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Ψ-Atlas: An Integrated Atlas for Pseudouridine Epitranscriptome
Xiaochen Wang1,2, Jinjing Luo3,4, Xiaoqiang Lang3,5
1Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangdong Key Laboratory of Rice Science and Technology, Key Laboratory of Genetics and Breeding of High Quality Rice in Southern China (Co-construction by Ministry and Province), Ministry of Agriculture and Rural Affairs & Guangdong Rice Engineering Laboratory, Guangzhou, Guangdong 510640, China.
Genomics, Proteomics & Bioinformatics
|January 23, 2026
Summary
Pseudouridine (Ψ) is a common RNA modification enhancing RNA structure and function. The new Ψ-Atlas database provides a comprehensive resource for studying pseudouridylation across diverse RNA types and species.
Area of Science:
- Molecular Biology
- Bioinformatics
- Genomics
Background:
- Pseudouridine (Ψ) is the most abundant RNA modification, crucial for RNA structural integrity and function.
- Despite its prevalence, a centralized, intuitive database for Ψ modifications across species and RNA types is lacking.
Purpose of the Study:
- To develop and present Ψ-Atlas, a comprehensive and integrated database for RNA pseudouridine modifications.
- To provide a user-friendly platform with visualization and analytical tools for studying pseudouridylation.
Main Methods:
- Compilation of 554,895 Ψ modification sites from 78 species and various RNA categories (mRNA, ncRNA, tRNA, rRNA).
- Integration of data generated by next-generation sequencing (e.g., Ψ-Seq, Pseudo-Seq) and third-generation sequencing (Direct RNA sequencing).
- Development of an intuitive interface with analytical tools like PsiVar and PsiFinder.
Main Results:
- Ψ-Atlas is the most extensive and integrated resource for RNA pseudouridine modifications to date.
- The database covers a wide range of RNA types and species, offering a holistic view of pseudouridylation.
- Includes advanced analytical tools for in-depth pseudouridine research.
Conclusions:
- Ψ-Atlas serves as a robust search and visualization tool for the study of pseudouridylation in epitranscriptomics.
- This resource facilitates a deeper understanding of the roles and patterns of pseudouridine modifications in diverse biological contexts.
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