miRWalk: An online resource for prediction of microRNA binding sites

PLoS One. 2018 Oct 18;13(10):e0206239. doi: 10.1371/journal.pone.0206239. eCollection 2018.

Abstract

miRWalk is an open-source platform providing an intuitive interface that generates predicted and validated miRNA-binding sites of known genes of human, mouse, rat, dog and cow. The core of miRWalk is the miRNA target site prediction with the random-forest-based approach software TarPmiR searching the complete transcript sequence including the 5'-UTR, CDS and 3'-UTR. Moreover, it integrates results other databases with predicted and validated miRNA-target interactions. The focus is set on a modular design and extensibility as well as a fast update cycle. The database is available using Python, MySQL and HTML/Javascript Database URL: http://mirwalk.umm.uni-heidelberg.de.

MeSH terms

  • 3' Untranslated Regions
  • 5' Untranslated Regions
  • Animals
  • Binding Sites
  • Cattle
  • Databases, Genetic*
  • Dogs
  • Gene Regulatory Networks
  • Humans
  • Internet
  • Mice
  • MicroRNAs / chemistry
  • MicroRNAs / metabolism*
  • RNA, Messenger / chemistry*
  • RNA, Messenger / metabolism*
  • Rats

Substances

  • 3' Untranslated Regions
  • 5' Untranslated Regions
  • MicroRNAs
  • RNA, Messenger

Grant support

The author(s) received no specific funding for this work.