Dataset Information

Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models.

ABSTRACT: RNA is a unique biomolecule that is involved in a variety of fundamental biological functions, all of which depend solely on its structure and dynamics. Since the experimental determination of crystal RNA structures is laborious, computational 3D structure prediction methods are experiencing an ongoing and thriving development. Such methods can lead to many models; thus, it is necessary to build comparisons and extract common structural motifs for further medical or biological studies. Here, we introduce a computational pipeline dedicated to reference-free high-throughput comparative analysis of 3D RNA structures. We show its application in the RNA-Puzzles challenge, in which five participating groups attempted to predict the three-dimensional structures of 5'- and 3'-untranslated regions (UTRs) of the SARS-CoV-2 genome. We report the results of this puzzle and discuss the structural motifs obtained from the analysis. All simulated models and tools incorporated into the pipeline are open to scientific and academic use.

SUBMITTER: Gumna J

PROVIDER: S-EPMC9455975 | biostudies-literature | 2022 Aug

REPOSITORIES: biostudies-literature

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Publications

Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models.

Gumna Julita J Antczak Maciej M Adamiak Ryszard W RW Bujnicki Janusz M JM Chen Shi-Jie SJ Ding Feng F Ghosh Pritha P Li Jun J Mukherjee Sunandan S Nithin Chandran C Pachulska-Wieczorek Katarzyna K Ponce-Salvatierra Almudena A Popenda Mariusz M Sarzynska Joanna J Wirecki Tomasz T Zhang Dong D Zhang Sicheng S Zok Tomasz T Westhof Eric E Miao Zhichao Z Szachniuk Marta M Rybarczyk Agnieszka A

International journal of molecular sciences 20220825 17

RNA is a unique biomolecule that is involved in a variety of fundamental biological functions, all of which depend solely on its structure and dynamics. Since the experimental determination of crystal RNA structures is laborious, computational 3D structure prediction methods are experiencing an ongoing and thriving development. Such methods can lead to many models; thus, it is necessary to build comparisons and extract common structural motifs for further medical or biological studies. Here, we ...[more]

PMID: 36077037

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Dataset Information

Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models.

Publications

Computational Pipeline for Reference-Free Comparative Analysis of RNA 3D Structures Applied to SARS-CoV-2 UTR Models.

Similar Datasets

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