mimiRNA: a microRNA expression profiler and classification resource designed to identify functional correlations between microRNAs and their targets

Bioinformatics
William RitchieJohn E J Rasko

Abstract

microRNAs (miRNAs) are short non-coding RNAs that regulate gene expression by inhibiting target mRNA genes. Their tissue- and disease-specific expression patterns have immense therapeutic and diagnostic potential. To understand these patterns, a reliable compilation of miRNA and mRNA expression data is required to compare multiple tissue types. Moreover, with the appropriate statistical tools, such a resource could be interrogated to discover functionally related miRNA-mRNA pairs. We have developed mimiRNA, an online resource that integrates expression data from 1483 samples and permits visualization of the expression of 635 human miRNAs across 188 different tissues or cell types. mimiRNA incorporates a novel sample classification algorithm, ExParser, that groups identical miRNA or mRNA experiments from separate sources. This enables mimiRNA to provide reliable expression profiles and to discover functional relations between miRNAs and mRNAs such as miRNA targets. Additionally, mimiRNA incorporates a decision tree algorithm to discover distinguishing miRNA features between two tissue or cell types. We validate the efficacy of our resource on independent experimental data and through biologically relevant analyses. http://mimirn...Continue Reading

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Citations

Aug 23, 2011·Journal of Biosciences·Ashwani JhaRavi Shankar
Jun 14, 2012·Briefings in Bioinformatics·Ander MuniateguiAngel Rubio
Oct 21, 2011·Nucleic Acids Research·Dawid BielewiczWojciech M Karlowski
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Jul 5, 2015·BMC Plant Biology·Andrzej ZielezinskiWojciech M Karlowski
Feb 15, 2014·Biochemical and Biophysical Research Communications·William Ritchie, John E J Rasko
Jan 4, 2017·Briefings in Bioinformatics·Seyed Hamid Aghaee-BakhtiariPierre Lau
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Feb 8, 2019·Scientific Reports·Kamesh R Babu, Martina U Muckenthaler
Oct 24, 2020·Computers in Biology and Medicine·Fatemeh ShakerSeyed Hamid Aghaee-Bakhtiari

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