Journal
BIOINFORMATICS
Volume 31, Issue 2, Pages 290-291Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btu633
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Funding
- National Natural Sciences Foundation of China [31371328, 30971743]
- National Science and Technology Project of China [2008AA10Z125]
- Fundamental Research Funds for the Central Universities
- Program for Innovative Research Team in University
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Motivation: Small RNA sequencing and degradome sequencing (also known as parallel analysis of RNA ends) have provided rich information on the microRNA (miRNA) and its cleaved mRNA targets on a genome-wide scale in plants, but no computational tools have been developed to effectively and conveniently deconvolute the miRNA-target interaction (MTI). Results: A freely available package, MTide, was developed by combining modified miRDeep2 and CleaveLand4 with some other useful scripts to explore MTI in a comprehensive way. By searching for targets of a complete miRNAs, we can facilitate large-scale identification of miRNA targets, allowing us to discover regulatory interaction networks.
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