online tool for nucleic acid 3D motif searches, 3D structure superposition and structure-based alignment.Nucleic acids research · 2026Article
- De novo design of RNA pseudoknots with deep learning.bioRxiv : the preprint server for biology · 2026Article
- Genome-Wide Identification and Hormone-Induced Expression Analysis of the Anthocyanidin Reductase Gene Family in Sainfoin (International journal of molecular sciences · 2025Article
- Exploring GNRA tetraloop-like motifs in nucleic acid 3D structures.Scientific reports · 2025Article
- All-at-once RNA folding with 3D motif prediction framed by evolutionary information.Nature methods · 2025Article
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Authors and funding
7 authors.
Funding
Abstract
Non-coding RNA functions are largely defined by their 3D structures, which consist of recurrent building blocks, tertiary motifs. The computational motif search problem remains largely unsolved, as standard approaches are restrained by sequence, interactions, or backbone topology. We present ARTEM 2.0, which enables automated, unrestrained searches of RNA and DNA structure databases to identify 3D motifs. We apply ARTEM for searching kink-turns, G-quadruplexes, GNRA tetraloops, and i-motifs. ARTEM outperforms existing methods and enables the discovery of novel motif variants. ARTEM opens a fundamentally new way of studying nucleic acid 3D folds and motifs and analyzing their correlations and variations.
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Registered trials
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