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TRIAGE Toolkit: Streamlined Discovery of Regulatory Genes and Elements
Qiongyi Zhao1, Sophie Shen1, Yuliangzi Sun1
1Institute for Molecular Bioscience, The University of Queensland, Brisbane, Australia.
Current Protocols
|July 1, 2026
Summary
The TRIAGE methods efficiently identify regulatory genes and genomic elements crucial for understanding cell functions and diseases. This toolkit offers protocols for diverse data types, enabling rapid, scalable regulatory analysis.
Area of Science:
- Genomics
- Computational Biology
- Molecular Biology
Background:
- Discovering regulatory genes and elements is vital for comprehending cell identity, differentiation, and disease.
- The TRIAGE methods are established computational approaches for identifying context-specific regulatory genes and prioritizing genomic regulatory elements.
Purpose of the Study:
- To provide detailed protocols for applying TRIAGE methods to diverse data types.
- To enable efficient genome-wide identification and prioritization of regulatory genes and elements.
Main Methods:
- Step-by-step protocols for TRIAGE application using gene expression matrices, gene lists, and genomic loci.
- Analysis of both bulk and single-cell RNA-seq datasets.
- Genome-wide interrogation of regulatory elements at single-base resolution.
Main Results:
- TRIAGE analysis is efficient, typically completed in under 30 minutes on a personal computer.
- The TRIAGE toolkit is available as both R and Python packages for flexible, cross-platform analysis.
- Protocols cover prioritization of regulatory genes, ncRNAs, and functional genetic variants.
Conclusions:
- The TRIAGE toolkit provides a comprehensive and efficient solution for regulatory genomics analysis.
- These protocols facilitate a deeper understanding of gene regulation in various biological contexts.
- The toolkit supports scalable and flexible regulatory analysis across diverse research platforms.
