Journal Article

ncRNAppi—a tool for identifying disease-related miRNA and siRNA targeting pathways

Ka-Lok Ng, Hsueh-Chuan Liu and Shan-Chih Lee

in Bioinformatics

Volume 25, issue 23, pages 3199-3201
Published in print December 2009 | ISSN: 1367-4803
Published online October 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp574
ncRNAppi—a tool for identifying disease-related miRNA and siRNA targeting pathways

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Summary: Currently, there are a number of databases which store microRNA (miRNA) information, and tools available which provide miRNA target prediction. In this article, we describe a novel web-based tool that integrate the miRNA-targeted mRNA data, protein–protein interactions (PPI) records, tissues, biochemical pathways, human disease and gene function information to establish a disease-related miRNA target pathway database. This database is unique in the sense that it links miRNA target genes with their PPI partners according to being tissue- and diseases-specific or both. The same approach is also applied to siRNA data. This database provides two types of searches: (i) tissue- and (ii) disease-specific miRNA (or siRNA) targeting pathways. The search allows one to identify tissue- or disease-specific miRNA (or siRNA) target gene's PPI partners two levels beyond.

Availability: The release version 1.0 is a freely accessible database available at http://ncrnappi.cs.nthu.edu.tw and http://ncRNAppi.bioinfo.asia.edu.tw/

Contact: ppiddi@gmail.com; o2snow@gmail.com

Journal Article.  1299 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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