PhDSeeker

PhDSeeker automates the synthesis of linear and branched metabolic pathways by leveraging a bio-inspired algorithm to identify relationships among multiple compounds within metabolic networks.

Key Features:

• Automatic Synthesis: Automatically identifies feasible metabolic pathways connecting multiple compounds, including linear and branched routes.
• Substrate Availability Checking: Verifies substrate availability for each reaction to ensure pathway feasibility.
• Configurable Search Parameters: Supports configurability to address diverse metabolic scenarios, enabling targeted searches and gap-filling within existing networks.

Scientific Applications:

• Pathway Elucidation: Aids in discovering how multiple compounds are interconnected within an organism's metabolism.
• Gap Filling: Identifies missing links in known metabolic pathways to complete metabolic network reconstructions.
• Novel Mechanism Discovery: Explores new synthesis mechanisms for target compounds to support biotechnological and metabolic engineering studies.

Methodology:

PhDSeeker applies a bio-inspired algorithm to synthesize metabolic pathways, identify relationships among multiple compounds, and verify substrate availability for each reaction.