DGINN

DGINN detects genetic innovations and signatures of positive selection in protein-coding genes to identify adaptive evolutionary events.

Key Features:

• Automation: Automates preliminary analytical steps from homolog retrieval through selection analyses.
• Homolog Retrieval and Orthology Assignment: Searches databases for homologous sequences and assigns sequences into orthology groups for comparative studies.
• Codon Alignment and Phylogeny Reconstruction: Performs codon alignment of gene sequences and reconstructs their phylogenies.
• Detection of Genetic Innovations: Identifies gene duplication events, detects recombination events, and detects signatures of positive selection using five distinct methods to identify and rank positively selected sites.

Scientific Applications:

• Adaptive Evolution Studies: Identifies genes and specific codon sites under positive selection to investigate adaptive evolutionary processes.
• Comparative Genomics: Supports analyses of individual gene sequences and extensive gene lists across diverse species and datasets.
• Host–Pathogen Interaction Analyses: Applicable to evolutionary analyses of genes involved in host-pathogen interactions.

Methodology:

Retrieves homologous sequences from databases, assigns sequences to orthology groups, performs codon alignment and phylogenetic reconstruction, identifies duplication and recombination events, and applies multiple (five) methods to detect and rank signatures of positive selection.