WHISTLE

WHISTLE maps and functionally annotates the human N6-Methyladenosine (m6A) epitranscriptome to provide transcriptome-wide predictions of m6A sites and their putative biological functions.

Key Features:

• High-accuracy prediction framework: Employs an advanced prediction framework delivering transcriptome-wide predictions of human m6A RNA-methylation sites with average AUCs of 0.948 for full transcripts and 0.880 for mature mRNAs on independent datasets.
• Functional annotation via guilt-by-association: Annotates each predicted m6A site using a guilt-by-association approach that integrates RNA methylation data with gene expression profiles and protein-protein interaction networks to infer potential biological functions.
• Functionally annotated m6A map: Produces a functionally annotated, transcriptome-wide map of human m6A modifications for downstream analysis.

Scientific Applications:

• Gene regulation and expression studies: Supports investigation of the roles of m6A modifications in regulating gene expression.
• RNA metabolism and protein interactions: Enables analysis of m6A impacts on RNA splicing, degradation, and RNA–protein interactions and their consequences for RNA metabolism and protein synthesis.
• Disease-focused research: Facilitates studies of diseases associated with aberrant m6A modification patterns.

Methodology:

Integrates RNA methylation, gene expression, and protein-protein interaction data and applies a guilt-by-association functional annotation approach; performance evaluated on independent datasets reporting AUCs of 0.948 (full transcripts) and 0.880 (mature mRNAs).