Inference of Network Dynamics and Metabolic Interactions in the Gut Microbiome
Fig 2
Construction of a network model of the gut microbiome from time course metagenomic genus abundance information.
Principal component analysis coefficients associated with each sample in the metagenomic genus abundance dataset was completed for A) interpolated genus abundances and B) binarized interpolated genus abundances. ‘*’ = Healthy; ‘^’ = clindamycin treated; ‘#’ = clindamycin+ C. difficile treated. C) Consensus binarization of genus abundance information. Each heatmap represents the consensus binarization for each treatment group. The horizontal axis represents the day of the experiment that the sample came from. The vertical axis represents the specific genera being modeled. Each genus was binarized to a 1 (ON; above activity threshold) or 0 (OFF; below activity threshold). D) Interaction rules were inferred from the binarized data. The interaction rules were simplified for visualization (compound rules were broken into simple one-to-one edges).