AnnoGen

AnnoGen annotates base-wise Chemical Binding Energy, Sequence Information Entropy, and Homology Score across the GRCh38 reference genome to support identification of functional elements and comparative analyses.

Key Features:

• Chemical Binding Energy: Quantifies the potential energy associated with chemical interactions at each base position across GRCh38.
• Sequence Information Entropy: Calculates entropy to measure sequence variability or disorder at each base and identify regions of high information content.
• Homology Score: Captures genome-wide homology using single-base-offset tiling windows spanning 100 continuous nucleotide bases to assess sequence conservation.

Scientific Applications:

• Functional Genomics: Uses Chemical Binding Energy and Sequence Information Entropy annotations to aid identification of enhancers, promoters, and other regulatory elements.
• Comparative Genomics: Employs Homology Score to facilitate comparative studies and evaluate evolutionary conservation and divergence.
• Personalized Medicine: Provides base-level chemical binding interaction data that can inform drug target discovery and personalized therapeutic strategies.

Methodology:

Implemented in Python; annotates features across user-defined genomic regions or entire genomes; supports parallel comparisons between two sets of genomic regions to enable differential analyses.