hyperTRIBER

hyperTRIBER identifies and quantifies differential adenosine-to-inosine (A-to-I) RNA editing events associated with ADAR activity from RNA-seq experiments.

Key Features:

• R package: Suite of functions implemented in R for differential RNA editing analysis and processing of HyperTRIBE RNA-seq data.
• Robust statistical framework: Models account for covariates including base-specific read coverage and total transcript expression.
• Support for ADAR–RBP experiments: Designed to analyze A-to-I edits arising from ADAR catalytic activity integrated with RNA-binding proteins (HyperTRIBE setups).
• Complex experimental design handling: Enables covariate modeling suitable for multifactor or complex experimental scenarios.
• High sensitivity: Capable of detecting editing events at low editing proportions and low transcript expression levels.

Scientific Applications:

• RBP target identification: Identification of RNA-binding protein (RBP)-bound transcripts via ADAR-catalyzed A-to-I edits.
• HyperTRIBE RNA-seq analysis: Applied to detect RNAs bound by the N6-methyladenosine (m6A) reader protein ECT2 in Arabidopsis roots using HyperTRIBE data.

Methodology:

Integrates ADAR-mediated A-to-I edits from HyperTRIBE RNA-seq and applies a statistical framework that controls for covariates such as base-specific read coverage and total transcript expression to detect differential editing, including events with low editing proportions and low expression.