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miRNATissueAtlas 2025: an update to the uniformly processed and annotated human and mouse non-coding RNA tissue atlas
Shusruto Rishik1, Pascal Hirsch1, Friederike Grandke1
1Clinical Bioinformatics, Center for Bioinformatics, Saarland University, 66123 Saarbrücken, Germany.
Nucleic Acids Research
|November 14, 2024
Summary
The miRNATissueAtlas 2025 offers a comprehensive resource for exploring microRNA (miRNA) expression across human and mouse tissues. This updated atlas enhances understanding of miRNA roles in diverse biological contexts and facilitates cross-species research.
Area of Science:
- Genomics
- Bioinformatics
- Molecular Biology
Background:
- MicroRNAs (miRNAs) are key regulators of gene expression with significant tissue-specific patterns.
- Existing miRNA expression data is largely concentrated in human (Homo sapiens) and mouse (Mus musculus).
- Previous miRNATissueAtlas releases provided a harmonized framework for miRNA expression data.
Purpose of the Study:
- To comprehensively update and expand the miRNATissueAtlas with the latest miRNA expression data.
- To increase the coverage of human and mouse tissues, cell lines, and extracellular vesicles.
- To enable comparative analyses between physiological tissues and cell lines, and between species.
Main Methods:
- Integrated and uniformly processed large-scale miRNA expression datasets.
- Expanded the catalog of human and mouse tissues, organs, and cell lines.
- Calculated new tissue specificity indices and facilitated cross-species comparisons.
Main Results:
- miRNATissueAtlas 2025 includes 799 billion reads from 61,593 samples for H. sapiens and M. musculus.
- The atlas now covers 74 organs and 373 tissues for H. sapiens, and expanded coverage for M. musculus.
- 35 organs overlap between species, enabling direct cross-species comparative analysis.
Conclusions:
- The updated miRNATissueAtlas 2025 is a valuable, expanded resource for miRNA research.
- It supports translational research by enabling comparisons between cell lines and physiological tissues.
- Facilitates deeper insights into miRNA function and regulation across species.
