miRVim

Human miRNA structure database

miRVim: Human miRNA structure database

Vishal Kumar Sahu1#, Ankita Subhadarsani Parida1,2#, Amit Ranjan1,  Harishkumar Madhyastha3,Soumya Basu1*

Affiliations:

  1. Cancer and Translational Research Centre, Dr. D. Y. Patil Biotechnology and Bioinformatics Institute, Dr. D. Y. Patil Vidyapeeth, Tathawade, Pune - 411033, India
  2. Department of Bioinformatics, Central University of South Bihar, Gaya, India
  3. Department of Cardiovascular Physiology, Faculty of Medicine, University of Miyazaki, Miyazaki, 8891692, Japan.

 

 

 

Abstract

MicroRNAs (miRNAs), a distinct category of non-coding RNAs, exert multifaceted regulatory functions in a variety of organisms, including humans, animals, and plants. The inventory of identified miRNAs stands at approximately 60,000 among all species, and 1,926 in Homo sapiens manifest miRNA expression. Their theranostic role has been explored by researchers over the last few decades, positioning them as prominent therapeutic targets as our understanding of RNA targeting advances. However, the limited availability of experimentally determined miRNA structures has constrained drug discovery efforts relying on virtual screening or computational methods, including machine learning and artificial intelligence. To address this lacuna, miRVim has been developed, providing a repository of human miRNA structures derived from both two-dimensional (MXFold2, CentroidFold, and RNAFold) and three-dimensional (RNAComposer and 3dRNA) structure prediction algorithms, in addition to experimentally available structures from the RCSB PDB repository. miRVim contains 13,971 predicted secondary structures and 17,045 predicted three-dimensional structures, filling the gap of unavailability of miRNA structure data bank. This database aims to facilitate computational data analysis for drug discovery, opening new avenues for advancing technologies, such as machine learning-based predictions in the field of RNA biology. The publicly accessible structures provided by miRVim, available at https://mirna.in/miRVim, offer a valuable resource for the research community, advancing the field of miRNA-related computational analysis and drug discovery.

Citation

If you use these structures for your research kindly consider citing the following published research

  1. Sahu VK, Parida AS, Ranjan A, Madhyastha H, Basu S. miRVim: Three-dimensional miRNA Structure Database. Microrna. 2024 Aug 20. doi: 10.2174/0122115366307988240809045125. Epub ahead of print. PMID: 39171462.

Data Availability

  • Bulk data can be availed through request to the corresponding author.

Linking Structure

Structures can be linked or referred directly by using https://www.mirna.in/miRVim?q=<KEYWORD_OR_IDENTIFIER>