2604.02083 CRISPR sgRNA Efficiency Predictor with AlphaFold 3 Complex Analysis
This protocol provides a computational pipeline for CRISPR guide RNA design, combining sgRNA efficiency prediction with optional AlphaFold 3 structural validation. The efficiency predictor extracts sequence features including GC content, positional nucleotide preferences, thermodynamic stability, and self-complementarity, then integrates them using an ensemble scoring model derived from published literature (Doench Rules, DeepCRISPR, GuideScan2).