Identification of plant microRNA homologs

Authors: Dezulian, Tobias; Remmert, Michael; Palatnik, Javier F.; Weigel, Detlef; Huson, Daniel H.

Source: Bioinformatics, Volume 22, Number 3, 1 February 2006 , pp. 359-360(2)

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Abstract:

Summary: MicroRNAs (miRNAs) are a recently discovered class of non-coding RNAs that regulate gene and protein expression in plants and animals. MiRNAs have so far been identified mostly by specific cloning of small RNA molecules, complemented by computational methods. We present a computational identification approach that is able to identify candidate miRNA homologs in any set of sequences, given a query miRNA. The approach is based on a sequence similarity search step followed by a set of structural filters.

Availability: microHARVESTER is offered as a web-service and additionally as source code upon request at http://www-ab.informatik.uni-tuebingen.de/software/microHARVESTER

Contact: dezulian@informatik.uni-tuebingen.de

Document Type: Research article

DOI: http://dx.doi.org/10.1093/bioinformatics/bti802

Publication date: 2006-02-01

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The leading journal in its field, Bioinformatics publishes the highest quality scientific papers and review articles of interest to academic and industrial researchers. Its main focus is on new developments in genome bioinformatics and computational biology. Two distinct sections within the journal - Discovery Notes and Application Notes- focus on shorter papers; the former reporting biologically interesting discoveries using computational methods, the latter exploring the applications used for experiments.