FindTar3 Online Prediction
FindTar3 predicts miRNA targets based on the common criteria, including seed-pairing, free energy of miRNA:target duplex, and proper dynamic programming score. However, the importance of partial complementarity between miRNAs and their targets is the special concern in FindTar3, which is necessary to avoid microRNA target induced instability of microRNAs. The partial complementarity of miRNA:target duplex is presented as central loop score in FindTar3.
FindTar3 provides pre-calculated genome-wide miRNA target database in FindTarBase webpage for the comprehensive view of human, mouse and rat, or customized your miRNA and/or mRNA sequences for online target prediction. The miRNA sequence is retrieved from miRBase release 21 (June 2014) and the Refseq gene sequence is retrieved from UCSC Genome Bioinformatics.
The Effect of Central Loops in miRNA:MRE Duplexes on the Efficiency of miRNA-mediated Gene Regulation
- Wenbin Ye, Qing Lv, Chung-Kwun Amy Wong, Sean Wu, Chao Fu, Zhong Hua, Guoping Cai, Guoxi Li, Burton B. Yang, Yaou Zhang. PLoS One,3:e1719 (2008)[full text]