Comparative analysis of RNA secondary structure accuracy on predicted RNA 3D models. [PDF]
PLoS ONE, 2023 RNA structure is conformationally dynamic, and accurate all-atom tertiary (3D) structure modeling of RNA remains challenging with the prevailing tools. Secondary structure (2D) information is the standard prerequisite for most RNA 3D modeling.
Mandar Kulkarni +3 more
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RNA independent fragment partition method based on deep learning for RNA secondary structure prediction [PDF]
Scientific Reports, 2023 The non-coding RNA secondary structure largely determines its function. Hence, accuracy in structure acquisition is of great importance. Currently, this acquisition primarily relies on various computational methods.
Qi Zhao +7 more
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RNA secondary structure prediction by conducting multi-class classifications [PDF]
Computational and Structural Biotechnology JournalGenerating valid predictions of RNA secondary structures is challenging. Several deep learning methods have been developed for predicting RNA secondary structures.
Jiyuan Yang +4 more
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Evaluation of the effect of RNA secondary structure on Cas13d-mediated target RNA cleavage [PDF]
Mol Ther Nucleic AcidsThe clustered regularly interspaced short palindromic repeats (CRISPR)-Cas13d system was adapted as a powerful tool for targeting viral RNA sequences, making it a promising approach for antiviral strategies.
Herrera, Elena +6 more
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StructRMDB: A database of RNA modification sites that affect RNA secondary structure [PDF]
Computational and Structural Biotechnology JournalPost-transcriptional RNA modifications, prevalent in multiple RNA species such as mRNA, rRNA, and tRNA, play a significant role in biological processes by altering RNA structures.
Ziyan Zhang +7 more
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RNA secondary structure prediction with convolutional neural networks [PDF]
BMC Bioinformatics, 2022 Background Predicting the secondary, i.e. base-pairing structure of a folded RNA strand is an important problem in synthetic and computational biology.
Mehdi Saman Booy +2 more
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NTFold: Structure-Sensing Nucleotide Attention Learning for RNA Secondary Structure Prediction [PDF]
SensorsDetermining RNA secondary structures is a fundamental challenge in computational biology and molecular sensing. Experimental techniques such as X-ray crystallography, nuclear magnetic resonance, and cryo-electron microscopy can reveal RNA structures with
Kangjun Jin +4 more
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An interdisciplinary approach in teaching RNA secondary structure prediction to first-year undergraduate students using an automated deep learning RNA 3D model prediction tool [PDF]
J Microbiol Biol EducThe use of artificial intelligence (AI) in biologics drug design is interlaced into the fabric of the drug discovery pipeline for many in the biotechnology industry.
Idris, Adi, Bhattacharjee, Kamanasish
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RNA movies: visualizing RNA secondary structure spaces. [PDF]
Bioinformatics, 1999 Abstract MOTIVATION: RNA Movies is a system for the visualization of RNA secondary structure spaces. Its input is a script consisting of primary and secondary structure information. From this script, the system fully automatically generates animated graphical structure representations.
Evers, Dirk J., Giegerich, Robert
openaire +4 more sources
Analysis of the abundance and diversity of RNA secondary structure elements in RNA viruses using the RNAsselem Python package [PDF]
Scientific ReportsRecent advancements in experimental and computational methods for RNA secondary structure detection have revealed the crucial role of RNA structural elements in diverse molecular processes within living cells.
Fedor M. Kazanov +4 more
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