tRic

tRic provides a quantitative atlas of transfer RNA (tRNA) expression across 31 human cancer types by analyzing miRNA-seq data from The Cancer Genome Atlas (TCGA) to report relative tRNA gene expression at codon and amino acid levels.

Key Features:

• Comprehensive Expression Data: Quantifies tRNA gene expression at both codon and amino acid levels across 31 cancer types using miRNA-seq from TCGA.
• Clinical Correlations: Associates tRNA expression profiles with clinical features including patient smoking history, overall survival, disease stage, subtype, and grade.
• Translational Efficiency Analysis: Computes codon frequency and amino acid frequency for each protein-coding gene to link tRNA expression changes with translational efficiency.

Scientific Applications:

• Investigation of tumorigenesis: Enables exploration of the roles of tRNAs in cancer development by providing cross-cancer expression landscapes.
• Clinical outcome association studies: Supports analyses linking tRNA expression variations to clinical outcomes such as overall survival and smoking history.
• Translational control research: Facilitates study of how shifts in tRNA levels influence translational efficiency through codon and amino acid frequency analyses.

Methodology:

Analysis of miRNA-seq data from The Cancer Genome Atlas (TCGA) to quantify relative tRNA gene expression at codon and amino acid levels across 31 cancer types; computation of codon frequency and amino acid frequency per protein-coding gene; association of tRNA expression profiles with clinical features (smoking history, overall survival, stage, subtype, grade).