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MiRSEA | Discovering the pathways regulated by dysfunctional MicroRNAs

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A computational method to identify the pathways regulated by dysfunctional miRNAs. MiRSEA constructs a correlation profile of microRNA and pathways by the hypergeometric statistic test. The gene sets of pathways derived from the three public databases (Kyoto Encyclopedia of Genes and Genomes ('KEGG'); 'Reactome'; 'Biocarta') and the target gene sets of microRNA are provided by four databases ('TarBaseV6.0'; 'mir2Disease'; 'miRecords'; 'miRTarBase';). This package can quantify the change of correlation between microRNA for each pathway (or prior gene set) based on a microRNA expression data with cases and controls. MiRSEA uses the weighted Kolmogorov-Smirnov statistic to calculate an enrichment score (ES) of a microRNA set that co-regulate to a pathway, which reflects the degree to which a given pathway is associated with the specific phenotype. This package can provide the visualization of the results.

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MiRSEA classification

MiRSEA specifications

Unique identifier:
OMICS_12467
Software type:
Package/Module
Restrictions to use:
None
License:
GNU General Public License version 3.0
Version:
1.1
Requirements:
R
Name:
MicroRNA Set Enrichment Analysis
Interface:
Command line interface
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

MiRSEA distribution

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MiRSEA support

Documentation

Maintainer

  • Hasan Ogul <>

Credits

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Publications

Institution(s)

College of Bioinformatics Science and Technology, Harbin Medical University, Harbin, China; School of Medical Informatics, Daqing Campus, Harbin Medical University, Harbin, China; College of Basic Medical Science, Heilongjiang University of Chinese Medicine, Harbin, China

Funding source(s)

This work was supported in part by the National Program on Key Basic Research Project (973 program, grant no. 2014CB910504), the National Natural Science Foundation of China (grant no. 91439117, 61473106, 31401127 and 81572341), the Heilongjiang Province Education Department of Scientific Research Projects (grant no. 12541474) and Health Department of Scientific Research Projects (grant no. 2012-804).

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