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Updated: Jun 13, 2026

High Throughput MicroRNA Profiling: Optimized Multiplex qRT-PCR at Nanoliter Scale on the Fluidigm Dynamic ArrayTM IFCs

High Throughput MicroRNA Profiling: Optimized Multiplex qRT-PCR at Nanoliter Scale on the Fluidigm Dynamic ArrayTM IFCs

Published on: August 3, 2011

mirTools: microRNA profiling and discovery based on high-throughput sequencing.

Erle Zhu¹, Fangqing Zhao, Gang Xu

¹Institute of Genomic Medicine/Zhejiang Provincial Key Laboratory of Medical Genetics, Wenzhou, China.

Nucleic Acids Research

|May 19, 2010

Summary

Researchers developed mirTools, a web server for analyzing small RNA transcriptomes. This tool aids in filtering, aligning, classifying, annotating, and predicting microRNAs (miRNAs), facilitating miRNA research.

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Area of Science:

Bioinformatics
Molecular Biology
Genomics

Background:

MicroRNAs (miRNAs) are key regulators of gene expression involved in development and disease.
Current computational methods for small RNA transcriptome analysis lag behind technological advancements.

Purpose of the Study:

To develop a comprehensive web server, mirTools, for the characterization of small RNA transcriptomes.
To provide researchers with integrated tools for analyzing miRNA data from deep sequencing.

Main Methods:

Development of a web server integrating multiple computational approaches.
Implementation of read filtering, adapter trimming, and genome alignment.
Classification of small RNAs, annotation of known miRNAs, novel miRNA prediction, and differential expression analysis.

Main Results:

mirTools enables comprehensive analysis of small RNA sequencing data.
The server facilitates filtering, alignment, classification, annotation, novel miRNA prediction, and differential expression analysis.
Users can analyze miRNA/miRNA* counts and identify differentially expressed miRNAs.

Conclusions:

The integrated computational approaches in mirTools significantly advance microRNA research.
mirTools provides a user-friendly platform for in-depth analysis of small RNA transcriptomes.
This tool is expected to facilitate discoveries in various physiological and pathological processes involving miRNAs.