TRUEE; a bioinformatic pipeline to define the functional microRNA targetome of Arabidopsis.

ABSTRACT: Central to plant microRNA (miRNA) biology is the identification of functional miRNA-target interactions (MTIs). However, the complementarity basis of bioinformatic target prediction results in mostly false positives, and the degree of complementarity does not equate with regulation. Here, we develop a bioinformatic workflow named TRUEE (Targets Ranked Using Experimental Evidence) that ranks MTIs on the extent to which they are subjected to miRNA-mediated cleavage. It sorts predicted targets into high (HE) and low evidence (LE) groupings based on the frequency and strength of miRNA-guided cleavage degradome signals across multiple degradome experiments. From this, each target is assigned a numerical value, termed a Category Score, ranking the extent to which it is subjected to miRNA-mediate

SUBMITTER: Wong GY 

PROVIDER: S-EPMC9324967 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature