RMBase v2.0 is a comprehensive database to integrate epitranscriptome sequencing data for exploring post-transcriptionally modifications of RNAs, as well as their relationships with microRNA binding events, disease-related SNPs and RNA-binding proteins (RBP). RMBase v2.0 was expanded with 566 datasets and 1 397 244 modification sites from 47 studies among 13 species, which represented about 10 times expansion when compared to the previous release. It contains ~1 373 000 N6-Methyladenosines (m6A), ~5 400 N1-Methyladenosines (m1A), ~9 600 pseudouridine (Ψ) modifications, ~1 000 5-methylcytosine (m5C) modifications, ~5 100 2′-O-methylations (2′-O-Me), and ~2 800 modifications of 100 other types.
We built two new modules called “Motif” and “modRBP”, respectively. “Motif” provides both de novo identified position weight matrices (PWMs) and visualized logos of modification motifs. And “modRBP” analyzes the relationships of RNA modifications and RNA-binding Protein (RBP). We also constructed a new web interface, "modSNV", to present the disease link between RNA modification sites and SNVs sites. In addition, we developed a noval web-based tool named "modMetagene" for plotting metagenes of RNA modifications along a transcript model.
How to cite:
RMBase v2.0: Deciphering the Map of RNA Modifications from Epitranscriptome Sequencing Data. Jia-Jia Xuan, Wen-Ju Sun, Ke-Ren Zhou, Shun Liu, Peng-Hui Lin, Ling-Ling Zheng, Liang-Hu Qu*, Jian-Hua Yang*.