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
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
UR - http://www.scopus.com/inward/record.url?scp=85067879361&partnerID=8YFLogxK
UR - http://www.scopus.com/inward/citedby.url?scp=85067879361&partnerID=8YFLogxK
U2 - 10.3389/fgene.2019.00462
DO - 10.3389/fgene.2019.00462
M3 - Article
AN - SCOPUS:85067879361
VL - 10
JO - Frontiers in Genetics
JF - Frontiers in Genetics
SN - 1664-8021
IS - MAY
M1 - 462
ER -