Co-PATHOgenex

Co-PATHOgenex constructs and analyzes gene co-expression networks to identify adaptive gene interactions and stress-response modules in bacterial pathogens.

Key Features:

• Customizable network construction: Builds gene co-expression networks from expression data using user-defined thresholds.
• Visualization tools: Provides robust visualization options for co-expression networks to aid interpretation of gene interactions and stress-response modules.
• Stress stimulon support: Includes stress stimulons for multiple bacterial species to enable identification of stress-associated gene products.
• Dataset integration: Integrates diverse datasets for joint network construction and analysis.

Scientific Applications:

• Adaptive mechanism analysis: Elucidates adaptive mechanisms of pathogenic bacteria in host environments by analyzing co-expression patterns.
• Stress-response gene discovery: Identifies novel gene products associated with specific stress stimulons and stress responses.
• Comparative stress-module analysis: Enables comparison of stress-response modules across bacterial species using integrated stress stimulons.

Methodology:

Construction of gene co-expression networks based on user-defined parameters, incorporation of diverse datasets, and generation of network visualizations.