MicroMap

MicroMap captures over a quarter million microbial genome-scale metabolic reconstructions as a manually curated network visualisation for human microbiome metabolism.

Key Features:

• Network Visualisation: The MicroMap contains 5064 unique reactions and 3499 unique metabolites, including for 98 drugs.
• Metabolic Capability Comparison: 257,429 visualisations were generated covering all current microbiome reconstructions to visually compare metabolic capabilities between microbes.
• Integration with Existing Platforms: The MicroMap integrates with the Virtual Metabolic Human (VMH) and the COBRA Toolbox.

Scientific Applications:

• Microbiome Metabolism Exploration: Users can explore microbiome metabolism, inspect metabolic capabilities, and visualise computational modelling results.
• Hypothesis Generation: Supports generation of mechanism-derived hypotheses along the nutrition-host-microbiome-disease axis using constraint-based reconstruction and analysis (COBRA).

Methodology:

Constraint-based reconstruction and analysis (COBRA) framework was used to generate genome-scale metabolic reconstructions, and manual curation was applied to create the network visualisation.