PhaseTank: genome-wide computational identification of phasiRNAs and their regulatory cascades

• DOI: 10.1093/bioinformatics/btu628
• Publication Date: 2014-09-23T02:41:35Z
• Authors: Qingli Guo; Xiongfei Qu; Weibo Jin
• Keywords: Identification; R package

Abstract Summary: Emerging evidence has revealed phased siRNAs (phasiRNAs) as important endogenous regulators in plants. However, the integrated prediction tools for phasiRNAs are still limited. In this article, we introduce a stand-alone package PhaseTank systematically characterizing and their regulatory networks. (i) It can identify phasiRNAs/tasiRNAs functional cascades (miRNA/phasiRNA→ PHAS loci→phasiRNA→target) with high sensitivity specificity. (ii) By one command analysis, it generates comprehensive annotation quantification of predicted genes from any given sequences. (iii) no restriction regards to prior information sequence homology unrestricted organism origins. Availability implementation: is free open-source tool. The available at http://phasetank.sourceforge.net/ . Contact: [e-mail] or [e-mail] Supplementary information: data Bioinformatics online.