TY - JOUR
T1 - Lncrrisearch
T2 - A web server for lncRNA-RNA interaction prediction integrated with tissue-specific expression and subcellular localization data
AU - Fukunaga, Tsukasa
AU - Iwakiri, Junichi
AU - Ono, Yukiteru
AU - Hamada, Michiaki
N1 - Funding Information:
This study was supported by MEXT/JSPS KAKENHI Grants JP16J00129 and JP17H05605 to TF; JP16K16143 to JI; and JP16H05879, JP16H01318, JP16H02484, and JP17K20032 to MH.
Publisher Copyright:
Copyright © 2019 Fukunaga, Iwakiri, Ono and Hamada. This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.
PY - 2019
Y1 - 2019
N2 - 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/.
AB - 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/.
KW - LncRNA
KW - RNA-RNA interaction
KW - Subcellular localization
KW - Tissue-specific expression
KW - Web server
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U2 - 10.3389/fgene.2019.00462
DO - 10.3389/fgene.2019.00462
M3 - Article
AN - SCOPUS:85067879361
SN - 1664-8021
VL - 10
JO - Frontiers in Genetics
JF - Frontiers in Genetics
IS - MAY
M1 - 462
ER -