miRVim: Human miRNA structure database

miRVim: Human miRNA structure database

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

  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

Selected References

  1. Biesiada, M., Purzycka, K. J., Szachniuk, M., Blazewicz, J., & Adamiak, R. W. (2016). Automated RNA 3D Structure Prediction with RNAComposer. In D. H. Turner & D. H. Mathews (Eds.), RNA Structure Determination: Methods and Protocols (pp. 199–215). Springer. https://doi.org/10.1007/978-1-4939-6433-8_13
  2. Kozomara, A., Birgaoanu, M., & Griffiths-Jones, S. (2019). miRBase: From microRNA sequences to function. Nucleic Acids Research, 47(D1), D155–D162. https://doi.org/10.1093/nar/gky1141
  3. Mitternacht, S. (2016). FreeSASA: An open source C library for solvent accessible surface area calculations (5:189). F1000Research. https://doi.org/10.12688/f1000research.7931.1
  4. Pettersen, E. F., Goddard, T. D., Huang, C. C., Meng, E. C., Couch, G. S., Croll, T. I., Morris, J. H., & Ferrin, T. E. (2021). UCSF ChimeraX: Structure visualization for researchers, educators, and developers. Protein Science: A Publication of the Protein Society, 30(1), 70–82. https://doi.org/10.1002/pro.3943
  5. Sato, K., Akiyama, M., & Sakakibara, Y. (2021). RNA secondary structure prediction using deep learning with thermodynamic integration. Nature Communications, 12(1), Article 1. https://doi.org/10.1038/s41467-021-21194-4
  6. Soifer, H. S., Rossi, J. J., & Saetrom, P. (2007). MicroRNAs in disease and potential therapeutic applications. Molecular Therapy: The Journal of the American Society of Gene Therapy, 15(12), 2070–2079. https://doi.org/10.1038/sj.mt.6300311
  7. Wang, J., Wang, J., Huang, Y., & Xiao, Y. (2019). 3dRNA v2.0: An Updated Web Server for RNA 3D Structure Prediction. International Journal of Molecular Sciences, 20(17), Article 17. https://doi.org/10.3390/ijms20174116
  8. Zuker, M. (2003). Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Research, 31(13), 3406–3415.