tsRBase: a comprehensive database for expression and function of tsRNAs in multiple species.

Area of Science:

• Molecular Biology
• Genomics
• Bioinformatics

Background:

• tRNA-derived small RNAs (tsRNAs) are emerging regulatory molecules found in prokaryotes and eukaryotes.
• Existing tsRNA databases lack comprehensive organismal coverage and functional data.
• Understanding tsRNA spatiotemporal expression and function is vital for biological process exploration.

Purpose of the Study:

• To develop tsRBase, a comprehensive database integrating tsRNA expression patterns and functional characteristics.
• To provide a systematic repository for tsRNAs across multiple species.
• To facilitate further research into the biological roles of tsRNAs.

Main Methods:

• Analysis of over 14,000 public small RNA sequencing datasets.
• Identification of 121,942 tsRNAs from 20 species.
• Integration of expression data from diverse tissues, cell lines, and experimental conditions.
• Collection of experimentally validated tsRNAs, protein-binding data (CLIP/RIP-seq), and target information (CLASH, CLEAR-CLIP).

Main Results:

• tsRBase contains 121,942 identified tsRNAs from 20 species.
• The database details tsRNA expression across various biological contexts.
• Functional information, including protein interactions and validated targets, is incorporated.

Conclusions:

• tsRBase is the most extensive tsRNA repository available to date.
• It offers a systematic collection of tsRNA data from diverse sources and species.
• The database significantly enhances the exploration of tsRNA biology and function.