miRU: an automated plant miRNA target prediction server

By Yuanji Zhang. Nucleic Acids Res., 2005

364 citations recorded by the source corpus.

MicroRNAs (miRNAs) play important roles in gene expression regulation in animals and plants. Since plant miRNAs recognize their target mRNAs by near-perfect base pairing, computational sequence similarity search can be used to identify potential targets. A web-based integrated computing system, miRU, has been developed for plant miRNA target gene prediction in any plant, if a large number of sequences are available. Given a mature miRNA sequence from a plant species, the system thoroughly searches for potential complementary target sites with mismatches tolerable in miRNA–target recognition. True or false positives are estimated based on the number and type of mismatches in the target site, and on the evolutionary conservation of target complementarity in another genome which can be selected according to miRNA conservation. The output for predicted targets, ordered by mismatch scores, includes complementary sequences with mismatches highlighted in colors, original gene sequences and associated functional annotations. The miRU web server is available at .

Subfields: Cancer Research, Molecular Biology, Plant Science

View Paper: https://www.semanticscholar.org/paper/dfa220f889835daedad638caba98d70e20644c8b

How researchers see this paper

The researchers whose trusted networks rank it highest, strongest advocate first. Every researcher gets a different order.

In Cancer Research

In Molecular Biology

In Plant Science

Citations in the corpus

microPrimer: the biogenesis and function of microRNA (2005, background): “, 2002), and automated plant miRNA target prediction can now be performed online (Zhang, 2005).”
TAPIR, a web server for the prediction of plant microRNA targets, including target mimics (2010, methodology): “We performed the sensitivity and specificity tests for the TAPIR fast and precise methods using various parameter values, and we also included in this test two other web tools designed for the prediction of plant miRNA targets, miRU (Zhang, 2005) and Srna target (Moxon et al.”
psRNATarget: a plant small RNA target analysis server (2011, methodology): “Zhang (19) introduced an online analysis tool, miRU, for plant miRNA target analysis.”