Lncrrisearch: A web server for lncRNA-RNA interaction prediction integrated with tissue-specific expression and subcellular localization data

Tsukasa Fukunaga, Junichi Iwakiri, Yukiteru Ono, Michiaki Hamada

Research output: Contribution to journalArticle

4 Citations (Scopus)

Abstract

Long non-coding RNAs (lncRNAs) play critical roles in various biological processes, but the function of the majority of lncRNAs is still unclear. One approach for estimating a function of a lncRNA is the identification of its interaction target because functions of lncRNAs are expressed through interaction with other biomolecules in quite a few cases. In this paper, we developed “LncRRIsearch,” which is a web server for comprehensive prediction of human and mouse lncRNA-lncRNA and lncRNA-mRNA interaction. The prediction was conducted using RIblast, which is a fast and accurate RNA-RNA interaction prediction tool. Users can investigate interaction target RNAs of a particular lncRNA through a web interface. In addition, we integrated tissue-specific expression and subcellular localization data for the lncRNAs with the web server. These data enable users to examine tissue-specific or subcellular localized lncRNA interactions. LncRRIsearch is publicly accessible at http://rtools.cbrc.jp/LncRRIsearch/.

Original languageEnglish
Article number462
JournalFrontiers in Genetics
Volume10
Issue numberMAY
DOIs
Publication statusPublished - 2019

Keywords

  • LncRNA
  • RNA-RNA interaction
  • Subcellular localization
  • Tissue-specific expression
  • Web server

ASJC Scopus subject areas

  • Molecular Medicine
  • Genetics
  • Genetics(clinical)

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