Table 1 Summary of lncRNA/lincRNA databases
From: Non-coding yet non-trivial: a review on the computational genomics of lincRNAs
Project Name | Species | Purpose |
|---|---|---|
Human Body Map | Human | A reference set of lincRNAs |
ChIPBase | Various (incl. Human and Mouse) | A resource for lncRNA transcriptional regulation and expression profiles of ncRNA (lncRNA, microRNAs, etc.) |
NONCODE | Various (incl. Human and Mouse) | A large lncRNA database integrating various databases and references |
lncRNAdb | Various (incl. Human and Mouse) | A database of lncRNAs having biological function or regulatory roles |
ncRNA expression database (NRED) | Human and Mouse | Expression database for human and mouse lncRNAs |
LNCipedia | Various (incl. Human and Mouse) | A large database of lncRNA transcripts and annotation |
LncRNADisease | Human | A database of lncRNAs associated with human diseases |
DIANA-LncBase | Human and Mouse | A database of experimentally verified and predicted microRNA targets on lncRNAs |
lncRNA2Target | Human and Mouse | A collection of lncRNA knockout experiments and downstream regulation |
starBase 2.0 | Human, Mouse and C. elegans | A collection of lncRNA and predicted microRNA targets; lncRNA expression profiles from TCGA data |
lncRNAMap | Human | A resource for exploring lncRNA expression profiles and interaction with small RNAs (siRNA, microRNAs, etc.) |
lncRNAWiki | Human | An open wiki style lncRNA database |
MONOCLdb | Mouse | A mouse noncoding database detailing functional enrichment of lncRNA in response to respiratory disease caused by influenza and SARS-CoV |
lncRNome | Human | A searchable database for long noncoding RNAs in humans and various properties, such as predicted structure, SNPs and epigenetic modifications |
PLncDB | Arabidopsis thaliana | A database dedicated to A. thaliana plant lncRNA transcriptome, including information on epigenetic modification |
Functional lncRNA Database | Human, Mouse and Rat | A database of experimentally validated functional lncRNAs |
lnCeDB | Human | A database of lncRNA acting as ceRNA |
Linc2GO | Human | A database of lncRNA acting as ceRNA and biological processes based on GO annotation |
lncRNASNP | Human and Mouse | A database cataloging micro-RNA interactions and SNPs in lncRNAs and their impact on secondary structure |