PE-Analyzer

PE-Analyzer analyzes outcomes of CRISPR prime editing experiments by processing high-throughput sequencing data to quantify and summarize mutations and editing efficiencies introduced by prime editing guide RNAs (pegRNAs) containing a primer binding site and a reverse-transcription template.

Key Features:

• Input data: Processes high-throughput sequencing datasets from prime editing experiments.
• Local processing: Performs analysis locally using JavaScript.
• Large-data handling: Handles multiple datasets without requiring large uploads (>100MB) to a server.
• pegRNA-aware analysis: Recognizes pegRNA components, including primer binding site and reverse-transcription template, during analysis.
• Mutation summaries: Generates comprehensive summaries of mutation-related information in tabular formats.
• Graphical outputs: Produces interactive graphical representations to visualize editing outcomes.
• Quantification: Quantifies editing efficiency and supports assessment of edit specificity.

Scientific Applications:

• Prime editing outcome evaluation: Quantitative analysis of sequencing-derived outcomes from CRISPR prime editing experiments.
• Efficiency and specificity assessment: Measurement and comparison of editing efficiency and specificity of pegRNA-mediated edits.
• Genome editing research: Support for investigations focused on precise and targeted modifications achieved through prime editing.

Methodology:

Local processing of high-throughput sequencing datasets using JavaScript with generation of tabular mutation summaries and interactive graphical representations.