| The long non-coding RNAs(lncRNAs) are RNA transcripts >200 nt in length, which have little or no protein-coding capacity. LncRNAs play critical roles in multiple biological processes by interacting with different molecules including DNA, RNA and protein. Obtaining the interaction partners of an lncRNA is a primary step for lncRNA functional study. In recent years, with the development of molecular biology technology, more and more interactions about the lncRNA and other biological macromolecules such as protein have been found. However, the interactions were reported in different papers and not integrated in a database, which is not convenient to use. Therefore, the topic of this paper is to construct a database of the interactions between lncRNAs and other biological macromolecules(long non-coding RNA Interaction, lncRInter), and analyze this lncRNA interaction data.By literature search and manual collection, we obtained 922 interaction pairs for 276 lncRNAs in 16 species with experimental evidences from 510 publications. Further, we classified lncRNA interactions into seven classes(RNA–Protein, RNA–TF, RNA–RNA, RNA–DNA, DNA–Protein, DNA–TF and DNA–DNA) by their molecule types and two interaction modes(binding and regulation) by their interplay patterns. We also annotated the interactions and their molecules with essential information in the user-friendly web interface, which includes the browse, search, and submit functions. Data analysis revealed that most of proteins interacting with lncRNAs were transcription factors or chromatin modification factors. The interaction network analysis indicated that TFs can bind on the DNA or RNA level of lncRNAs to regulate gene expression. In summary, to provide comprehensive and useful lncRNA interaction data, we construct the lnc RInter database, which is a database focusing on experimentally supported lncRNA interactions. It is freely available at http://bioinfo.life.hust.edu.cn/lncRInter/. |
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