LncRRIsearch: A Web Server for lncRNA-RNA Interaction Prediction Integrated With Tissue-Specific Expression and Subcellular Localization Data

被引：81

作者：

Fukunaga, Tsukasa ^{[1
,2
]}

Iwakiri, Junichi ^{[3
,4
]}

Ono, Yukiteru ^{[5
]}

Hamada, Michiaki ^{[1
,4
,6
,7
,8
,9
]}

机构：

[1] Waseda Univ, Fac Sci & Engn, Dept Elect Engn & Biosci, Tokyo, Japan

[2] Univ Tokyo, Grad Sch Informat Sci & Technol, Dept Comp Sci, Tokyo, Japan

[3] Univ Tokyo, Grad Sch Frontier Sci, Chiba, Japan

[4] Natl Inst Adv Ind Sci & Technol, Artificial Intelligence Res Ctr, Tokyo, Japan

[5] IMSBIO Co Ltd, Tokyo, Japan

[6] Natl Inst Adv Ind Sci & Technol, Computat Bio Big Data Open Innovat Lab, Tokyo, Japan

[7] Waseda Univ, Inst Med Oriented Struct Biol, Tokyo, Japan

[8] Nippon Med Sch, Grad Sch Med, Tokyo, Japan

[9] Waseda Univ, Ctr Data Sci, Tokyo, Japan

来源：

FRONTIERS IN GENETICS | 2019年 / 10卷

关键词：

lncRNA; RNA-RNA interaction; web server; tissue-specific expression; subcellular localization; LONG NONCODING RNAS; ANNOTATION; GENE;

D O I：

10.3389/fgene.2019.00462

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

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 Rlblast, 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/.

引用

页数：6

共 30 条

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