title: miRTCat: a comprehensive map of human and mouse microRNA target sites including non-canonical nucleation bulges.
abstract: CONCLUSIONS
  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).
  
  
  BACKGROUND
  http://ion.skku.edu/mirtcat.
  
  
  BACKGROUND
  swchi@skku.edu
  
  
  BACKGROUND
  Supplementary data are available at Bioinformatics online.
authors.affiliation: Samsung Biomedical Research Institute, Department of Health Sciences and Technology, Samsung Advanced Institute for Health Sciences and Technology, Sungkyunkwan University and Samsung Research Institute for Future Medicine, Samsung Medical Center, 81 Irwon-ro, Gangnam-gu, Seoul 135-710, Korea.
authors.forename: Ka-Kyung
authors.initials: KK
authors.lastname: Kim
authors.forename: Juyoung
authors.initials: J
authors.lastname: Ham
authors.forename: Sung Wook
authors.initials: SW
authors.lastname: Chi
mesh_terms: D020413:3' Untranslated Regions; D000818:Animals; D001483:Base Sequence; D017124:Conserved Sequence; D006801:Humans; D051379:Mice; D035683:MicroRNAs / Q000378:metabolism*; D012984:Software
chemical_list: D020413:3' Untranslated Regions; D035683:MicroRNAs