Journal
BIOINFORMATICS
Volume 27, Issue 18, Pages 2614-2615Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/btr430
Keywords
-
Categories
Funding
- National Science Foundation [DBI-0922526]
- Division Of Integrative Organismal Systems
- Direct For Biological Sciences [0922526] Funding Source: National Science Foundation
Ask authors/readers for more resources
Motivation: Ultra-deep sampling of small RNA libraries by next-generation sequencing has provided rich information on the microRNA (miRNA) transcriptome of various plant species. However, few computational tools have been developed to effectively deconvolute the complex information. Results: We sought to employ the signature distribution of small RNA reads along the miRNA precursor as a model in plants to profile expression of known miRNA genes and to identify novel ones. A freely available package, miRDeep-P, was developed by modifying miRDeep, which is based on a probabilistic model of miRNA biogenesis in animals, with a plant-specific scoring system and filtering criteria. We have tested miRDeep-P on eight small RNA libraries derived from three plants. Our results demonstrate miRDeep-P as an effective and easy-to-use tool for characterizing the miRNA transcriptome in plants.
Authors
I am an author on this paper
Click your name to claim this paper and add it to your profile.
Reviews
Recommended
No Data Available