MiRTCat: A comprehensive map of human and mouse microRNA target sites including non-canonical nucleation bulges

Ka Kyung Kim, Juyoung Ham, Sung Wook Chi

Research output: Contribution to journalArticle

11 Citations (Scopus)

Abstract

MicroRNAs (miRNAs) regulate various biological functions by binding hundreds of transcripts to impart post-transcriptional repression. Recently, by applying a transcriptome-wide experimental method for identifying miRNA target sites (Ago HITS-CLIP), a novel non-canonical target site, named 'nucleation bulge', was discovered as widespread, functional and evolutionally conserved. Although such non-canonical nucleation bulges have been proven to be predictive by using 'pivot pairing rule' and sequence conservation, this approach has not been applied yet. To facilitate the functional studies of non-canonical miRNA targets, we implement miRTCat: a comprehensive searchable map of miRNA target sites, including non-canonical nucleation bulges, not only mapped in experimentally verified miRNA-bound regions but also predicted in all 3′-untranslated regions (3′-UTRs) derived from human and mouse (∼15.6% as expected false-positive results).Availability: http://ion.skku.edu/mirtcat.Contact: Supplementary information: Supplementary data are available at Bioinformatics online.

Original languageEnglish
Pages (from-to)1898-1899
Number of pages2
JournalBioinformatics
Volume29
Issue number15
DOIs
Publication statusPublished - 2013 Aug 1
Externally publishedYes

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ASJC Scopus subject areas

  • Statistics and Probability
  • Biochemistry
  • Molecular Biology
  • Computer Science Applications
  • Computational Theory and Mathematics
  • Computational Mathematics

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