PMID- 23709495
OWN - NLM
STAT- MEDLINE
DCOM- 20131220
LR  - 20181202
IS  - 1367-4811 (Electronic)
IS  - 1367-4803 (Linking)
VI  - 29
IP  - 15
DP  - 2013 Aug 1
TI  - miRTCat: a comprehensive map of human and mouse microRNA target sites including 
      non-canonical nucleation bulges.
PG  - 1898-9
LID - 10.1093/bioinformatics/btt296 [doi]
AB  - SUMMARY: 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 ( approximately 15.6% as 
      expected false-positive results). AVAILABILITY: http://ion.skku.edu/mirtcat. 
      CONTACT: swchi@skku.edu SUPPLEMENTARY INFORMATION: Supplementary data are 
      available at Bioinformatics online.
FAU - Kim, Ka-Kyung
AU  - Kim KK
AD  - 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.
FAU - Ham, Juyoung
AU  - Ham J
FAU - Chi, Sung Wook
AU  - Chi SW
LA  - eng
PT  - Journal Article
PT  - Research Support, Non-U.S. Gov't
DEP - 20130524
PL  - England
TA  - Bioinformatics
JT  - Bioinformatics (Oxford, England)
JID - 9808944
RN  - 0 (3' Untranslated Regions)
RN  - 0 (MicroRNAs)
SB  - IM
MH  - *3' Untranslated Regions
MH  - Animals
MH  - Base Sequence
MH  - Conserved Sequence
MH  - Humans
MH  - Mice
MH  - MicroRNAs/*metabolism
MH  - Software
EDAT- 2013/05/28 06:00
MHDA- 2013/12/21 06:00
CRDT- 2013/05/28 06:00
PHST- 2013/05/28 06:00 [entrez]
PHST- 2013/05/28 06:00 [pubmed]
PHST- 2013/12/21 06:00 [medline]
AID - btt296 [pii]
AID - 10.1093/bioinformatics/btt296 [doi]
PST - ppublish
SO  - Bioinformatics. 2013 Aug 1;29(15):1898-9. doi: 10.1093/bioinformatics/btt296. 
      Epub 2013 May 24.