Our Tools

In addition to tsRFun, we have also developed several databases and softwares to
investigate the biological functions and mechanisms of various RNA in biological processes.

RMBase V3.0

Deciphering the Map of RNA Modifications from Epitranscriptome Sequencing Data. (Xuan et al. Nucleic Acids Res. 2018 Jan 4;46(D1):D327-34.)


A database for exploring miRNA-mRNA and miRNA-ncRNA interaction maps from Argonaute and other RBP CLIP-Seq data. (Li et al. Nucleic Acids Res. 2014;42:D92-7.)

ChIPBase v2.0

Decoding transcriptional regulatory networks of non-coding RNAs and protein-coding genes from ChIP-seq data. (Zhou et al. Nucleic Acids Res. 2017 Jan 04;45(D1):D43-D50.)


DNA modification, RNA regulation and protein binding of expressed pseudogenes in human health and disease. (Zheng et al. Nucleic Acids Res. 2018 Jan 4;46(D1):D85-D91.)

deepBase v3.0

expression atlas and interactive analysis of ncRNAs from thousands of deep-sequencing data. (Xie et al. Nucleic Acids Res.2020 Nov 11;gkaa1039.)


A database of expression, classification and functions of lncRNAs in single cells. (Zheng et al. Briefings in bioinformatics. 2020 Dec 14;bbaa325.)