miSEA: microRNA set enrichment analysis

M Erdem Çorapçıoğlu; Hasan Oğul

doi:10.1016/j.biosystems.2015.05.004

miSEA: microRNA set enrichment analysis

Biosystems. 2015 Aug:134:37-42. doi: 10.1016/j.biosystems.2015.05.004. Epub 2015 Jun 17.

Authors

M Erdem Çorapçıoğlu¹, Hasan Oğul²

Affiliations

¹ Department of Computer Engineering, Baskent University, Ankara, Turkey; Department of Technology and Information Management, Baskent University, Ankara, Turkey.
² Department of Computer Engineering, Baskent University, Ankara, Turkey. Electronic address: hogul@baskent.edu.tr.

PMID: 26093049
DOI: 10.1016/j.biosystems.2015.05.004

Abstract

We introduce a novel web-based tool, miSEA, for evaluating the enrichment of relevant microRNA sets from microarray and miRNA-Seq experiments on paired samples, e.g. control vs.

Treatment: In addition to a group of previously annotated microRNA sets embedded in the system, this tool enables users to import new microRNA sets obtained from their own research. miSEA allows users to select from a large variety of microRNA grouping categories, such as family classification, disease association, common regulation, and genome coordinates, based on their requirements. miSEA therefore provides a knowledge-driven representation scheme for microRNA experiments. The usability of this platform was discerned with a cancer type-classification task performed on a set of real microRNA expression profiling experiments. The miSEA web server is available at http://www.baskent.edu.tr/∼hogul/misea.

Keywords: Gene set analysis; Microarray analysis; miRNA-Seq data analysis; microRNA expression profiling.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

MicroRNAs / genetics*

Substances

MicroRNAs