MiRkwood: a tool for the reliable identification of microRNAs in plant genomes.

ABSTRACT:

Background

MicroRNAs (miRNAs) play crucial roles in post-transcriptional regulation of eukaryotic gene expression and are involved in many aspects of plant development. Although several prediction tools are available for metazoan genomes, the number of tools dedicated to plants is relatively limited.

Results

Here, we present miRkwood, a user-friendly tool for the identification of miRNAs in plant genomes using small RNA sequencing data. Deep-sequencing data of Argonaute associated small RNAs showed that miRkwood is able to identify a large diversity of plant miRNAs and limits false positive predictions. Moreover, it outperforms current tools such as ShortStack and contrary to ShortStack, miRkwood provides a quality score allowing users to rank miRNA predictions.

Conclusio

SUBMITTER: Guigon I 

PROVIDER: S-EPMC6599362 | biostudies-literature | 2019 Jun

REPOSITORIES: biostudies-literature