tReasure

tReasure analyzes transfer RNA (tRNA) expression profiles from small RNA sequencing FASTQ data to quantify mature tRNAs, isodecoders, and isoacceptors and to identify differentially expressed tRNAs (DEtRNAs) for downstream biological interpretation.

Key Features:

• Comprehensive analysis workflow: Provides an end-to-end workflow for DEtRNA analysis including FASTQ preprocessing, adapter sequence removal, quality filtering, mapping, quantification, low-count filtering, determination of DEtRNAs, and visualization of statistical analyses.
• Quantification capabilities: Quantifies individual mature tRNAs, isodecoders, and isoacceptors with stringent mapping strategies to ensure accurate mature tRNA read counts.
• Preprocessing: Implements adapter sequence removal and filtering of poor-quality reads from small RNA sequencing FASTQ files.
• Visualization of statistical analyses: Produces visual outputs for statistical analysis of tRNA expression and differential expression results.

Scientific Applications:

• Disease association studies: Identification of DEtRNAs to investigate associations between tRNA expression profiles and diverse diseases.
• Functional studies of tRNA dynamics: Characterization of the functional implications of mature tRNA, isodecoder, and isoacceptor expression changes in biological processes and pathological conditions.

Methodology:

Preprocess small RNA sequencing FASTQ files with adapter sequence removal and filtering of poor-quality reads; map and quantify mature tRNAs, isodecoders, and isoacceptors using stringent mapping strategies; filter low-count tRNAs; determine differentially expressed tRNAs (DEtRNAs); and visualize statistical analyses.